Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 105 of 127
Found at i:19473626 original size:21 final size:21
Alignment explanation
Indices: 19473597--19473643 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
19473587 TTTTCCTTCA
*
19473597 TTTTATTTCTTTCTTT-TTATT
1 TTTTATTTCTTT-TTTATCATT
*
19473618 TTTTTTTTCTTTTTTATCATT
1 TTTTATTTCTTTTTTATCATT
19473639 TTTTA
1 TTTTA
19473644 AGAAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTATTTCTTTTTTATCATT
Found at i:19473628 original size:17 final size:19
Alignment explanation
Indices: 19473596--19473631 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
19473586 TTTTTCCTTC
19473596 ATTTTATTTCTTTCTTTTT
1 ATTTTATTTCTTTCTTTTT
19473615 ATTTT-TTT-TTTCTTTTT
1 ATTTTATTTCTTTCTTTTT
19473632 TATCATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (19 bp):
ATTTTATTTCTTTCTTTTT
Found at i:19482613 original size:29 final size:29
Alignment explanation
Indices: 19482553--19482615 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
19482543 TTTTTTGGAC
* *
19482553 TTTTGGAGTTGGGTTGAATTTTTTAGAAT
1 TTTTGGAGTTGGGTTGAATTTCTAAGAAT
* *
19482582 TTTTGGAGTTTGGTTGAATTTCTAAG-TT
1 TTTTGGAGTTGGGTTGAATTTCTAAGAAT
19482610 TTTTGG
1 TTTTGG
19482616 GATTTTTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.54
Consensus pattern (29 bp):
TTTTGGAGTTGGGTTGAATTTCTAAGAAT
Found at i:19483049 original size:5 final size:6
Alignment explanation
Indices: 19483034--19483063 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
19483024 AGGCAATTCT
19483034 TTTTTC TTTTTC TTTTTC TTTTTC TATTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC T-TTTT
19483064 GATTTCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:19483229 original size:27 final size:26
Alignment explanation
Indices: 19483186--19483261 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 26
19483176 AAACTTTAGT
19483186 ATGA-TTTTATTATGATATTTATTAC
1 ATGATTTTTATTATGATATTTATTAC
*
19483211 ATGATTTTCTTTTATGATATTTATTAC
1 ATGATTTT-TATTATGATATTTATTAC
*
19483238 ATGATTTTTATTATAATATTTATT
1 ATGATTTTTATTATGATATTTATT
19483262 TGCATTTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 4 0.09
26 17 0.37
27 25 0.54
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (26 bp):
ATGATTTTTATTATGATATTTATTAC
Found at i:19483247 original size:14 final size:14
Alignment explanation
Indices: 19483186--19483250 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
19483176 AAACTTTAGT
19483186 ATGA-TTTTATT--
1 ATGATTTTTATTAC
*
19483197 ATGATATTTATTAC
1 ATGATTTTTATTAC
*
19483211 ATGATTTTCT-TT-T
1 ATGATTTT-TATTAC
*
19483224 ATGATATTTATTAC
1 ATGATTTTTATTAC
19483238 ATGATTTTTATTA
1 ATGATTTTTATTA
19483251 TAATATTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
11 4 0.10
12 7 0.17
13 9 0.21
14 21 0.50
15 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (14 bp):
ATGATTTTTATTAC
Found at i:19485059 original size:139 final size:139
Alignment explanation
Indices: 19484801--19485340 Score: 609
Period size: 139 Copynumber: 3.9 Consensus size: 139
19484791 TTTTTTACTT
* * * * * *
19484801 TTTTTAATTTTGTACATAATTTTGAATATGAATTCTTGTTTTTACTATGTATTGTATAAATGTAT
1 TTTTCAATTTTGTACATAGTTTTGAATATGAATTCTTATTTTTACTACGTATTGCATATATGTAT
* * * * *
19484866 TTGCATATACATTTTTATCTATATAAATATCTTTGTATGTACATTATTTCATTTGTTTAGAAGAA
66 TTGCATATACATTTTTATCCATGTAAATATTTTTATATGTACATTATTTCATTTGTTTAGGAGAA
19484931 TCTTTGCCC
131 TCTTTGCCC
* * * * *
19484940 TTTTCAATTTTGTGCATAGTTATGAATATAAATTCTTGTTGTTACTACGTATTGCATATATGTAT
1 TTTTCAATTTTGTACATAGTTTTGAATATGAATTCTTATTTTTACTACGTATTGCATATATGTAT
* * * * * * * *
19485005 TTGCAAAAACACTTTTATCTATGTAAACATTTTTATATGTACATTATTTAATTTGTTTGGGGGTA
66 TTGCATATACATTTTTATCCATGTAAATATTTTTATATGTACATTATTTCATTTGTTTAGGAG-A
*
19485070 ATCTTTG-CT
130 ATCTTTGCCC
* * * * * *
19485079 TTTTCAGTTCTGTACATAGTTTGGAATATGATTTCTTATTTTTACTATGCATTGCATATATGTAT
1 TTTTCAATTTTGTACATAGTTTTGAATATGAATTCTTATTTTTACTACGTATTGCATATATGTAT
* * * *
19485144 TTGCATATACATTTTTATCCATGTTAATATATTTATATGT-CAATTATTTCATTTATTTAGGATA
66 TTGCATATACATTTTTATCCATGTAAATATTTTTATATGTAC-ATTATTTCATTTGTTTAGGAGA
*
19485208 ATCTTTGCTC
130 ATCTTTGCCC
* * * * *
19485218 TTTTCAACTTTGTATATAGTTTTGAATATGATTTCTTATTTTTACTATC-TATAGCATACATGTA
1 TTTTCAATTTTGTACATAGTTTTGAATATGAATTCTTATTTTTACTA-CGTATTGCATATATGTA
* * * *
19485282 TTTGTATATACATTTTTTTATCCATGTAAATACTTTTGTATATACATTATTTCATTTGT
65 TTTGCATATACA--TTTTTATCCATGTAAATATTTTTATATGTACATTATTTCATTTGT
19485341 GTGGGGCAAT
Statistics
Matches: 332, Mismatches: 62, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
138 9 0.03
139 277 0.83
140 8 0.02
141 37 0.11
142 1 0.00
ACGTcount: A:0.28, C:0.10, G:0.11, T:0.51
Consensus pattern (139 bp):
TTTTCAATTTTGTACATAGTTTTGAATATGAATTCTTATTTTTACTACGTATTGCATATATGTAT
TTGCATATACATTTTTATCCATGTAAATATTTTTATATGTACATTATTTCATTTGTTTAGGAGAA
TCTTTGCCC
Found at i:19485840 original size:18 final size:20
Alignment explanation
Indices: 19485807--19485853 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
19485797 AAATTTATTT
19485807 TTAAAATAATTATATAAATA
1 TTAAAATAATTATATAAATA
19485827 TTAAAAT-A-TATATAAATA
1 TTAAAATAATTATATAAATA
*
19485845 -GAAAATAAT
1 TTAAAATAAT
19485854 AAATAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 5 0.21
18 11 0.46
19 1 0.04
20 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TTAAAATAATTATATAAATA
Found at i:19485859 original size:18 final size:19
Alignment explanation
Indices: 19485809--19485860 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
19485799 ATTTATTTTT
*
19485809 AAAATAATTATATAAATATT
1 AAAATAA-TATATAAATATG
19485829 AAAAT-ATATATAAATA-G
1 AAAATAATATATAAATATG
*
19485846 AAAATAATAAATAAA
1 AAAATAATATATAAA
19485861 CAAAACAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 5 0.17
18 18 0.62
19 1 0.03
20 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATAATATATAAATATG
Found at i:19489897 original size:6 final size:5
Alignment explanation
Indices: 19489857--19489896 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
19489847 ATTTATGAGC
*
19489857 TTTAT TTTAT TTTAT TTTAT TTCATT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTA-T TTTAT TTT
19489897 TGATGTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 22 0.69
6 10 0.31
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:19490871 original size:12 final size:12
Alignment explanation
Indices: 19490800--19490850 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
19490790 GAGCCGTTTC
*
19490800 TATTTT-TTTGG
1 TATTTTATTTAG
*
19490811 TA-TTT-TTTAT
1 TATTTTATTTAG
19490821 TATTTTATTTAG
1 TATTTTATTTAG
19490833 TATTTTATTTAGG
1 TATTTTATTTA-G
19490846 TATTT
1 TATTT
19490851 GTTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 8 0.24
11 5 0.15
12 15 0.44
13 6 0.18
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (12 bp):
TATTTTATTTAG
Found at i:19491263 original size:193 final size:193
Alignment explanation
Indices: 19490887--19491249 Score: 434
Period size: 192 Copynumber: 1.9 Consensus size: 193
19490877 ACTAAATTTG
** * *
19490887 AGAAAAAATAAAAAAATAAAAATTTTTTTTAGAATAAGTATTAATTATCCAATGATGAAATTTTT
1 AGAAAAAATAAAAAAATAAAAATTTTGGTTAGAATAAGTATTAATTATCCAATAATGAAATTCTT
* * * * * *
19490952 AGAAATTTCAAATGATAAATTTTTATAAAATTCCTAGTTGACGAATTTTGTCTTAGTTTGTCCCA
66 AGAAATTTCAAATGATAAATTTCTAAAAAATTCCTAGGTGACGAAATTTCTCTTAATTTGTCCCA
* * * * * *
19491017 AATGGTGGCATAATTTAAATAAAATTTCAATAACAATAATTAATATTTATTTTCAAACAAAAA
131 AATGATGGAAGAATTTAAATAAAATATCAAGAAAAATAATTAATATTTATTTTCAAACAAAAA
*
19491080 AGAAAAAATTAAAAAAAT-AAAATTTTGGTTA-AA-AA-TATGATAATTATCCAAATAATGAGAT
1 AGAAAAAA-TAAAAAAATAAAAATTTTGGTTAGAATAAGTAT--TAATTATCC-AATAATGAAAT
* * *
19491141 TCTTAGAAATTTCAAATGGTAAATTTCTAAAAAA-TCTTTTGGTGA-GAAATTTCT-TTAAATTT
62 TCTTAGAAATTTCAAATGATAAATTTCTAAAAAATTC-CTAGGTGACGAAATTTCTCTT-AATTT
*
19491203 GTCCCAAATGATGGAAGAATTTAAATGAAATATCAAGAAAAATAATT
125 GTCCCAAATGATGGAAGAATTTAAATAAAATATCAAGAAAAATAATT
19491250 GTCATATTAT
Statistics
Matches: 143, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
190 3 0.02
191 4 0.03
192 64 0.45
193 63 0.44
194 9 0.06
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (193 bp):
AGAAAAAATAAAAAAATAAAAATTTTGGTTAGAATAAGTATTAATTATCCAATAATGAAATTCTT
AGAAATTTCAAATGATAAATTTCTAAAAAATTCCTAGGTGACGAAATTTCTCTTAATTTGTCCCA
AATGATGGAAGAATTTAAATAAAATATCAAGAAAAATAATTAATATTTATTTTCAAACAAAAA
Found at i:19491405 original size:27 final size:28
Alignment explanation
Indices: 19491361--19491414 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
19491351 CAAATGGTGG
*
19491361 AATAATTAGATATATTTT-TGACAAAAA
1 AATAATTAAATATATTTTATGACAAAAA
* *
19491388 AATAATTAAATTTTTTTTGATGACAAA
1 AATAATTAAATATATTTT-ATGACAAA
19491415 GCCTTTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 15 0.68
29 7 0.32
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (28 bp):
AATAATTAAATATATTTTATGACAAAAA
Found at i:19498435 original size:50 final size:50
Alignment explanation
Indices: 19498313--19498459 Score: 150
Period size: 50 Copynumber: 2.9 Consensus size: 50
19498303 TAATTGCATG
* * * ***
19498313 TGCACAATTGTTCGGATCATGTATTTGCATCATTTAAAGAATTTATAAAC
1 TGCATAATTGTTTGGATCATGCATTTGCATCATTTGGGGAATTTATAAAC
* * * * *
19498363 TACATAATTGTTTAGATTATGCATTTGCATCATTTGGGGAATTTATATAT
1 TGCATAATTGTTTGGATCATGCATTTGCATCATTTGGGGAATTTATAAAC
* * *
19498413 TGCATAATTGTTTGGACCATGCATTTACATTATTTGGTGAGAATTTA
1 TGCATAATTGTTTGGATCATGCATTTGCATCATTTGG-G-GAATTTA
19498460 AATCATTGTT
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
50 70 0.90
51 1 0.01
52 7 0.09
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (50 bp):
TGCATAATTGTTTGGATCATGCATTTGCATCATTTGGGGAATTTATAAAC
Found at i:19498588 original size:71 final size:74
Alignment explanation
Indices: 19498428--19498601 Score: 189
Period size: 71 Copynumber: 2.4 Consensus size: 74
19498418 AATTGTTTGG
* * * * *
19498428 ACCATGCATTTACATTATTTGGTGAGAATTTAAATCATTGTTTTGAATATTGCATTTGCATTATT
1 ACCATGCATTTACATCATTTGGTGAGAATCTAAATCATTATTTTAAATATTGCATTTGCATCATT
* *
19498493 ATTTGTACA
66 ATGTGTAAA
*** *
19498502 A-CA--CATTTGTTTCATTTGGTGAGTATCTAAATCATTATTTTAAATATTGCATTTGCATCA-T
1 ACCATGCATTTACATCATTTGGTGAGAATCTAAATCATTATTTTAAATATTGCATTTGCATCATT
19498563 A-GT-TAAA
66 ATGTGTAAA
* *
19498570 ACCATGCATTTACATCATTTGGTAAGCATCTA
1 ACCATGCATTTACATCATTTGGTGAGAATCTA
19498602 GATTTTTTAC
Statistics
Matches: 81, Mismatches: 16, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
68 4 0.05
69 3 0.04
70 2 0.02
71 69 0.85
73 2 0.02
74 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (74 bp):
ACCATGCATTTACATCATTTGGTGAGAATCTAAATCATTATTTTAAATATTGCATTTGCATCATT
ATGTGTAAA
Found at i:19498929 original size:42 final size:41
Alignment explanation
Indices: 19498854--19499020 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 41
19498844 CTTTTTCATT
** * *
19498854 TTTTAAAAGTTTCATTGCCTCTAGTT-AGAAGAGCCTTTAAAAA
1 TTTTAAAA-TTTCAAAGCCTCTA-TTAAGGAGAGCCTTT-TAAA
* ** *
19498897 TTTTAAAATTTTAGTGCCTCTTATTAA-GAGAGCATTTTAAA
1 TTTTAAAATTTCAAAGCCTC-TATTAAGGAGAGCCTTTTAAA
*
19498938 TCTCTAAAATTTCAAAGCCTCTATTAAGGGAGAGCCTTTTAAA
1 T-TTTAAAATTTCAAAGCCTCTATTAA-GGAGAGCCTTTTAAA
* * *
19498981 TTTCTAAAATTTCAAAGCCTTTATTGAGGAAGAGTCTTTT
1 TTT-TAAAATTTCAAAGCCTCTATTAAGG-AGAGCCTTTT
19499021 TAGTTTTTTC
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
41 10 0.10
42 38 0.37
43 55 0.53
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (41 bp):
TTTTAAAATTTCAAAGCCTCTATTAAGGAGAGCCTTTTAAA
Found at i:19499020 original size:43 final size:43
Alignment explanation
Indices: 19498881--19499020 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 43
19498871 CCTCTAGTTA
* * * **
19498881 GAAGAGCCTTTAAAAAT-TTTAAAATTTTAGTGCCTCTTATTAA-
1 GAAGAGCCTTT-TAAATCTCTAAAATTTCAAAGCCTC-TATTAAG
*
19498924 G-AGAGCATTTTAAATCTCTAAAATTTCAAAGCCTCTATTAAG
1 GAAGAGCCTTTTAAATCTCTAAAATTTCAAAGCCTCTATTAAG
* * * *
19498966 GGAGAGCCTTTTAAATTTCTAAAATTTCAAAGCCTTTATTGAG
1 GAAGAGCCTTTTAAATCTCTAAAATTTCAAAGCCTCTATTAAG
*
19499009 GAAGAGTCTTTT
1 GAAGAGCCTTTT
19499021 TAGTTTTTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 10 0.12
42 24 0.29
43 48 0.59
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (43 bp):
GAAGAGCCTTTTAAATCTCTAAAATTTCAAAGCCTCTATTAAG
Found at i:19499776 original size:28 final size:28
Alignment explanation
Indices: 19499715--19499775 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
19499705 TTCTTGCTAC
*
19499715 TTTTTGGACTTTTGCAGTTGGGTTGAAT
1 TTTTTGGACTTTTGCAGTTAGGTTGAAT
* *
19499743 TTTTTGAGATTTTTGGAGTTAGGTTGAAT
1 TTTTTG-GACTTTTGCAGTTAGGTTGAAT
19499772 TTTT
1 TTTT
19499776 GGGTTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.16, C:0.03, G:0.26, T:0.54
Consensus pattern (28 bp):
TTTTTGGACTTTTGCAGTTAGGTTGAAT
Found at i:19500672 original size:27 final size:26
Alignment explanation
Indices: 19500613--19500691 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
19500603 TGCGAAATCT
*
19500613 ATATTTATTACATGATTTTTATTATA
1 ATATTTATTAAATGATTTTTATTATA
* *
19500639 ATATTTATTTGAATGATTTTTATTATGG
1 ATATTTA-TTAAATGATTTTTATTAT-A
* *
19500667 AT-TTTATTAAATGATTATTCTTATA
1 ATATTTATTAAATGATTTTTATTATA
19500692 TGATTTTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 22 0.50
27 20 0.45
28 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.57
Consensus pattern (26 bp):
ATATTTATTAAATGATTTTTATTATA
Found at i:19502194 original size:5 final size:5
Alignment explanation
Indices: 19502174--19502207 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
19502164 CTTTAAAAAA
* *
19502174 CTTTC TTTTA CTTTC CTTTC CTTTC CTTTC CTTT
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTT
19502208 ATTAATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (5 bp):
CTTTC
Found at i:19502496 original size:19 final size:19
Alignment explanation
Indices: 19502472--19502516 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
19502462 TCTCTCTCGT
19502472 TCTTTTTGCTTTCACTTTC
1 TCTTTTTGCTTTCACTTTC
19502491 TCTTTTTGCTTTCACTTTC
1 TCTTTTTGCTTTCACTTTC
19502510 TCTTTTT
1 TCTTTTT
19502517 TTCCTCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (19 bp):
TCTTTTTGCTTTCACTTTC
Found at i:19504806 original size:2 final size:2
Alignment explanation
Indices: 19504801--19504826 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19504791 AAATATTTTT
19504801 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
19504827 GGGAGAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19505172 original size:29 final size:29
Alignment explanation
Indices: 19505118--19505191 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
19505108 ATAGTAATCA
* *
19505118 ATCAAATTGAATACTTAAAATTTATTTTT
1 ATCAAATTGAATACTTAAAATATATTTTC
*
19505147 ATCGAATTGAA-ACTTAAATATATATTTTC
1 ATCAAATTGAATACTTAAA-ATATATTTTC
*
19505176 ATCAAATTAAATACTT
1 ATCAAATTGAATACTT
19505192 TAACATTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 7 0.18
29 27 0.71
30 4 0.11
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (29 bp):
ATCAAATTGAATACTTAAAATATATTTTC
Found at i:19505442 original size:10 final size:11
Alignment explanation
Indices: 19505421--19505456 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
19505411 AAATTTTAAA
19505421 TTATATTATTT
1 TTATATTATTT
19505432 TTATA-TATTT
1 TTATATTATTT
19505442 TTATATTATTT
1 TTATATTATTT
19505453 TTAT
1 TTAT
19505457 CACATTAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATATTATTT
Found at i:19507160 original size:2 final size:2
Alignment explanation
Indices: 19507153--19507177 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19507143 AAACCACTAA
19507153 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19507178 AGAAAAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19514633 original size:15 final size:15
Alignment explanation
Indices: 19514599--19514631 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
19514589 CTCAAAATGC
*
19514599 TTTTGGAAATTTTTA
1 TTTTAGAAATTTTTA
19514614 TTTTAGAAA-TTTTA
1 TTTTAGAAATTTTTA
19514628 TTTT
1 TTTT
19514632 TAAGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTTAGAAATTTTTA
Found at i:19514692 original size:59 final size:58
Alignment explanation
Indices: 19514614--19514806 Score: 244
Period size: 58 Copynumber: 3.3 Consensus size: 58
19514604 GAAATTTTTA
* *
19514614 TTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTTAAAATATT
1 TTTTACAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATT
* * * **
19514672 TTTCTTCAAGTTTTATTTTTAAGAAAAATTGATACTTTTAACTTTTT-TTAAAAAATAAA
1 TTT-TACAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTT-AAAAATATT
* ** * *
19514731 TTTTAGAAATTTTATTTTCGAGAAAAATTGACACTTTCAACTTTTTCTCAAAAATATT
1 TTTTACAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATT
*
19514789 TTTTAAAAATTTTATTTT
1 TTTTACAAATTTTATTTT
19514807 ATATATATTT
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
58 65 0.57
59 49 0.43
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (58 bp):
TTTTACAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATT
Found at i:19514740 original size:132 final size:129
Alignment explanation
Indices: 19514492--19514748 Score: 331
Period size: 132 Copynumber: 2.0 Consensus size: 129
19514482 ATTTAGAGGT
* * *
19514492 TTTTATTTTAAAGAAAATTGATATTTTCAACTTTTCTTTAAAAATATTTTTCTTGATAATTTTTA
1 TTTTATTTTAAAGAAAATTGATACTTTCAACTTTTCTTTAAAAATATTTTTCTT-ACAAGTTTTA
* * ** *
19514557 TTTTTAAAGAAAATTGATAGTTTCAACTTTTTCTCAAAATGCTTTTGGAAATTTTTATTTTAGAA
65 TTTTTAAAGAAAATTGATACTTTCAACTTTTTCTAAAAATAATTTTAGAAA-TTTTATTTTAGAA
19514622 A
129 A
*
19514623 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTT-AAAATATTTTTCTT-CAAGTTTT
1 TTTTATTTTAAAG-AAAATTGATACTTTCAAC-TTTTCTTTAAAAATATTTTTCTTACAAGTTTT
* *
19514686 ATTTTT-AAGAAAAATTGATACTTTTAACTTTTTTTAAAAAATAAATTTTAGAAATTTTATTTT
64 ATTTTTAAAG-AAAATTGATACTTTCAACTTTTTCT-AAAAAT-AATTTTAGAAATTTTATTTT
19514749 CGAGAAAAAT
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
129 3 0.03
130 34 0.31
131 26 0.24
132 39 0.35
133 8 0.07
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (129 bp):
TTTTATTTTAAAGAAAATTGATACTTTCAACTTTTCTTTAAAAATATTTTTCTTACAAGTTTTAT
TTTTAAAGAAAATTGATACTTTCAACTTTTTCTAAAAATAATTTTAGAAATTTTATTTTAGAAA
Found at i:19514804 original size:16 final size:16
Alignment explanation
Indices: 19514785--19514833 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
19514775 TTCTCAAAAA
19514785 TATTTTTTAAAAATTT
1 TATTTTTTAAAAATTT
* * *
19514801 TATTTTATATATATTT
1 TATTTTTTAAAAATTT
*
19514817 TATTCTTTTTAAAATTT
1 TATT-TTTTAAAAATTT
19514834 ATTCATGCAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTTAAAAATTT
Found at i:19515798 original size:7 final size:6
Alignment explanation
Indices: 19515761--19515826 Score: 50
Period size: 5 Copynumber: 11.0 Consensus size: 6
19515751 TCATATTATC
*
19515761 TAAAAA T-AAAA TAAATAA TAACAATA AAAAAA TCAAAAA T-AAAA TAAAAA
1 TAAAAA TAAAAA TAAA-AA TAA-AA-A TAAAAA T-AAAAA TAAAAA TAAAAA
*
19515811 T-AGAA T-AAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA
19515827 ACAAACAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
5 18 0.37
6 13 0.27
7 14 0.29
8 4 0.08
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:19515801 original size:21 final size:20
Alignment explanation
Indices: 19515768--19515810 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
19515758 ATCTAAAAAT
19515768 AAAATAAATAATAACAATAAA
1 AAAATAAATAATAA-AATAAA
19515789 AAAATCAAA-AATAAAATAAA
1 AAAAT-AAATAATAAAATAAA
19515809 AA
1 AA
19515811 TAGAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 10 0.48
22 3 0.14
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAATAAATAATAAAATAAA
Found at i:19515820 original size:28 final size:28
Alignment explanation
Indices: 19515768--19515827 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
19515758 ATCTAAAAAT
* *
19515768 AAAATAAATAATAACAATAAAAAAATCA
1 AAAATAAATAATAAAAATAAAAAAATAA
19515796 AAAAT-AA-AATAAAAATAGAATAAAATAA
1 AAAATAAATAATAAAAATA-AA-AAAATAA
19515824 AAAA
1 AAAA
19515828 CAAACAGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 9 0.32
27 4 0.14
28 15 0.54
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (28 bp):
AAAATAAATAATAAAAATAAAAAAATAA
Found at i:19516186 original size:85 final size:85
Alignment explanation
Indices: 19516009--19516236 Score: 291
Period size: 85 Copynumber: 2.7 Consensus size: 85
19515999 ATTAAACAAA
* * * *
19516009 GCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAATAAAGCTCCTCTAAATAGAGGCTCAA
1 GCTCCTCTAAACAGAGGCACAACAACTTTTGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAA
*
19516074 CGACTTTACGAAAAATAAAT
66 CGACTTTACAAAAAATAAAT
* * * *
19516094 GCTCCTCTAAATAGAGGCACAACGAC-TTTGAAAATAGACAAAGCTCCTCTAAACATAGGCTCAA
1 GCTCCTCTAAACAGAGGCACAACAACTTTTGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAA
* *
19516158 CTACTTTGCAAAAAATAAATT
66 CGACTTTACAAAAAATAAA-T
* **
19516179 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAA-ATAA-ATTGCTCCTCTAAACAGAG
1 GCTCCTCTAAACAGAGGCACAACAACTTTTGAAAATA-AACAAAGCTCCTCTAAACAGAG
19516237 ACACCATAAC
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
84 49 0.40
85 64 0.52
86 9 0.07
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (85 bp):
GCTCCTCTAAACAGAGGCACAACAACTTTTGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAA
CGACTTTACAAAAAATAAAT
Found at i:19516230 original size:127 final size:126
Alignment explanation
Indices: 19516004--19516236 Score: 326
Period size: 127 Copynumber: 1.8 Consensus size: 126
19515994 TTTTTATTAA
* *
19516004 ACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAATAAATAAAGCTCCTCTAAATAGAGG
1 ACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAATAAAT-AAGCTCCTCTAAACAGAGG
* * *
19516069 CTCAACGACTTTACGAAAAATAAATGCTCCTCTAAATAGAGGCACAACGACTTTGAAAATAG
65 CACAACAACTTTACGAAAAATAAATGCTCCTCTAAACAGAGGCACAACGACTTTGAAAATAG
* * *
19516131 ACAAAGCTCCTCTAAACATAGGCTCAACTACTTTGCAAAAAATAAAT-TGCTCCTCTAAACAGAG
1 ACAAAGCTCCTCTAAACAGAGGCTCAACAACTTT--AAAAAATAAATAAGCTCCTCTAAACAGAG
* *
19516195 GCACCACAACTTT-TGAAAAATAAATTGCTCCTCTAAACAGAG
64 GCACAACAACTTTACGAAAAATAAA-TGCTCCTCTAAACAGAG
19516237 ACACCATAAC
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
126 10 0.11
127 73 0.78
129 10 0.11
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (126 bp):
ACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTAAAAAATAAATAAGCTCCTCTAAACAGAGGC
ACAACAACTTTACGAAAAATAAATGCTCCTCTAAACAGAGGCACAACGACTTTGAAAATAG
Found at i:19516242 original size:42 final size:42
Alignment explanation
Indices: 19516009--19516262 Score: 250
Period size: 42 Copynumber: 6.0 Consensus size: 42
19515999 ATTAAACAAA
* *
19516009 GCTCCTCTAAACAGAGGCTCAACAACTTTT-AAAAATAAATAAA
1 GCTCCTCTAAACAGAGGCACAACAACTTTTGAAAAATAAAT--T
* * * *
19516052 GCTCCTCTAAATAGAGGCTCAACGACTTTACGAAAAATAAA-T
1 GCTCCTCTAAACAGAGGCACAACAACTTT-TGAAAAATAAATT
* * **
19516094 GCTCCTCTAAATAGAGGCACAACGAC-TTTG-AAAATAGACAAA
1 GCTCCTCTAAACAGAGGCACAACAACTTTTGAAAAATA-A-ATT
* * *
19516136 GCTCCTCTAAACATAGGCTCAACTAC-TTTGCAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACAACAACTTTTG--AAAAATAAATT
*
19516179 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACAACAACTTTTGAAAAATAAATT
* * *
19516221 GCTCCTCTAAACAGAGACACCATAACTTTTG-AAAATAAATT
1 GCTCCTCTAAACAGAGGCACAACAACTTTTGAAAAATAAATT
19516262 G
1 G
19516263 GTCTTTGACG
Statistics
Matches: 183, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
39 6 0.03
40 2 0.01
41 14 0.08
42 91 0.50
43 50 0.27
44 5 0.03
45 15 0.08
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACAACAACTTTTGAAAAATAAATT
Found at i:19516714 original size:113 final size:114
Alignment explanation
Indices: 19516541--19516888 Score: 574
Period size: 114 Copynumber: 3.1 Consensus size: 114
19516531 AATTCAAAGG
* *
19516541 TTCACATTCAATAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCACTCAAAAATTTTGAG
1 TTCACATTCAAGAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCACTCAAAAATTTAGAG
* * *
19516606 ATTTGCATCTAAAAGTTGAGCTCAAAGCTTTTCATTTGAATTTTGGAGA
66 ATTCGCATCCAAAAGTTGAGTTCAAAGCTTTTCATTTGAATTTTGGAGA
19516655 TTCACATTCAAGAAATCTTAGAG-TTCACATCTAAGTTCAAAGGTTCTCACT-AAACAATTTAGA
1 TTCACATTCAAGAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCACTCAAA-AATTTAGA
** *
19516718 GATTCGCATCCAAAAAATGAGTTTAAAGCTTTTCATTTGAATTTTGGAGA
65 GATTCGCATCCAAAAGTTGAGTTCAAAGCTTTTCATTTGAATTTTGGAGA
19516768 TTCACATTCAAGAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCACTCAAAAATTTAGAG
1 TTCACATTCAAGAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCACTCAAAAATTTAGAG
** *
19516833 ATTCGCATCCAAAAGTTGAGTTCAAAGCTTTTTGTTTAAATTTTGGAGA
66 ATTCGCATCCAAAAGTTGAGTTCAAAGCTTTTCATTTGAATTTTGGAGA
19516882 TTCACAT
1 TTCACAT
19516889 CCAAAAGTTT
Statistics
Matches: 217, Mismatches: 14, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
112 3 0.01
113 102 0.47
114 109 0.50
115 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (114 bp):
TTCACATTCAAGAAATCTTAGAGTTTCACATCTAAGTTCAAAGGTTCTCACTCAAAAATTTAGAG
ATTCGCATCCAAAAGTTGAGTTCAAAGCTTTTCATTTGAATTTTGGAGA
Found at i:19517021 original size:38 final size:38
Alignment explanation
Indices: 19516977--19517098 Score: 104
Period size: 38 Copynumber: 3.1 Consensus size: 38
19516967 TTTGAATTCG
19516977 AAGATTCACATTCGATAAAATTTGGATTTCACACCTCA
1 AAGATTCACATTCGATAAAATTTGGATTTCACACCTCA
* * ** * * *
19517015 AAGATTCTCATTTGAAATTCAAAAATTTTCATTTGA-A-TTCG
1 AAGATTCACATTCG--A-T--AAAATTTGGATTTCACACCTCA
**
19517056 AAGATTCACATTCGATAATTTTTGGATTTCACACCTCA
1 AAGATTCACATTCGATAAAATTTGGATTTCACACCTCA
19517094 AAGAT
1 AAGAT
19517099 CCTCATTTGA
Statistics
Matches: 61, Mismatches: 16, Indels: 14
0.67 0.18 0.15
Matches are distributed among these distances:
36 10 0.16
37 1 0.02
38 20 0.33
39 1 0.02
40 1 0.02
41 15 0.25
42 1 0.02
43 12 0.20
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (38 bp):
AAGATTCACATTCGATAAAATTTGGATTTCACACCTCA
Found at i:19517056 original size:79 final size:79
Alignment explanation
Indices: 19516954--19517226 Score: 420
Period size: 79 Copynumber: 3.4 Consensus size: 79
19516944 GTTTCACATA
*
19516954 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGATAAAATTTGGATTTCACACCTCAAAGA
1 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGATTTCACACCTCAAAGA
19517019 TTCTCATTTGAAAT
66 TTCTCATTTGAAAT
* * *
19517033 TCAAAAATTTTCATTTGAATTCGAAGATTCACATTCGATAATTTTTGGATTTCACACCTCAAAGA
1 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGATTTCACACCTCAAAGA
*
19517098 TCCTCATTTGAAAT
66 TTCTCATTTGAAAT
* * * *
19517112 TCAAATATTCTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGGTCTCACATCTCAAAGA
1 TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGATTTCACACCTCAAAGA
19517177 TTCTCATTTGAAAT
66 TTCTCATTTGAAAT
* * * *
19517191 TCAATGATTCTCATTTGAGGTTCAAAGATTCTCATT
1 TCAAAGATTCTCATTTGA-ATTCGAAGATTCACATT
19517227 TGACACTCAA
Statistics
Matches: 176, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
79 162 0.92
80 14 0.08
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (79 bp):
TCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGGATTTCACACCTCAAAGA
TTCTCATTTGAAAT
Found at i:19517067 original size:20 final size:21
Alignment explanation
Indices: 19517012--19517067 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
19517002 ATTTCACACC
19517012 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* *
19517033 TCAAAAATTTTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
* *
19517053 TCGAAGATTCACATT
1 TCAAAGATTCTCATT
19517068 CGATAATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:19517115 original size:21 final size:20
Alignment explanation
Indices: 19517091--19517139 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
19517081 ATTTCACACC
19517091 TCAAAGATCCTCATTTGAAAT
1 TCAAAGATCCTCATTTG-AAT
* *
19517112 TCAAATATTCTCATTTGAAT
1 TCAAAGATCCTCATTTGAAT
*
19517132 TCGAAGAT
1 TCAAAGAT
19517140 TCACATTCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (20 bp):
TCAAAGATCCTCATTTGAAT
Found at i:19517141 original size:20 final size:21
Alignment explanation
Indices: 19517091--19517146 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
19517081 ATTTCACACC
*
19517091 TCAAAGATCCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
19517112 TCAAATATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
* *
19517132 TCGAAGATTCACATT
1 TCAAAGATTCTCATT
19517147 CGATAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:19517199 original size:21 final size:21
Alignment explanation
Indices: 19517170--19517465 Score: 167
Period size: 21 Copynumber: 14.0 Consensus size: 21
19517160 GTCTCACATC
19517170 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* **
19517191 TCAATGATTCTCATTTGAGGT
1 TCAAAGATTCTCATTTGAAAT
* *
19517212 TCAAAGATTCTCATTTGACAC
1 TCAAAGATTCTCATTTGAAAT
*
19517233 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
19517254 TCAAAAATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
* *
19517274 TTAAAGATTCACATTT--AA-
1 TCAAAGATTCTCATTTGAAAT
* * * **
19517292 -C-AA-ATTTTGAGTTTCACACC
1 TCAAAGATTCTCA-TTTGA-AAT
*
19517312 TCAAAGATGCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* * * *
19517333 TTAAAGATTCTTATTTGACAC
1 TCAAAGATTCTCATTTGAAAT
19517354 TCAAAGATTCTCATTTTGAAACAT
1 TCAAAGATTCTCA-TTTG-AA-AT
* *
19517378 CTTAAAGATTCTCATTT-AAGAC
1 -TCAAAGATTCTCATTTGAA-AT
* * *
19517400 TAAAAGATTTTTATTTGAAAAT
1 TCAAAGATTCTCATTTG-AAAT
* * * *
19517422 GTCTTAAAGATTTTTATTTAAAAC
1 -TC--AAAGATTCTCATTTGAAAT
* *
19517446 TCAAATATTCTTATTTGAAA
1 TCAAAGATTCTCATTTGAAA
19517466 ACATCTTAAA
Statistics
Matches: 210, Mismatches: 48, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
15 4 0.02
16 5 0.02
19 3 0.01
20 16 0.08
21 125 0.60
22 14 0.07
23 10 0.05
24 7 0.03
25 26 0.12
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:19517316 original size:100 final size:104
Alignment explanation
Indices: 19517212--19517396 Score: 261
Period size: 100 Copynumber: 1.8 Consensus size: 104
19517202 CATTTGAGGT
* * *
19517212 TCAAAGATTCTCATTTGACACTCAAAGATTCTTATTTGAAATTCAAAAATTCTCA-TTTG-A-AT
1 TCAAAGATGCTCATTTGAAACTCAAAGATTCTTATTTGAAACTCAAAAATTCTCATTTTGAACAT
19517274 -TTAAAGATTCACATTTAACAAATTTTGAGTTTCACACC
66 CTTAAAGATTCACATTTAACAAATTTTGAGTTTCACACC
* * * *
19517312 TCAAAGATGCTCATTTGAAATTTAAAGATTCTTATTTGACACTCAAAGATTCTCATTTTGAAACA
1 TCAAAGATGCTCATTTGAAACTCAAAGATTCTTATTTGAAACTCAAAAATTCTCATTTTG-AACA
*
19517377 TCTTAAAGATTCTCATTTAA
65 TCTTAAAGATTCACATTTAA
19517397 GACTAAAAGA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
100 48 0.67
101 4 0.06
103 1 0.01
104 2 0.03
105 17 0.24
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (104 bp):
TCAAAGATGCTCATTTGAAACTCAAAGATTCTTATTTGAAACTCAAAAATTCTCATTTTGAACAT
CTTAAAGATTCACATTTAACAAATTTTGAGTTTCACACC
Found at i:19517349 original size:142 final size:143
Alignment explanation
Indices: 19517081--19517369 Score: 400
Period size: 142 Copynumber: 2.0 Consensus size: 143
19517071 TAATTTTTGG
* *
19517081 ATTTCACACCTCAAAGATCCTCATTTGAAATTCAAATATTCTCATTTGAATTCGAAGATTCACAT
1 ATTTCACACCTCAAAGATCCTCATTTGAAATTCAAAAATTCTCATTTGAATTCAAAGATTCACAT
* * * * * * **
19517146 TCGATAAATTTTGGGTCTCACATCTCAAAGATTCTCATTTGAAATTCAATGATTCTCATTTGAGG
66 TCAACAAATTTTGAGTCTCACACCTCAAAGATGCTCATTTGAAATTCAAAGATTCTCATTTGACA
*
19517211 TTCAAAGATTCTC
131 CTCAAAGATTCTC
* * * *
19517224 ATTTGACA-CTCAAAGATTCTTATTTGAAATTCAAAAATTCTCATTTGAATTTAAAGATTCACAT
1 ATTTCACACCTCAAAGATCCTCATTTGAAATTCAAAAATTCTCATTTGAATTCAAAGATTCACAT
* * * *
19517288 TTAACAAATTTTGAGTTTCACACCTCAAAGATGCTCATTTGAAATTTAAAGATTCTTATTTGACA
66 TCAACAAATTTTGAGTCTCACACCTCAAAGATGCTCATTTGAAATTCAAAGATTCTCATTTGACA
19517353 CTCAAAGATTCTC
131 CTCAAAGATTCTC
19517366 ATTT
1 ATTT
19517370 TGAAACATCT
Statistics
Matches: 127, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
142 120 0.94
143 7 0.06
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (143 bp):
ATTTCACACCTCAAAGATCCTCATTTGAAATTCAAAAATTCTCATTTGAATTCAAAGATTCACAT
TCAACAAATTTTGAGTCTCACACCTCAAAGATGCTCATTTGAAATTCAAAGATTCTCATTTGACA
CTCAAAGATTCTC
Found at i:19517385 original size:25 final size:23
Alignment explanation
Indices: 19517314--19517486 Score: 110
Period size: 21 Copynumber: 7.6 Consensus size: 23
19517304 TTCACACCTC
*
19517314 AAAGATGCTCATTTGAA-AT-TT
1 AAAGATTCTCATTTGAACATCTT
* *
19517335 AAAGATTCTTATTTG-ACA-CTC
1 AAAGATTCTCATTTGAACATCTT
19517356 AAAGATTCTCATTTTGAAACATCTT
1 AAAGATTCTCA-TTTG-AACATCTT
* *
19517381 AAAGATTCTCATTT-AAGA-CTA
1 AAAGATTCTCATTTGAACATCTT
* * *
19517402 AAAGATTTTTATTTGAAAATGTCTT
1 AAAGATTCTCATTTGAACA--TCTT
* * * *
19517427 AAAGATTTTTATTT-AA-AACTC
1 AAAGATTCTCATTTGAACATCTT
* *
19517448 AAATATTCTTATTTGAAAACATCTT
1 AAAGATTCTCATTTG--AACATCTT
19517473 AAAGATTCTCATTT
1 AAAGATTCTCATTT
19517487 AAGACTCAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 24
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.01
21 53 0.45
22 10 0.08
23 1 0.01
24 10 0.08
25 44 0.37
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (23 bp):
AAAGATTCTCATTTGAACATCTT
Found at i:19517386 original size:46 final size:44
Alignment explanation
Indices: 19517311--19517496 Score: 196
Period size: 46 Copynumber: 4.1 Consensus size: 44
19517301 AGTTTCACAC
* * * *
19517311 CTCAAAGATGCTCATTTG-AAAT-TTAAAGATTCTTATTTGACA
1 CTCAAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTAAGA
19517353 CTCAAAGATTCTCATTTTGAAACATCTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCA-TTTGAAA-ATCTTAAAGATTCTCATTTAAGA
* * * * * *
19517399 CTAAAAGATTTTTATTTGAAAATGTCTTAAAGATTTTTATTTAAAA
1 CTCAAAGATTCTCATTTGAAAA--TCTTAAAGATTCTCATTTAAGA
* *
19517445 CTCAAATATTCTTATTTGAAAACATCTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTG-AAA-ATCTTAAAGATTCTCATTTAAGA
19517491 CTCAAA
1 CTCAAA
19517497 ACTTCATCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
42 13 0.11
43 4 0.03
44 3 0.03
45 9 0.08
46 87 0.73
47 3 0.03
48 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (44 bp):
CTCAAAGATTCTCATTTGAAAATCTTAAAGATTCTCATTTAAGA
Found at i:19518589 original size:24 final size:23
Alignment explanation
Indices: 19518562--19518641 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
19518552 CTTTTTTCCA
19518562 TTCTTTCATCTTTCTCTTTTTTTT
1 TTCTTTCATCTTT-TCTTTTTTTT
**
19518586 TTCTTTTTTCTCTTTCTTTTTTTT
1 TTCTTTCATCT-TTTCTTTTTTTT
*
19518610 CTCTTT--T-TTTTCTTTTTTTT
1 TTCTTTCATCTTTTCTTTTTTTT
19518630 TCATCTTTCATC
1 T--TCTTTCATC
19518642 CATTGGTGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
20 12 0.26
21 1 0.02
22 6 0.13
24 25 0.54
25 2 0.04
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (23 bp):
TTCTTTCATCTTTTCTTTTTTTT
Found at i:19518594 original size:9 final size:9
Alignment explanation
Indices: 19518576--19518629 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 9
19518566 TTCATCTTTC
19518576 TCTTTTTTT
1 TCTTTTTTT
19518585 T-TTCTTTTT
1 TCTT-TTTTT
* *
19518594 TCTCTTTCT
1 TCTTTTTTT
*
19518603 T-TTTTTTC
1 TCTTTTTTT
19518611 TCTTTTTTT
1 TCTTTTTTT
19518620 TCTTTTTTT
1 TCTTTTTTT
19518629 T
1 T
19518630 TCATCTTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 7 0.19
9 28 0.78
10 1 0.03
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:19518594 original size:37 final size:37
Alignment explanation
Indices: 19518539--19518641 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 37
19518529 TTGAGTCTTT
19518539 TTTTTTTTTTCATCTTTTTTCCATTCTTTCATCTTTCTC
1 TTTTTTTTTTC-T-TTTTTTCCATTCTTTCATCTTTCTC
* *
19518578 TTTTTTTTTTC-TTTTTTCTCTTTCTTT--TTTTTCTC
1 TTTTTTTTTTCTTTTTTTC-CATTCTTTCATCTTTCTC
19518613 TTTTTTTTCTT-TTTTTTT-CA-TCTTTCATC
1 TTTTTTTT-TTCTTTTTTTCCATTCTTTCATC
19518642 CATTGGTGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
33 5 0.09
34 1 0.02
35 16 0.29
36 15 0.27
37 7 0.13
39 11 0.20
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (37 bp):
TTTTTTTTTTCTTTTTTTCCATTCTTTCATCTTTCTC
Found at i:19518595 original size:20 final size:21
Alignment explanation
Indices: 19518572--19518637 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 21
19518562 TTCTTTCATC
19518572 TTTCTCTTTTTTTTT-TCTTT
1 TTTCTCTTTTTTTTTCTCTTT
19518592 TTTCTCTTTCTTTTTTTTCTCTTT
1 TTTCTC--T-TTTTTTTTCTCTTT
*
19518616 TTTTTCTTTTTTTTTCATCTTT
1 TTTCTCTTTTTTTTTC-TCTTT
19518638 CATCCATTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
20 6 0.15
21 9 0.22
22 7 0.17
23 8 0.20
24 10 0.25
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTCTCTTTTTTTTTCTCTTT
Found at i:19519605 original size:17 final size:17
Alignment explanation
Indices: 19519583--19519626 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
19519573 TTTATATTTG
*
19519583 TTATTATTATGTTATCA
1 TTATTATTATATTATCA
*
19519600 TTATTATTATATTATTA
1 TTATTATTATATTATCA
*
19519617 TTATCATTAT
1 TTATTATTAT
19519627 CATTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (17 bp):
TTATTATTATATTATCA
Found at i:19519755 original size:10 final size:10
Alignment explanation
Indices: 19519740--19519771 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
19519730 AGTATTATTA
19519740 TTTTTCTTTT
1 TTTTTCTTTT
19519750 TTTTTCTTTT
1 TTTTTCTTTT
*
19519760 TCTTTCTTTT
1 TTTTTCTTTT
19519770 TT
1 TT
19519772 GATGGCTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:19519759 original size:16 final size:17
Alignment explanation
Indices: 19519740--19519771 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19519730 AGTATTATTA
19519740 TTTTTCTTT-TTTTTTC
1 TTTTTCTTTCTTTTTTC
19519756 TTTTTCTTTCTTTTTT
1 TTTTTCTTTCTTTTTT
19519772 GATGGCTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTTC
Found at i:19520089 original size:26 final size:24
Alignment explanation
Indices: 19520051--19520100 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
19520041 GATCGAAAAT
*
19520051 AATTTTTTAGAAATTTTTGGCGAAA
1 AATTTTTTAGAAATTTCTGG-GAAA
*
19520076 AATTTTTCTGGAAATTTCTGGGAAA
1 AATTTTT-TAGAAATTTCTGGGAAA
19520101 TTTTCAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (24 bp):
AATTTTTTAGAAATTTCTGGGAAA
Found at i:19520895 original size:60 final size:59
Alignment explanation
Indices: 19520803--19521378 Score: 725
Period size: 59 Copynumber: 9.7 Consensus size: 59
19520793 TAAATAAAAA
* * * *
19520803 TCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATTAATTTCCCTCGAAATTAAAGTT
1 TCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTT
* *
19520862 TCCAAAAAAGATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTT
1 TCCAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTT
* * *
19520923 TCC-AAAGAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
1 TCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTT
** **
19520981 T-CAAAAAAAGGGTTTTTGATGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTT
1 TCCAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTT
* * * * *
19521041 TTC-AAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAACCAAAGTT
1 TCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-TAAAGTT
* * *
19521100 TCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
1 TC-CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTT
* ** *
19521160 TCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
1 TCCAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTT
* *
19521221 T-C-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT
1 TCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTT
* ** * *
19521278 TCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TT
1 TCCAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTT
*
19521337 TTC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
19521379 TCCTGCACAA
Statistics
Matches: 451, Mismatches: 52, Indels: 30
0.85 0.10 0.06
Matches are distributed among these distances:
57 37 0.08
58 56 0.12
59 154 0.34
60 144 0.32
61 60 0.13
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.34
Consensus pattern (59 bp):
TCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTT
Found at i:19523954 original size:56 final size:56
Alignment explanation
Indices: 19523894--19524231 Score: 378
Period size: 56 Copynumber: 5.9 Consensus size: 56
19523884 TAATTTTTAG
* *
19523894 TTTTAAAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTTAAAATAT
1 TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATAT
* * *
19523950 TTTTAGAAAATTTT-TTTTAAAGGAAAATTTATACTTTCAAC-TTTTCTTTAAAAT-T
1 TTTTA-AAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTC-TTAAAATAT
* * *
19524005 TTTTAACAATTTTATTTTTAAGAAAAAATTGATACTTTCAACTCTTTCCTCAAAATTATT
1 TTTTAAAAATTTTATTTTTAAG-AAAAATTGATACTTTCAACT-TTTTCTTAAAA-TA-T
* * * * *
19524065 TTTTAGAAATTTTATTTTTAAGGAACATTGATACTTTCAACTTTTCCTAAAAATAT
1 TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATAT
*** * * *
19524121 TTTTTTTAATTTTTTTTTTAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATATT
1 TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCT-TAAAATA-T
* *
19524179 TTTTAAAAAATTTTATTTTCAAGAAAAATTGATAC-TTCAATTTTTTCTTAAAA
1 TTTT-AAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAA
19524232 ATGTTTTTTA
Statistics
Matches: 241, Mismatches: 29, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
54 7 0.03
55 18 0.07
56 95 0.39
57 26 0.11
58 31 0.13
59 43 0.18
60 21 0.09
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (56 bp):
TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAATAT
Found at i:19524240 original size:115 final size:114
Alignment explanation
Indices: 19523901--19524241 Score: 422
Period size: 115 Copynumber: 3.0 Consensus size: 114
19523891 TAGTTTTAAA
* * * *
19523901 AATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCT-TAAAATA-TTTTTAGAAAATTTT
1 AATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAATTTT
* * *
19523964 -TTTTAAAGGAAAATTTATACTTTCAACTTTTCTTTAAAATTTTTTAAC
66 ATTTTAAAGGAAAATTGATACTTTCAACTTTTCTTAAAAATTTTTTTAC
* * *
19524012 AATTTTATTTTTAAGAAAAAATTGATACTTTCAACTCTTTCCTCAAAATTATTTTTT-AGAAATT
1 AATTTTATTTTTAAG-AAAAATTGATACTTTCAACT-TTTTCTCAAAAATATTTTTTAAAAAATT
* * * **
19524076 TTATTTTTAAGGAACATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTT
64 TTATTTTAAAGGAAAATTGATACTTTCAACTTTTCTTAAAAAT-TTTTTTAC
* *
19524128 AATTTTTTTTTTAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTAAAAAATTTT
1 AATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAATTTT
* * *
19524193 ATTTTCAAGAAAAATTGATAC-TTCAATTTTTTCTTAAAAATGTTTTTTA
66 ATTTTAAAGGAAAATTGATACTTTCAA-CTTTTCTTAAAAAT-TTTTTTA
19524242 TGAGAATTAT
Statistics
Matches: 195, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
111 14 0.07
112 19 0.10
113 5 0.03
114 35 0.18
115 103 0.53
116 19 0.10
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (114 bp):
AATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAAAATTTT
ATTTTAAAGGAAAATTGATACTTTCAACTTTTCTTAAAAATTTTTTTAC
Found at i:19524725 original size:41 final size:41
Alignment explanation
Indices: 19524668--19524749 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
19524658 ATCTCAATAT
*
19524668 TTTGGCAAGTCATGCACCACTAAAATTAATGAACCAATTAA
1 TTTGGCAAGCCATGCACCACTAAAATTAATGAACCAATTAA
*
19524709 TTTGGCAAGCCGTGCACCACTAAAATTAATGAACCAATTAA
1 TTTGGCAAGCCATGCACCACTAAAATTAATGAACCAATTAA
19524750 ATATTCAGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (41 bp):
TTTGGCAAGCCATGCACCACTAAAATTAATGAACCAATTAA
Found at i:19525815 original size:44 final size:43
Alignment explanation
Indices: 19525713--19525859 Score: 179
Period size: 44 Copynumber: 3.3 Consensus size: 43
19525703 TTAAATGAAC
** *
19525713 CAAAGCTCCTCTAAAAAGAGGCTCAATGACTTTTAAAAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGAC-TTT--AAAAAATAAA
* *
19525759 CAAAGCTTCTCTAATCAGAGGCTCAACAACTTTGAAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTT-AAAAAATAAA
*
19525803 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAA
1 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAA
* *
19525846 TAAAACTCCT-TAAT
1 CAAAGCTCCTCTAAT
19525860 GATCATGTGC
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 4 0.04
43 17 0.19
44 40 0.45
45 3 0.03
46 25 0.28
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (43 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAA
Found at i:19526079 original size:15 final size:16
Alignment explanation
Indices: 19526049--19526083 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
19526039 TTTCAAGCAC
*
19526049 GCAAGAATTCAGATTT
1 GCAAGAATTCACATTT
19526065 GCAAG-ATTCACATTT
1 GCAAGAATTCACATTT
19526080 GCAA
1 GCAA
19526084 ATTGCAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (16 bp):
GCAAGAATTCACATTT
Found at i:19526388 original size:25 final size:24
Alignment explanation
Indices: 19526351--19526443 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 24
19526341 GGGTTTTACA
19526351 TCTTAAAGATTCTCATTTGAAAATG
1 TCTTAAAGATTCTCATTT-AAAATG
* *
19526376 TCTTAAAGGTTCTTATTT--AA-G
1 TCTTAAAGATTCTCATTTAAAATG
* * *
19526397 ACTCAAAGATGT-TCATTTAAAAATA
1 TCTTAAAGAT-TCTCATTT-AAAATG
*
19526422 TCTTAAAGGTTCTCATTTAAAA
1 TCTTAAAGATTCTCATTTAAAA
19526444 CTCAAAGATT
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
21 13 0.25
22 3 0.06
24 7 0.13
25 29 0.56
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.40
Consensus pattern (24 bp):
TCTTAAAGATTCTCATTTAAAATG
Found at i:19526426 original size:46 final size:46
Alignment explanation
Indices: 19526355--19526460 Score: 151
Period size: 46 Copynumber: 2.3 Consensus size: 46
19526345 TTTACATCTT
* * * *
19526355 AAAGATTCTCATTTGAAAATGTCTTAAAGGTTCTTATTTAAGACTC
1 AAAGATTCTCATTTAAAAATATCTTAAAGGTTCTCATTTAAAACTC
19526401 AAAGATGT-TCATTTAAAAATATCTTAAAGGTTCTCATTTAAAACTC
1 AAAGAT-TCTCATTTAAAAATATCTTAAAGGTTCTCATTTAAAACTC
*
19526447 AAAGATTCTTATTT
1 AAAGATTCTCATTT
19526461 GAGGATTCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
45 1 0.02
46 51 0.96
47 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (46 bp):
AAAGATTCTCATTTAAAAATATCTTAAAGGTTCTCATTTAAAACTC
Found at i:19526450 original size:21 final size:21
Alignment explanation
Indices: 19526355--19526460 Score: 61
Period size: 21 Copynumber: 4.7 Consensus size: 21
19526345 TTTACATCTT
*
19526355 AAAGATTCTCATTTGAAAATGTCTT
1 AAAGATTCTCATTT-AAAA---CTC
* * *
19526380 AAAGGTTCTTATTTAAGACTC
1 AAAGATTCTCATTTAAAACTC
*
19526401 AAAGATGT-TCATTTAAAAATATCTT
1 AAAGAT-TCTCATTT--AAA-A-CTC
*
19526426 AAAGGTTCTCATTTAAAACTC
1 AAAGATTCTCATTTAAAACTC
*
19526447 AAAGATTCTTATTT
1 AAAGATTCTCATTT
19526461 GAGGATTCAA
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
21 26 0.41
22 2 0.03
23 5 0.08
24 5 0.08
25 25 0.40
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
AAAGATTCTCATTTAAAACTC
Found at i:19526550 original size:21 final size:22
Alignment explanation
Indices: 19526524--19526586 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
19526514 GGTTTCACAC
*
19526524 CTCAAAGATTCTCATTTGA-TA
1 CTCAAAGATTCTCATTTGAGGA
*
19526545 CTCAAAGATTCTCATTTAAGGA
1 CTCAAAGATTCTCATTTGAGGA
*
19526567 TTCAAAGATTCTCATTTGAG
1 CTCAAAGATTCTCATTTGAG
19526587 TTCGAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 18 0.49
22 19 0.51
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAGGA
Found at i:19526574 original size:22 final size:21
Alignment explanation
Indices: 19526524--19526711 Score: 104
Period size: 21 Copynumber: 9.0 Consensus size: 21
19526514 GGTTTCACAC
* *
19526524 CTCAAAGATTCTCATTTGATA
1 CTCAAAGATTCTCATTTAAGA
19526545 CTCAAAGATTCTCATTTAAGGA
1 CTCAAAGATTCTCATTTAA-GA
* *
19526567 TTCAAAGATTCTCATTTGAG-
1 CTCAAAGATTCTCATTTAAGA
* * * * *
19526587 TTCGAATATTCACA-TT-CGA
1 CTCAAAGATTCTCATTTAAGA
* * * *
19526606 -T--AA-ATTTTAGATTTCACA
1 CTCAAAGATTCT-CATTTAAGA
*
19526624 CCTCAAAGATTATCATTTGACA-A
1 -CTCAAAGATTCTCATTT-A-AGA
*
19526647 CGTCTTAAAGATTCTTATTTAAGA
1 C-TC--AAAGATTCTCATTTAAGA
19526671 CTCAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTAAGA
*
19526692 CTCAAAGATTTTCATTTAAG
1 CTCAAAGATTCTCATTTAAG
19526712 GATTTTTATT
Statistics
Matches: 131, Mismatches: 20, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.02
16 3 0.02
17 2 0.02
18 3 0.02
19 2 0.02
20 12 0.09
21 55 0.42
22 25 0.19
23 10 0.08
24 4 0.03
25 12 0.09
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTAAGA
Found at i:19526606 original size:101 final size:101
Alignment explanation
Indices: 19526426--19526690 Score: 370
Period size: 101 Copynumber: 2.6 Consensus size: 101
19526416 AAAATATCTT
* * * * * *
19526426 AAAGGTTCTCATTTAAAACTCAAAGATTCTTATTTGAGGATTCAACGATTCTTATCTAAGTTCGA
1 AAAGATTCTCATTTGAAACTCAAAGATTCTTATTTAAGGATTCAAAGATTCTCATTTAAGTTCGA
*
19526491 AGATTCACATTCGATAAATTTTAGGTTTCACACCTC
66 AGATTCACATTCGATAAATTTTAGATTTCACACCTC
* * *
19526527 AAAGATTCTCATTTGATACTCAAAGATTCTCATTTAAGGATTCAAAGATTCTCATTTGAGTTCGA
1 AAAGATTCTCATTTGAAACTCAAAGATTCTTATTTAAGGATTCAAAGATTCTCATTTAAGTTCGA
*
19526592 ATATTCACATTCGATAAATTTTAGATTTCACACCTC
66 AGATTCACATTCGATAAATTTTAGATTTCACACCTC
* *
19526628 AAAGATTATCATTTGACAACGTCTTAAAGATTCTTATTTAA-GACTCAAAGATTCTCATTTAAG
1 AAAGATTCTCATTTGA-AAC-TC--AAAGATTCTTATTTAAGGATTCAAAGATTCTCATTTAAG
19526691 ACTCAAAGAT
Statistics
Matches: 144, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
101 105 0.73
102 2 0.01
103 2 0.01
104 20 0.14
105 15 0.10
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (101 bp):
AAAGATTCTCATTTGAAACTCAAAGATTCTTATTTAAGGATTCAAAGATTCTCATTTAAGTTCGA
AGATTCACATTCGATAAATTTTAGATTTCACACCTC
Found at i:19527874 original size:9 final size:9
Alignment explanation
Indices: 19527862--19527961 Score: 105
Period size: 9 Copynumber: 10.7 Consensus size: 9
19527852 TCCTTTTATC
19527862 TTTTTTCAT
1 TTTTTTCAT
19527871 TTTTTT--T
1 TTTTTTCAT
19527878 TATTTTTCAT
1 T-TTTTTCAT
19527888 TTTTTTCAT
1 TTTTTTCAT
19527897 TTTTTTCAT
1 TTTTTTCAT
19527906 TCATTTTTCAT
1 T--TTTTTCAT
*
19527917 TTTTTTCCTTT
1 TTTTTT-C-AT
19527928 TTTTTTCAT
1 TTTTTTCAT
19527937 CTTTTTTCAT
1 -TTTTTTCAT
* *
19527947 TCTCTTCAT
1 TTTTTTCAT
19527956 TTTTTT
1 TTTTTT
19527962 TCATCTTTCA
Statistics
Matches: 77, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
7 2 0.03
8 5 0.06
9 41 0.53
10 13 0.17
11 16 0.21
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:19527875 original size:17 final size:16
Alignment explanation
Indices: 19527844--19527961 Score: 73
Period size: 18 Copynumber: 7.1 Consensus size: 16
19527834 AATTTGAGTC
*
19527844 TTCTTTTTTC-CTTTT
1 TTCTTTTTTCATTTTT
*
19527859 ATCTTTTTTCATTTTT
1 TTCTTTTTTCATTTTT
*
19527875 TTTTATTTTTCATTTTT
1 TTCT-TTTTTCATTTTT
19527892 TTCATTTTTTTCATTCATTT
1 TTC--TTTTTTCATT--TTT
* **
19527912 TTCATTTTT--TTCCT
1 TTCTTTTTTCATTTTT
19527926 TT-TTTTTTCATCTTTT
1 TTCTTTTTTCAT-TTTT
*
19527942 TTCATTCTCTTCATTTTT
1 TTC-TT-TTTTCATTTTT
19527960 TT
1 TT
19527962 TCATCTTTCA
Statistics
Matches: 79, Mismatches: 12, Indels: 21
0.71 0.11 0.19
Matches are distributed among these distances:
13 5 0.06
14 3 0.04
15 10 0.13
16 12 0.15
17 14 0.18
18 22 0.28
19 7 0.09
20 6 0.08
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.75
Consensus pattern (16 bp):
TTCTTTTTTCATTTTT
Found at i:19527912 original size:29 final size:29
Alignment explanation
Indices: 19527862--19527961 Score: 118
Period size: 29 Copynumber: 3.5 Consensus size: 29
19527852 TCCTTTTATC
19527862 TTTTTTCATTTTTTT--TT-ATTTTTCAT
1 TTTTTTCATTTTTTTCATTCATTTTTCAT
19527888 TTTTTTCATTTTTTTCATTCATTTTTCAT
1 TTTTTTCATTTTTTTCATTCATTTTTCAT
* *
19527917 TTTTTTCCTTTTTTTTTCA-TCTTTTTTCAT
1 TTTTTT-C-ATTTTTTTCATTCATTTTTCAT
* *
19527947 TCTCTTCATTTTTTT
1 TTTTTTCATTTTTTT
19527962 TCATCTTTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
26 15 0.23
28 9 0.14
29 16 0.25
30 15 0.23
31 9 0.14
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (29 bp):
TTTTTTCATTTTTTTCATTCATTTTTCAT
Found at i:19527954 original size:19 final size:17
Alignment explanation
Indices: 19527931--19527973 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
19527921 TTCCTTTTTT
19527931 TTTCATCTTTTTTCATTC
1 TTTCATCTTTTTTCA-TC
*
19527949 TCTTCATTTTTTTTCATC
1 T-TTCATCTTTTTTCATC
19527967 TTTCATC
1 TTTCATC
19527974 CACTATTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 13 0.59
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTCATCTTTTTTCATC
Found at i:19527961 original size:20 final size:20
Alignment explanation
Indices: 19527862--19527947 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
19527852 TCCTTTTATC
19527862 TTTTTTCATTTTTTTTT-A-
1 TTTTTTCATTTTTTTTTCAT
19527880 -TTTTTCA--TTTTTTTCAT
1 TTTTTTCATTTTTTTTTCAT
**
19527897 TTTTTTCATTCATTTTTCAT
1 TTTTTTCATTTTTTTTTCAT
*
19527917 TTTTTTCCTTTTTTTTTCAT
1 TTTTTTCATTTTTTTTTCAT
19527937 CTTTTTTCATT
1 -TTTTTTCATT
19527948 CTCTTCATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
15 7 0.12
16 1 0.02
17 7 0.12
18 7 0.12
20 25 0.45
21 9 0.16
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTCATTTTTTTTTCAT
Found at i:19531914 original size:61 final size:59
Alignment explanation
Indices: 19531848--19532028 Score: 195
Period size: 60 Copynumber: 3.0 Consensus size: 59
19531838 TGCTTTTGTA
* **
19531848 CAAGAAAAATTGATACTTTCAACTTTTCTTTAAAATGGTTTTCTTGATAATTTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAATACTTTTCTTGATAA--TTTTATTTT
* * * * * *
19531909 TAAGAAAAATTGGTACTTCCAACTTTT-TCTCAAAATATTTTTTTTCTGA-AATTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCT-TCAAAATA-CTTTTCT-TGATAATTTTATTTT
* *
19531969 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTCTTAATAAGTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAATACTTTTCTTGATAA-TTTTATTTT
19532029 AAAAATTTTA
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
58 2 0.02
59 7 0.07
60 49 0.50
61 30 0.31
62 7 0.07
63 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAATACTTTTCTTGATAATTTTATTTT
Found at i:19532070 original size:59 final size:56
Alignment explanation
Indices: 19532005--19532202 Score: 200
Period size: 59 Copynumber: 3.4 Consensus size: 56
19531995 TCCTCAAAAT
* *
19532005 ACTTTTCTTAATAAGTTTTATTTTAAAAATTTTATTTTTAAGGAAAATTAATACTACCA
1 ACTTTTCTTAA-AAATTTT-TTTT-AAAATTTTATTTTTAAGGAAAATTGATACTACCA
* * * **
19532064 ACTTTTCCTAAAAATATTTTTTT-TAATTTTATTTTTAAGAAAAATTGATACTTTCA
1 ACTTTTCTTAAAAAT-TTTTTTTAAAATTTTATTTTTAAGGAAAATTGATACTACCA
* * **
19532120 ACTTTTTCTTAAAAACATCTTTTTTAAAATTTTATTTTCAAGGAAAATTGATACTTTCA
1 AC-TTTTCTT-AAAA-ATTTTTTTTAAAATTTTATTTTTAAGGAAAATTGATACTACCA
* *
19532179 AATTTTCCTTAAAAATATTTTTTA
1 ACTTTT-CTTAAAAATTTTTTTTA
19532203 TGAGAATTAT
Statistics
Matches: 119, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
56 30 0.25
57 15 0.13
58 25 0.21
59 49 0.41
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (56 bp):
ACTTTTCTTAAAAATTTTTTTTAAAATTTTATTTTTAAGGAAAATTGATACTACCA
Found at i:19532100 original size:56 final size:57
Alignment explanation
Indices: 19532025--19532201 Score: 230
Period size: 59 Copynumber: 3.1 Consensus size: 57
19532015 ATAAGTTTTA
* * **
19532025 TTTTAAAAATTTTATTTTTAAGGAAAATTAATACTACCAACTTTTCCTAAAAATATT
1 TTTTTAAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTAAAAATATT
* * * *
19532082 TTTTT-TAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAACATCT
1 TTTTTAAAATTTTATTTTTAAGGAAAATTGATACTTTCAAC-TTTTCCTAAAAATAT-T
* *
19532140 TTTTTAAAATTTTATTTTCAAGGAAAATTGATACTTTCAAATTTTCCTTAAAAATATT
1 TTTTTAAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCC-TAAAAATATT
19532198 TTTT
1 TTTT
19532202 ATGAGAATTA
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
56 30 0.29
57 17 0.17
58 16 0.16
59 39 0.38
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (57 bp):
TTTTTAAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTAAAAATATT
Found at i:19535342 original size:19 final size:20
Alignment explanation
Indices: 19535302--19535346 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
19535292 AAATACTCTT
*
19535302 AAAAATAAACAAACACATAA
1 AAAAATAAACAAACACAAAA
19535322 AAAAATAAA-AATAC-CAAAA
1 AAAAATAAACAA-ACACAAAA
19535341 AAAAAT
1 AAAAAT
19535347 CGAAACGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (20 bp):
AAAAATAAACAAACACAAAA
Found at i:19536204 original size:5 final size:5
Alignment explanation
Indices: 19536194--19536260 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
19536184 CTATTATCTA
*
19536194 AAAAT AAAAT -AAAT AATAAT -AAA- AAAAT CAAAAAT AAAAACC AAAAT
1 AAAAT AAAAT AAAAT AA-AAT AAAAT AAAAT --AAAAT -AAAA-T AAAAT
19536241 AAAAAT AAAAT AAAAT AAAA
1 -AAAAT AAAAT AAAAT AAAA
19536261 AACAAACAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
4 9 0.17
5 21 0.40
6 17 0.33
7 5 0.10
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:19536216 original size:15 final size:15
Alignment explanation
Indices: 19536193--19536233 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
19536183 CCTATTATCT
19536193 AAAAATAAAATAAAT-
1 AAAAATAAAA-AAATC
*
19536208 AATAATAAAAAAATC
1 AAAAATAAAAAAATC
19536223 AAAAATAAAAA
1 AAAAATAAAAA
19536234 CCAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATAAAAAAATC
Found at i:19536226 original size:7 final size:6
Alignment explanation
Indices: 19536192--19536261 Score: 67
Period size: 6 Copynumber: 12.0 Consensus size: 6
19536182 TCCTATTATC
* **
19536192 TAAAAA T-AAAA TAAATAA TAATAA -AAAAA TCAAAAA TAAAAA CCAAAA
1 TAAAAA TAAAAA TAAA-AA TAAAAA TAAAAA T-AAAAA TAAAAA TAAAAA
19536240 TAAAAA T-AAAA T-AAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA
19536262 ACAAACAGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
5 19 0.36
6 23 0.43
7 11 0.21
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:19536229 original size:18 final size:16
Alignment explanation
Indices: 19536192--19536261 Score: 77
Period size: 18 Copynumber: 4.0 Consensus size: 16
19536182 TCCTATTATC
19536192 TAAAAATAAAATAAATAA
1 TAAAAA-AAAATAAA-AA
19536210 TAATAAAAAAATCAAAAA
1 TAA-AAAAAAAT-AAAAA
19536228 TAAAAACCAAAATAAAAA
1 TAAAAA--AAAATAAAAA
*
19536246 TAAAATAAAATAAAAA
1 TAAAAAAAAATAAAAA
19536262 ACAAACAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
16 10 0.21
17 3 0.06
18 23 0.49
19 11 0.23
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (16 bp):
TAAAAAAAAATAAAAA
Found at i:19537262 original size:17 final size:17
Alignment explanation
Indices: 19537235--19537296 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
19537225 TTTTCTTTTA
19537235 ATCATTTCATACAAC-TC
1 ATCA-TTCATACAACATC
*
19537252 ACTCATTCATACATCATC
1 A-TCATTCATACAACATC
* *
19537270 ATCATTCATTCATCAT-
1 ATCATTCATACAACATC
19537286 ATCATTGCATA
1 ATCATT-CATA
19537297 ATATAGAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.15
17 27 0.69
18 6 0.15
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (17 bp):
ATCATTCATACAACATC
Found at i:19538403 original size:34 final size:34
Alignment explanation
Indices: 19538360--19538427 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
19538350 ACACTCAATG
19538360 CATGCATTCATTAATTTCTACATAATTTGTTTTT
1 CATGCATTCATTAATTTCTACATAATTTGTTTTT
*
19538394 CATGCATTCATTAATTTTTACATAATTTGTTTTT
1 CATGCATTCATTAATTTCTACATAATTTGTTTTT
19538428 TATCTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.54
Consensus pattern (34 bp):
CATGCATTCATTAATTTCTACATAATTTGTTTTT
Found at i:19541259 original size:59 final size:58
Alignment explanation
Indices: 19541041--19541323 Score: 255
Period size: 59 Copynumber: 4.6 Consensus size: 58
19541031 TTAAAAATAC
* * *
19541041 ATTTTTAAAGAAAAAGCTGAAAGTATCAATTTTTCTTGAAAATAAAAAAAAAGATTTCAAGAAAG
1 ATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTG-----AAAAAAAAA-ATTTCAA-AAAG
19541106 G
58 G
* * * * * **
19541107 ATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTGTAAATAAAATTTTCAAAAAAAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAAAAAAATTTC-----AAAAAGG
* *
19541170 ATTTCTTGAGGAAAAGTTGGAAGT-TCCAATTTTCCTTGAAAAAAAAAATTTCAAAAAGGG
1 ATTT-TTAAGGAAAAGTTGAAAGTAT-CAATTTTCCTTGAAAAAAAAAATTTCAAAAA-GG
* * * *
19541230 ATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAAATTTTTAAAAA-T
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA-AAAAAATTTCAAAAAGG
19541288 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT
19541324 ATGGAAGCAT
Statistics
Matches: 183, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
58 35 0.19
59 41 0.22
60 25 0.14
63 8 0.04
64 40 0.22
65 28 0.15
66 6 0.03
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (58 bp):
ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAAAAAAATTTCAAAAAGG
Found at i:19546593 original size:22 final size:21
Alignment explanation
Indices: 19546525--19546594 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
19546515 ATCTTTTGAC
19546525 GAGAATTTTTGAGTTCTCAAAT
1 GAGAATTTTTGAGTT-TCAAAT
* * * **
19546547 GGGAGTCTTTGA-ACTCAAAT
1 GAGAATTTTTGAGTTTCAAAT
*
19546567 TAGAATTTTTGAGTTTCAAAAT
1 GAGAATTTTTGAGTTTC-AAAT
19546589 GAGAAT
1 GAGAAT
19546595 CTCTGAGGTG
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
20 14 0.41
21 2 0.06
22 18 0.53
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (21 bp):
GAGAATTTTTGAGTTTCAAAT
Found at i:19546661 original size:20 final size:20
Alignment explanation
Indices: 19546624--19546662 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19546614 AAAGTTCGTC
* *
19546624 GAATGTAAATCTTCGAACTA
1 GAATGAAAACCTTCGAACTA
*
19546644 GAATGAAAACCTTTGAACT
1 GAATGAAAACCTTCGAACT
19546663 TTTGGATGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
GAATGAAAACCTTCGAACTA
Found at i:19547279 original size:87 final size:82
Alignment explanation
Indices: 19547132--19547402 Score: 357
Period size: 87 Copynumber: 3.2 Consensus size: 82
19547122 GTCAAGAAGT
* *
19547132 AATTTATTTTTCCAAAGTTGTGGTGCCTTTGTTTAGAGGAGCAATTTATTTTTCTGAAGTTATGG
1 AATTTATTTTT-CAAAGTTGTGGTGCCTTTGTTTAGAAGAGCAATTTATTTTTC-AAAGTTATGG
19547197 TGCCTCTGTTTAGAAGAGC
64 TGCCTCTGTTTAGAAGAGC
19547216 AATTTATTTTTCAAAGTTGTGGTGCTTCACTTTGTTTAGAAGAGCAATTTATTTTTCAAAAGTTA
1 AATTTATTTTTCAAAGTTGTGGTG---C-CTTTGTTTAGAAGAGCAATTTATTTTTC-AAAGTTA
19547281 TGGTGCCTCTGTTTAGAAGAGC
61 TGGTGCCTCTGTTTAGAAGAGC
** * * *
19547303 -ATTTATTTTTCTCAAAGTCATTGAGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTATGG
1 AATTTA-TTTT-TCAAAGTTGTGGTGCCTTTGTTTAGAAGAGCAATTTATTTTTCAAAGTTATGG
*
19547367 TGCCTCTATTTA-AAGGAGC
64 TGCCTCTGTTTAGAA-GAGC
*
19547386 GATTTATTTTTCAAAGT
1 AATTTATTTTTCAAAGT
19547403 CGTTGAGTCG
Statistics
Matches: 170, Mismatches: 9, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
82 9 0.05
83 42 0.25
84 43 0.25
85 1 0.01
86 6 0.04
87 59 0.35
88 10 0.06
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (82 bp):
AATTTATTTTTCAAAGTTGTGGTGCCTTTGTTTAGAAGAGCAATTTATTTTTCAAAGTTATGGTG
CCTCTGTTTAGAAGAGC
Found at i:19547362 original size:129 final size:129
Alignment explanation
Indices: 19547132--19547369 Score: 379
Period size: 129 Copynumber: 1.8 Consensus size: 129
19547122 GTCAAGAAGT
* * * * * *
19547132 AATTTATTTTTCCAAAGTTGTGGTGCCTTTGTTTAGAGGAGCAATTTATTTTTCTGAAGTTATGG
1 AATTTATTTTTCAAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCTAAAGTCATGG
* *
19547197 TGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTGTGGTGCTTCACTTTGTTTAGAAGAGC
66 AGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTATGGTGCTTCACTTTGTTTAGAAGAGC
*
19547261 AATTTATTTTTCAAAAGTTATGGTGCCTCTGTTTAGAAGAGC-ATTTATTTTTCTCAAAGTCATT
1 AATTTATTTTTCAAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCT-AAAGTCATG
19547325 GAGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTATGGTGC
65 GAGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTATGGTGC
19547370 CTCTATTTAA
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
128 12 0.12
129 87 0.88
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (129 bp):
AATTTATTTTTCAAAAGTTATGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTCTAAAGTCATGG
AGCCTCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTATGGTGCTTCACTTTGTTTAGAAGAGC
Found at i:19547426 original size:41 final size:41
Alignment explanation
Indices: 19547132--19547402 Score: 339
Period size: 42 Copynumber: 6.4 Consensus size: 41
19547122 GTCAAGAAGT
* * *
19547132 AATTTATTTTTCCAAAGTTGTGGTGCCTTTGTTTAGAGGAGC
1 AATTTATTTTT-CAAAGTTATGGTGCCTCTGTTTAGAAGAGC
*
19547174 AATTTATTTTTCTGAAGTTATGGTGCCTCTGTTTAGAAGAGC
1 AATTTATTTTTC-AAAGTTATGGTGCCTCTGTTTAGAAGAGC
* *
19547216 AATTTATTTTTCAAAGTTGTGGTGCTTCACTTTGTTTAGAAGAGC
1 AATTTATTTTTCAAAGTTATGGTG---C-CTCTGTTTAGAAGAGC
19547261 AATTTATTTTTCAAAAGTTATGGTGCCTCTGTTTAGAAGAGC
1 AATTTATTTTTC-AAAGTTATGGTGCCTCTGTTTAGAAGAGC
* * *
19547303 -ATTTATTTTTCTCAAAGTCATTGAGCCTCTGTTTAGAAGAGC
1 AATTTA-TTTT-TCAAAGTTATGGTGCCTCTGTTTAGAAGAGC
*
19547345 AATTTATTTTTCAAAGTTATGGTGCCTCTATTTA-AAGGAGC
1 AATTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAA-GAGC
*
19547386 GATTTATTTTTCAAAGT
1 AATTTATTTTTCAAAGT
19547403 CGTTGAGTCG
Statistics
Matches: 202, Mismatches: 17, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
40 2 0.01
41 56 0.28
42 97 0.48
43 8 0.04
44 1 0.00
45 27 0.13
46 11 0.05
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (41 bp):
AATTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAAGAGC
Found at i:19548764 original size:12 final size:11
Alignment explanation
Indices: 19548741--19548786 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
19548731 GTGGATGTGT
19548741 GTAAAGAAAAA
1 GTAAAGAAAAA
19548752 GTAAAGTAAAAA
1 GTAAAG-AAAAA
*
19548764 GTAAAAAAAAA
1 GTAAAGAAAAA
*
19548775 TGCAAAGAAAAA
1 -GTAAAGAAAAA
19548787 AAACAAAGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 11 0.37
12 19 0.63
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (11 bp):
GTAAAGAAAAA
Found at i:19548785 original size:23 final size:23
Alignment explanation
Indices: 19548741--19548787 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19548731 GTGGATGTGT
* *
19548741 GTAAAGAAAAAGTAAAGTAAAAA
1 GTAAAAAAAAAGCAAAGTAAAAA
*
19548764 GTAAAAAAAAATGCAAAGAAAAAA
1 GTAAAAAAAAA-GCAAAGTAAAAA
19548788 AACAAAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (23 bp):
GTAAAAAAAAAGCAAAGTAAAAA
Found at i:19548787 original size:18 final size:17
Alignment explanation
Indices: 19548754--19548823 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 17
19548744 AAGAAAAAGT
*
19548754 AAAGTAAAAAGTAAAAAA
1 AAAGCAAAAA-TAAAAAA
19548772 AAATGCAAAGAA-AAAAAA
1 AAA-GCAAA-AATAAAAAA
19548790 CAAAGCAAAAATAAACAAA
1 -AAAGCAAAAATAAA-AAA
*
19548809 AAA--AAAAGTAAAAAA
1 AAAGCAAAAATAAAAAA
19548824 TGATGATGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
15 3 0.07
16 8 0.18
17 2 0.04
18 20 0.44
19 10 0.22
20 2 0.04
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.07
Consensus pattern (17 bp):
AAAGCAAAAATAAAAAA
Found at i:19548800 original size:15 final size:14
Alignment explanation
Indices: 19548761--19548815 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
19548751 AGTAAAGTAA
19548761 AAAGTAAAAAAAAATGC
1 AAAG-AAAAAAAAA--C
19548778 AAAG-AAAAAAAAC
1 AAAGAAAAAAAAAC
*
19548791 AAAGCAAAAATAAAC
1 AAAG-AAAAAAAAAC
19548806 AAA-AAAAAAA
1 AAAGAAAAAAA
19548816 GTAAAAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 11 0.32
15 19 0.56
17 4 0.12
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.05
Consensus pattern (14 bp):
AAAGAAAAAAAAAC
Found at i:19548812 original size:13 final size:13
Alignment explanation
Indices: 19548767--19548815 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 13
19548757 GTAAAAAGTA
19548767 AAAAAAAATGCAAAG
1 AAAAAAAA--CAAAG
19548782 AAAAAAAACAAAG
1 AAAAAAAACAAAG
19548795 CAAAAATAAACAAA-
1 -AAAAA-AAACAAAG
19548809 AAAAAAA
1 AAAAAAA
19548816 GTAAAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.06
13 10 0.31
14 5 0.16
15 15 0.47
ACGTcount: A:0.82, C:0.08, G:0.06, T:0.04
Consensus pattern (13 bp):
AAAAAAAACAAAG
Found at i:19550857 original size:13 final size:13
Alignment explanation
Indices: 19550839--19550874 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
19550829 AGAAAACAGT
19550839 AAAAAAAAGCAAA
1 AAAAAAAAGCAAA
*
19550852 AAAAAAGAGCAAA
1 AAAAAAAAGCAAA
19550865 AAGAAAAAAG
1 AA-AAAAAAG
19550875 GAAGCATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.81, C:0.06, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGCAAA
Found at i:19551199 original size:23 final size:23
Alignment explanation
Indices: 19551119--19551267 Score: 115
Period size: 23 Copynumber: 6.6 Consensus size: 23
19551109 ACCCAAACCC
*
19551119 AGATTAGTTGGCACTTTAAGCCC
1 AGATTAGTTGGCACTTTAAGCCT
* **
19551142 A-ATTTACTTAACACTTTAAGCCT
1 AGA-TTAGTTGGCACTTTAAGCCT
* **
19551165 AGTTTAACTGGCACTTTAAGCCT
1 AGATTAGTTGGCACTTTAAGCCT
*
19551188 AGATTAGTTGGCA-TGTAAGCCT
1 AGATTAGTTGGCACTTTAAGCCT
* * * *
19551210 AGATTAGTTGACAATTTAAACCC
1 AGATTAGTTGGCACTTTAAGCCT
* * * *
19551233 AAACTAGCTGGCAC-CTAAGCCT
1 AGATTAGTTGGCACTTTAAGCCT
*
19551255 AGATTAGCTGGCA
1 AGATTAGTTGGCA
19551268 TCCAAATTTT
Statistics
Matches: 96, Mismatches: 27, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
22 37 0.39
23 59 0.61
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (23 bp):
AGATTAGTTGGCACTTTAAGCCT
Found at i:19551228 original size:68 final size:67
Alignment explanation
Indices: 19551087--19551268 Score: 186
Period size: 68 Copynumber: 2.7 Consensus size: 67
19551077 AAGATATGAG
* * * *
19551087 ATTTAAGCCTAGTCTAACTGGCACCCAAACCCAGATTAGTTGGCACTTTAAGCCCAATTTACTTA
1 ATTTAAGCCTAGTCTAACTGGCACCTAAGCCTAGATTAGTTGGCA-TGTAAGCCCAATTTACTTA
19551152 ACA
65 ACA
* * * * *
19551155 CTTTAAGCCTAGTTTAACTGGCACTTTAAGCCTAGATTAGTTGGCATGTAAGCCTAGA-TTAGTT
1 ATTTAAGCCTAGTCTAACTGGCAC-CTAAGCCTAGATTAGTTGGCATGTAAGCCCA-ATTTACTT
*
19551219 GACA
64 AACA
* * ** * *
19551223 ATTTAAACCCAAACTAGCTGGCACCTAAGCCTAGATTAGCTGGCAT
1 ATTTAAGCCTAGTCTAACTGGCACCTAAGCCTAGATTAGTTGGCAT
19551269 CCAAATTTTA
Statistics
Matches: 93, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
67 20 0.22
68 55 0.59
69 18 0.19
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (67 bp):
ATTTAAGCCTAGTCTAACTGGCACCTAAGCCTAGATTAGTTGGCATGTAAGCCCAATTTACTTAA
CA
Found at i:19551265 original size:22 final size:22
Alignment explanation
Indices: 19551157--19551267 Score: 89
Period size: 22 Copynumber: 5.0 Consensus size: 22
19551147 ACTTAACACT
* *
19551157 TTAAGCCTAGTTTAACTGGCAC
1 TTAAGCCTAGATTAGCTGGCAC
*
19551179 TTTAAGCCTAGATTAGTTGGCA-
1 -TTAAGCCTAGATTAGCTGGCAC
* * *
19551201 TGTAAGCCTAGATTAGTTGACAAT
1 T-TAAGCCTAGATTAGCTGGC-AC
* * * *
19551225 TTAAACCCAAACTAGCTGGCAC
1 TTAAGCCTAGATTAGCTGGCAC
*
19551247 CTAAGCCTAGATTAGCTGGCA
1 TTAAGCCTAGATTAGCTGGCA
19551268 TCCAAATTTT
Statistics
Matches: 69, Mismatches: 16, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
21 1 0.01
22 35 0.51
23 32 0.46
24 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (22 bp):
TTAAGCCTAGATTAGCTGGCAC
Found at i:19551307 original size:23 final size:23
Alignment explanation
Indices: 19551275--19551321 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
19551265 GCATCCAAAT
*
19551275 TTTAAACCCAATTTAGCTAGCAC
1 TTTAAACCCAAATTAGCTAGCAC
*
19551298 TTTAAGCCCAAATTAGCTAGCAC
1 TTTAAACCCAAATTAGCTAGCAC
19551321 T
1 T
19551322 GACAAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (23 bp):
TTTAAACCCAAATTAGCTAGCAC
Found at i:19552524 original size:70 final size:70
Alignment explanation
Indices: 19552442--19552725 Score: 198
Period size: 70 Copynumber: 4.0 Consensus size: 70
19552432 TTATCTCTCA
* * * * * * *
19552442 ACTTGCGATTCAATCTCAGTCATTTTTATTTGCTGATTTGTGGCTCAATTTTGATTATCTTTATT
1 ACTTACGATTCAATCTTAGTCATTTTTATTTGCTGACTTGTAGCTCAATCTCGATCATCTTTATT
19552507 TTTTG
66 TTTTG
* ** * * *
19552512 ACTTAC-AGTTCAATCTTAATTGTTTTTATTTGTTGACTTGTAGTTCAGTCTCGATCATCTTTAT
1 ACTTACGA-TTCAATCTTAGTCATTTTTATTTGCTGACTTGTAGCTCAATCTCGATCATCTTTAT
19552576 TTTTTG
65 TTTTTG
* * * * * * * * * *
19552582 ACTTGCGATTCAATCTTGGTCATTGTTATTTCCTAACTTG-CGATTCAATCCCGGTCATCATTAT
1 ACTTACGATTCAATCTTAGTCATTTTTATTTGCTGACTTGTAG-CTCAATCTCGATCATCTTTAT
* *
19552646 TTCTTA
65 TTTTTG
*** * * * * *
19552652 ACTCGTGATTCAATCTGAATC-TTTTTCTTTTTCTGATTTGTAGCT-AACTCTCGATCATCTTTA
1 ACTTACGATTCAATCTTAGTCATTTTT-ATTTGCTGACTTGTAGCTCAA-TCTCGATCATCTTTA
19552715 TTTTTTTG
64 -TTTTTTG
19552723 ACT
1 ACT
19552726 CACTGTTCAA
Statistics
Matches: 161, Mismatches: 46, Indels: 13
0.73 0.21 0.06
Matches are distributed among these distances:
69 8 0.05
70 143 0.89
71 10 0.06
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.50
Consensus pattern (70 bp):
ACTTACGATTCAATCTTAGTCATTTTTATTTGCTGACTTGTAGCTCAATCTCGATCATCTTTATT
TTTTG
Found at i:19552525 original size:35 final size:35
Alignment explanation
Indices: 19552486--19552599 Score: 113
Period size: 35 Copynumber: 3.3 Consensus size: 35
19552476 GATTTGTGGC
*
19552486 TCAATTTTGATTATCTTTATTTTTTGACTTACAGT
1 TCAATCTTGATTATCTTTATTTTTTGACTTACAGT
* * * * **
19552521 TCAATCTTAATTGTTTTTATTTGTTGACTTGTAGT
1 TCAATCTTGATTATCTTTATTTTTTGACTTACAGT
* * * *
19552556 TCAGTCTCGATCATCTTTATTTTTTGACTTGC-GAT
1 TCAATCTTGATTATCTTTATTTTTTGACTTACAG-T
19552591 TCAATCTTG
1 TCAATCTTG
19552600 GTCATTGTTA
Statistics
Matches: 61, Mismatches: 17, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
34 1 0.02
35 60 0.98
ACGTcount: A:0.20, C:0.14, G:0.12, T:0.54
Consensus pattern (35 bp):
TCAATCTTGATTATCTTTATTTTTTGACTTACAGT
Found at i:19552611 original size:35 final size:35
Alignment explanation
Indices: 19552555--19552667 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 35
19552545 TGACTTGTAG
* * * * *
19552555 TTCAGTCTCGATCATCTTTATTTTTTGACTTGCGA
1 TTCAATCTCGGTCATCATTATTTCTTAACTTGCGA
* ** *
19552590 TTCAATCTTGGTCATTGTTATTTCCTAACTTGCGA
1 TTCAATCTCGGTCATCATTATTTCTTAACTTGCGA
* * *
19552625 TTCAATCCCGGTCATCATTATTTCTTAACTCGTGA
1 TTCAATCTCGGTCATCATTATTTCTTAACTTGCGA
19552660 TTCAATCT
1 TTCAATCT
19552668 GAATCTTTTT
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 62 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (35 bp):
TTCAATCTCGGTCATCATTATTTCTTAACTTGCGA
Found at i:19552890 original size:69 final size:69
Alignment explanation
Indices: 19552799--19552997 Score: 222
Period size: 69 Copynumber: 2.8 Consensus size: 69
19552789 TAAACTTGCA
* *
19552799 GCTCAGTCTCGATCATCCTTATTTCTCGACTTACAGCTCAGTCTCAATCATCCTTATTTCTCGAC
1 GCTCAGTCTCGATCATCCTTATTTCTCGACTT-CAGCTCAGTCTCGATCATCCTTATTTCTCAAC
*
19552864 TTGTG
65 TTATG
* * * * *
19552869 G-TCAGTCCCAATCATCGTTATTTCTCGACTTCTAGCTCAGTCTCGATCATCTTTATTTTCTTAA
1 GCTCAGTCTCGATCATCCTTATTTCTCGACTTC-AGCTCAGTCTCGATCATCCTTA-TTTCTCAA
19552933 CTTATG
64 CTTATG
** * * *
19552939 GCTCTA-TCTCGATCATTTTTATCTCTCGACTTGTAGCTCAGTCTCGATCATTCTTATTT
1 GCTC-AGTCTCGATCATCCTTATTTCTCGACTT-CAGCTCAGTCTCGATCATCCTTATTT
19552998 TTAAACTTGC
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
68 1 0.01
69 47 0.44
70 16 0.15
71 43 0.40
72 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (69 bp):
GCTCAGTCTCGATCATCCTTATTTCTCGACTTCAGCTCAGTCTCGATCATCCTTATTTCTCAACT
TATG
Found at i:19553006 original size:35 final size:35
Alignment explanation
Indices: 19552792--19552997 Score: 204
Period size: 35 Copynumber: 5.9 Consensus size: 35
19552782 TTTTTTTTAA
* *
19552792 ACTTGCAGCTCAGTCTCGATCATCCTTATTTCTCG
1 ACTTGTAGCTCAGTCTCGATCATTCTTATTTCTCG
** * *
19552827 ACTTACAGCTCAGTCTCAATCATCCTTATTTCTCG
1 ACTTGTAGCTCAGTCTCGATCATTCTTATTTCTCG
* * *
19552862 ACTTGT-GGTCAGTCCCAATCA-TCGTTATTTCTCG
1 ACTTGTAGCTCAGTCTCGATCATTC-TTATTTCTCG
* **
19552896 ACTTCTAGCTCAGTCTCGATCA-TCTTTATTTTCTTA
1 ACTTGTAGCTCAGTCTCGATCATTC-TTA-TTTCTCG
* * * *
19552932 ACTTATGGCTCTA-TCTCGATCATTTTTATCTCTCG
1 ACTTGTAGCTC-AGTCTCGATCATTCTTATTTCTCG
19552967 ACTTGTAGCTCAGTCTCGATCATTCTTATTT
1 ACTTGTAGCTCAGTCTCGATCATTCTTATTT
19552998 TTAAACTTGC
Statistics
Matches: 141, Mismatches: 24, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
33 1 0.01
34 29 0.21
35 83 0.59
36 26 0.18
37 2 0.01
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (35 bp):
ACTTGTAGCTCAGTCTCGATCATTCTTATTTCTCG
Found at i:19553114 original size:17 final size:18
Alignment explanation
Indices: 19553078--19553120 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
19553068 TGAAAACTTC
19553078 TAAAAAAATCAAAATAAT
1 TAAAAAAATCAAAATAAT
*
19553096 TAAAATAATCAAAAT-AT
1 TAAAAAAATCAAAATAAT
19553113 TAAAAAAA
1 TAAAAAAA
19553121 CTTTCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAAAAATCAAAATAAT
Found at i:19554909 original size:2 final size:2
Alignment explanation
Indices: 19554902--19554930 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19554892 ATAGTGTTTA
19554902 AG AG AG AG AG AG AG AG -G AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19554931 TTGATTGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19554923 original size:13 final size:13
Alignment explanation
Indices: 19554905--19554930 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19554895 GTGTTTAAGA
19554905 GAGAGAGAGAGAG
1 GAGAGAGAGAGAG
19554918 GAGAGAGAGAGAG
1 GAGAGAGAGAGAG
19554931 TTGATTGGGT
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:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (13 bp):
GAGAGAGAGAGAG
Found at i:19555079 original size:37 final size:37
Alignment explanation
Indices: 19555037--19555110 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
19555027 ATTTGGACCC
19555037 ATCAAATTTGGGTCATCCCTCCTTAGTGGATTTGGTT
1 ATCAAATTTGGGTCATCCCTCCTTAGTGGATTTGGTT
19555074 ATCAAATTTGGGTCATCCCTCCTTAGTGGATTTGGTT
1 ATCAAATTTGGGTCATCCCTCCTTAGTGGATTTGGTT
19555111 GTGAGCCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (37 bp):
ATCAAATTTGGGTCATCCCTCCTTAGTGGATTTGGTT
Found at i:19555885 original size:8 final size:8
Alignment explanation
Indices: 19555874--19555967 Score: 69
Period size: 8 Copynumber: 12.6 Consensus size: 8
19555864 TTTAAAATGC
19555874 TAAAACCT
1 TAAAACCT
19555882 T-AAACCT
1 TAAAACCT
19555889 T-AAACC-
1 TAAAACCT
19555895 T-AAACC-
1 TAAAACCT
19555901 TAAAA-CT
1 TAAAACCT
*
19555908 TCGAAACCT
1 T-AAAACCT
19555917 TAAAA-CT
1 TAAAACCT
* *
19555924 TGAAATCT
1 TAAAACCT
19555932 TAAAACCT
1 TAAAACCT
*
19555940 TGAAACCT
1 TAAAACCT
19555948 TAAAA-CT
1 TAAAACCT
* *
19555955 CAAAACCC
1 TAAAACCT
19555963 TAAAA
1 TAAAA
19555968 TCCTAACCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
6 8 0.11
7 28 0.40
8 31 0.44
9 3 0.04
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.23
Consensus pattern (8 bp):
TAAAACCT
Found at i:19555900 original size:6 final size:7
Alignment explanation
Indices: 19555876--19555951 Score: 66
Period size: 7 Copynumber: 10.4 Consensus size: 7
19555866 TAAAATGCTA
19555876 AAACCTT
1 AAACCTT
19555883 AAACCTT
1 AAACCTT
19555890 AAACC-T
1 AAACCTT
19555896 AAACC-T
1 AAACCTT
*
19555902 AAAACTT
1 AAACCTT
19555909 CGAAACCTT
1 --AAACCTT
*
19555918 AAAACTT
1 AAACCTT
*
19555925 GAAATCTT
1 -AAACCTT
19555933 AAAACCTT
1 -AAACCTT
19555941 GAAACCTT
1 -AAACCTT
19555949 AAA
1 AAA
19555952 ACTCAAAACC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
6 11 0.19
7 22 0.38
8 19 0.33
9 6 0.10
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.25
Consensus pattern (7 bp):
AAACCTT
Found at i:19555922 original size:16 final size:15
Alignment explanation
Indices: 19555874--19555954 Score: 89
Period size: 16 Copynumber: 5.5 Consensus size: 15
19555864 TTTAAAATGC
19555874 TAAAACCTT-AAACCT
1 TAAAA-CTTGAAACCT
*
19555889 T-AAACCT-AAACC-
1 TAAAACTTGAAACCT
19555901 TAAAACTTCGAAACCT
1 TAAAACTT-GAAACCT
*
19555917 TAAAACTTGAAATCT
1 TAAAACTTGAAACCT
19555932 TAAAACCTTGAAACCT
1 TAAAA-CTTGAAACCT
19555948 TAAAACT
1 TAAAACT
19555955 CAAAACCCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
12 1 0.02
13 12 0.21
14 3 0.05
15 19 0.33
16 22 0.39
ACGTcount: A:0.47, C:0.23, G:0.04, T:0.26
Consensus pattern (15 bp):
TAAAACTTGAAACCT
Found at i:19555980 original size:14 final size:15
Alignment explanation
Indices: 19555883--19556028 Score: 90
Period size: 15 Copynumber: 9.9 Consensus size: 15
19555873 CTAAAACCTT
*
19555883 AAACCTT-AAAC-CT
1 AAACCTTAAAACTCA
*
19555896 AAACC-TAAAACTTCG
1 AAACCTTAAAAC-TCA
**
19555911 AAACCTTAAAACTTG
1 AAACCTTAAAACTCA
* **
19555926 AAATCTTAAAACCTTG
1 AAACCTTAAAA-CTCA
19555942 AAACCTTAAAACTCA
1 AAACCTTAAAACTCA
* *
19555957 AAACCCTAAAA-TCC
1 AAACCTTAAAACTCA
*
19555971 TAACCTTAAAAACTCA
1 AAACCTT-AAAACTCA
19555987 AAA-CTCTAAAA-TCA
1 AAACCT-TAAAACTCA
*
19556001 AAACCCTAAAA-TCCA
1 AAACCTTAAAACT-CA
*
19556016 AGACCTTAAAACT
1 AAACCTTAAAACT
19556029 TTGAAATCTT
Statistics
Matches: 107, Mismatches: 15, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
12 1 0.01
13 9 0.08
14 19 0.18
15 52 0.49
16 26 0.24
ACGTcount: A:0.49, C:0.26, G:0.03, T:0.22
Consensus pattern (15 bp):
AAACCTTAAAACTCA
Found at i:19556051 original size:44 final size:43
Alignment explanation
Indices: 19555930--19556054 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 43
19555920 AACTTGAAAT
* *
19555930 CTTAAAACCTTGAAACCTTAAAACTCAAAACCCTAAAATCCTAAC
1 CTTAAAA-CTTGAAAACTTAAAA-TCAAAACCCTAAAATCCAAAC
*
19555975 CTTAAAAAC-TCAAAACTCTAAAATCAAAACCCTAAAATCCAAGAC
1 CTT-AAAACTTGAAAACT-TAAAATCAAAACCCTAAAATCCAA-AC
* *
19556020 CTTAAAACTTTGAAATCTTAAAA-CAAGACCCTAAA
1 CTTAAAAC-TTGAAAACTTAAAATCAAAACCCTAAA
19556055 TTATAAAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
44 40 0.58
45 19 0.28
46 10 0.14
ACGTcount: A:0.50, C:0.26, G:0.03, T:0.22
Consensus pattern (43 bp):
CTTAAAACTTGAAAACTTAAAATCAAAACCCTAAAATCCAAAC
Found at i:19559216 original size:22 final size:22
Alignment explanation
Indices: 19559191--19559238 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
19559181 TTATCAAAGT
*
19559191 CCTCCGAA-CATGATTTATAAGA
1 CCTCC-AAGCATGATTTATAAAA
*
19559213 CCTCCAAGCATGATTTTTAAAA
1 CCTCCAAGCATGATTTATAAAA
19559235 CCTC
1 CCTC
19559239 TAAGTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (22 bp):
CCTCCAAGCATGATTTATAAAA
Found at i:19559421 original size:23 final size:23
Alignment explanation
Indices: 19559385--19559452 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
19559375 CACAAACTGA
*
19559385 GCATAAT-TTATAAGACCT-TCAG
1 GCATAATCTTCTAAGACCTCT-AG
* *
19559407 GCATGATCTTCTAAGTCCTCTAG
1 GCATAATCTTCTAAGACCTCTAG
* *
19559430 GCATAATCTTTTAAGTCCTCTAG
1 GCATAATCTTCTAAGACCTCTAG
19559453 TTATAATCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 6 0.15
23 32 0.82
24 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (23 bp):
GCATAATCTTCTAAGACCTCTAG
Found at i:19559460 original size:23 final size:23
Alignment explanation
Indices: 19559405--19559452 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
19559395 TAAGACCTTC
*
19559405 AGGCATGATCTTCTAAGTCCTCT
1 AGGCATAATCTTCTAAGTCCTCT
*
19559428 AGGCATAATCTTTTAAGTCCTCT
1 AGGCATAATCTTCTAAGTCCTCT
19559451 AG
1 AG
19559453 TTATAATCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (23 bp):
AGGCATAATCTTCTAAGTCCTCT
Found at i:19559569 original size:23 final size:23
Alignment explanation
Indices: 19559543--19559600 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
19559533 AATCTTTGGG
**
19559543 TATGATCTTTTAATTCCTCCAAA
1 TATGATCTTTTAAGACCTCCAAA
* *
19559566 TATGATC-TATAAGACCTCCACA
1 TATGATCTTTTAAGACCTCCAAA
*
19559588 TGTGATCTTTTAA
1 TATGATCTTTTAA
19559601 AAACCTTCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.40
Consensus pattern (23 bp):
TATGATCTTTTAAGACCTCCAAA
Found at i:19561213 original size:19 final size:22
Alignment explanation
Indices: 19561177--19561243 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 22
19561167 CTTTATTTTT
*
19561177 TTTGTTTATTTGTCTTTTTATTCA
1 TTTGTTTACTTG--TTTTTATTCA
19561201 TTT-TTTA-TT-TTTTGT-TT-A
1 TTTGTTTACTTGTTTT-TATTCA
19561219 TTTGTTTACTTGTTATTTATTCA
1 TTTGTTTACTTGTT-TTTATTCA
19561242 TT
1 TT
19561244 CGTAAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
18 4 0.11
19 10 0.28
20 3 0.08
21 3 0.08
22 6 0.17
23 7 0.19
24 3 0.08
ACGTcount: A:0.13, C:0.06, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTGTTTACTTGTTTTTATTCA
Found at i:19561373 original size:59 final size:62
Alignment explanation
Indices: 19561267--19561418 Score: 156
Period size: 61 Copynumber: 2.5 Consensus size: 62
19561257 TATAAAAACA
* **
19561267 TTTTTAAACAAAAAGTGAA-CTTTACCAACATATTGGAGTATTCAAGTTT-TTAAAAAAT-AAT
1 TTTTTAAATAAAAA--GAACCTTTACCAACATATTGGAGTATTCAAGTTTCAAAAAAAATAAAT
*
19561328 TTTTTAAATAAAAAGAACCTTT-CCAACATATTGGAG-AGTTTAAGTTTCCAAAAAAAATAAAT
1 TTTTTAAATAAAAAGAACCTTTACCAACATATTGGAGTA-TTCAAGTTT-CAAAAAAAATAAAT
* *
19561390 TTTTT-AATAAAATAAAACC-TTAGCAACAT
1 TTTTTAAATAAAA-AGAACCTTTACCAACAT
19561419 GCTAGAGGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 13
0.80 0.06 0.13
Matches are distributed among these distances:
58 1 0.01
59 25 0.32
60 4 0.05
61 29 0.37
62 19 0.24
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (62 bp):
TTTTTAAATAAAAAGAACCTTTACCAACATATTGGAGTATTCAAGTTTCAAAAAAAATAAAT
Found at i:19562409 original size:31 final size:31
Alignment explanation
Indices: 19562372--19562477 Score: 98
Period size: 31 Copynumber: 3.5 Consensus size: 31
19562362 TTATCATGTC
19562372 AAAATTAATAGAAAA-CT-TTTTAAAATTTTAA
1 AAAATT-ATA-AAAATCTATTTTAAAATTTTAA
*
19562403 AAAATTATAAAAATTTATTTTAAAATTTTAA
1 AAAATTATAAAAATCTATTTTAAAATTTTAA
* *
19562434 AAAATCTA-AAATAT-T-TTTAAAAAATTATTAA
1 AAAAT-TATAAAAATCTATTT-TAAAATT-TTAA
19562465 AAAATTA-AAAAAT
1 AAAATTATAAAAAT
19562478 ATATGAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
29 7 0.11
30 18 0.27
31 39 0.59
32 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (31 bp):
AAAATTATAAAAATCTATTTTAAAATTTTAA
Found at i:19562469 original size:41 final size:41
Alignment explanation
Indices: 19562410--19562519 Score: 111
Period size: 40 Copynumber: 2.7 Consensus size: 41
19562400 TAAAAAATTA
* * * *
19562410 TAAAAATTTATTTTAAAATTTTAAAAAATCTA-AAATATTTT
1 TAAAAAATTA-TTAAAAATTTTAAAAAATATAGAAATAGTTT
*
19562451 TAAAAAATTATTAAAAA-ATTAAAAAATATATGAAATAGTTT
1 TAAAAAATTATTAAAAATTTTAAAAAATATA-GAAATAGTTT
* *
19562492 T-ATAAATTA-TAAAAATTTAAAAAAATAT
1 TAAAAAATTATTAAAAATTTTAAAAAATAT
19562520 TAAAACTTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 17 0.29
40 23 0.40
41 18 0.31
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (41 bp):
TAAAAAATTATTAAAAATTTTAAAAAATATAGAAATAGTTT
Found at i:19562476 original size:40 final size:38
Alignment explanation
Indices: 19562432--19562524 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 38
19562422 TTAAAATTTT
* *
19562432 AAAAAATCTAAAATATTTTTAAAAAATTATTAAAAAATTA
1 AAAAAATATAAAATAGTTTT-AAAAATTA-TAAAAAATTA
* * *
19562472 AAAAATATATGAAATAGTTTTATAAATTATAAAAATTTA
1 AAAAA-ATATAAAATAGTTTTAAAAATTATAAAAAATTA
19562511 AAAAAATATTAAAA
1 AAAAAATA-TAAAA
19562525 CTTAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
38 3 0.07
39 18 0.40
40 12 0.27
41 12 0.27
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (38 bp):
AAAAAATATAAAATAGTTTTAAAAATTATAAAAAATTA
Done.