Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 62 of 352
Found at i:19413738 original size:23 final size:24
Alignment explanation
Indices: 19413711--19413776 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
19413701 CTAAAATATA
19413711 TATATGTTTTTATATA-TATTA-T
1 TATATGTTTTTATATACTATTAGT
*
19413733 GTATATGTTTTTA-ATATTATTAGT
1 -TATATGTTTTTATATACTATTAGT
19413757 TATAT-TTTTTATATACTATT
1 TATATGTTTTTATATACTATT
19413777 TTGTGTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
22 9 0.23
23 29 0.74
24 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
TATATGTTTTTATATACTATTAGT
Found at i:19414000 original size:15 final size:15
Alignment explanation
Indices: 19413968--19414002 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
19413958 ATATATTATG
19413968 TATA-TATATTTTTA
1 TATATTATATTTTTA
19413982 -ATATTATATTTTTA
1 TATATTATATTTTTA
19413996 TATATTA
1 TATATTA
19414003 CGTATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.16
14 10 0.53
15 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTATATTTTTA
Found at i:19414168 original size:25 final size:23
Alignment explanation
Indices: 19414133--19414194 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 23
19414123 TGTATGTGTA
*
19414133 TATATATATTTTTCTTTTATTATAT
1 TATAT-TATTTTTCTTCT-TTATAT
19414158 TATCATTATTTTTTCTTCTTTATAT
1 TAT-ATTA-TTTTTCTTCTTTATAT
19414183 TATATTATTTTT
1 TATATTATTTTT
19414195 ACGTACATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 5 0.15
24 4 0.12
25 14 0.41
26 11 0.32
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (23 bp):
TATATTATTTTTCTTCTTTATAT
Found at i:19416056 original size:24 final size:24
Alignment explanation
Indices: 19416015--19416071 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
19416005 ACTAAGGTAG
19416015 TATGCT-AATATATTATACTAATA
1 TATGCTAAATATATTATACTAATA
*
19416038 TATGCTAAATGTATTATACTAATA
1 TATGCTAAATATATTATACTAATA
* *
19416062 AATACTAAAT
1 TATGCTAAAT
19416072 CTTTTAGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (24 bp):
TATGCTAAATATATTATACTAATA
Found at i:19416766 original size:33 final size:33
Alignment explanation
Indices: 19416724--19416791 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
19416714 TACCTTTTGA
19416724 TAACATTCGAATATTGTAACAAGATTGGAGATT
1 TAACATTCGAATATTGTAACAAGATTGGAGATT
19416757 TAACATTCGAATATTGTAACAAGATTGGAGATT
1 TAACATTCGAATATTGTAACAAGATTGGAGATT
19416790 TA
1 TA
19416792 GTGTTTGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.34
Consensus pattern (33 bp):
TAACATTCGAATATTGTAACAAGATTGGAGATT
Found at i:19435270 original size:35 final size:35
Alignment explanation
Indices: 19435151--19435281 Score: 136
Period size: 35 Copynumber: 3.6 Consensus size: 35
19435141 CCTCATTGAA
* * ***
19435151 ATACCATACCTACATTTTACAACTCGGTATGGGCA
1 ATACCATACCTACATTTCACAACTCAGTATGGATG
* **
19435186 ATGCCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
*
19435223 ATAATACCATACCTACATATCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
19435261 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
19435282 CTTTTCCATG
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 47 0.60
38 2 0.03
40 29 0.37
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:19445886 original size:20 final size:20
Alignment explanation
Indices: 19445839--19445898 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
19445829 AGGTGACATC
19445839 ATTTAAAAA-AATTAATAT-
1 ATTTAAAAATAATTAATATA
19445857 -TTTAATAAAATAATTAATATA
1 ATTT-A-AAAATAATTAATATA
*
19445878 ATTTAAAAATAAATAA-ATA
1 ATTTAAAAATAATTAATATA
19445897 AT
1 AT
19445899 AATATTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 9 0.25
20 19 0.53
21 1 0.03
22 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTAAAAATAATTAATATA
Found at i:19449069 original size:24 final size:23
Alignment explanation
Indices: 19449023--19449069 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
19449013 TTAATAATAT
* *
19449023 TATAAAAATAAATTATCAAATTA
1 TATAAAAATAAAATAACAAATTA
*
19449046 TATAAAATTAAAATAACAAGATTA
1 TATAAAAATAAAATAACAA-ATTA
19449070 AATTACAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
TATAAAAATAAAATAACAAATTA
Found at i:19452789 original size:21 final size:23
Alignment explanation
Indices: 19452751--19452793 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
19452741 TAATTGATTT
*
19452751 TTTTTAAATTATTACTAATTTAC
1 TTTTAAAATTATTACTAATTTAC
19452774 TTTTAAAATT-TT-CTAATTTA
1 TTTTAAAATTATTACTAATTTA
19452794 TTCCCAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTAAAATTATTACTAATTTAC
Found at i:19455106 original size:14 final size:14
Alignment explanation
Indices: 19455083--19455238 Score: 71
Period size: 15 Copynumber: 10.1 Consensus size: 14
19455073 AAATAATATA
*
19455083 AAAATATATATGAT
1 AAAATATATATAAT
*
19455097 AAAATGTATATAAT
1 AAAATATATATAAT
*
19455111 ACAATATATATAAAAT
1 A-AA-ATATATATAAT
* * *
19455127 AAAGAAAGATATTAT
1 AAA-ATATATATAAT
19455142 AAAGAATAATATATAAT
1 -AA-AAT-ATATATAAT
19455159 AAAATATAATATGTAAT
1 AAAATAT-ATA--TAAT
*
19455176 AAAAAATATATAGAT
1 AAAATATATATA-AT
* *
19455191 ATAATGAAATATAAT
1 AAAAT-ATATATAAT
* *
19455206 ATGATAAGAAATATATAT
1 A--A-AATATATATA-AT
19455224 AAAATATA-ATAAT
1 AAAATATATATAAT
19455237 AA
1 AA
19455239 TATAACAAGT
Statistics
Matches: 108, Mismatches: 20, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
13 4 0.04
14 20 0.19
15 29 0.27
16 25 0.23
17 25 0.23
18 5 0.05
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (14 bp):
AAAATATATATAAT
Found at i:19455155 original size:17 final size:17
Alignment explanation
Indices: 19455147--19455242 Score: 79
Period size: 17 Copynumber: 5.5 Consensus size: 17
19455137 ATTATAAAGA
19455147 ATAATATATAATAAAAT
1 ATAATATATAATAAAAT
*
19455164 ATAATATGTAATAAAAAAT
1 ATAATATATAAT--AAAAT
* *
19455183 ATATAGATATAATGAAAT
1 ATA-ATATATAATAAAAT
*
19455201 ATAATATGATAA-GAAAT
1 ATAATAT-ATAATAAAAT
* *
19455218 AT-ATATAAAATATAAT
1 ATAATATATAATAAAAT
19455234 AATAATATA
1 -ATAATATA
19455243 ACAAGTATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
15 3 0.05
16 7 0.11
17 23 0.36
18 16 0.25
19 8 0.12
20 7 0.11
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
ATAATATATAATAAAAT
Found at i:19455165 original size:10 final size:10
Alignment explanation
Indices: 19455104--19455243 Score: 54
Period size: 10 Copynumber: 14.6 Consensus size: 10
19455094 GATAAAATGT
*
19455104 ATATAATACA
1 ATATAATAAA
19455114 ATATATATAAA
1 ATATA-ATAAA
*
19455125 ATA-AAGAAA
1 ATATAATAAA
*
19455134 GATATTATAAA
1 -ATATAATAAA
19455145 GA-ATAAT---
1 -ATATAATAAA
19455152 ATATAATAAA
1 ATATAATAAA
19455162 ATATAAT---
1 ATATAATAAA
*
19455169 ATGTAATAAA
1 ATATAATAAA
* *
19455179 AAAT-ATATAG
1 ATATAATA-AA
*
19455189 ATATAATGAA
1 ATATAATAAA
19455199 ATATAAT---
1 ATATAATAAA
*
19455206 ATGATAA-GAA
1 AT-ATAATAAA
19455216 ATATATATAAA
1 ATATA-ATAAA
19455227 ATATAATAATA
1 ATATAATAA-A
19455238 ATATAA
1 ATATAA
19455244 CAAGTATTTT
Statistics
Matches: 98, Mismatches: 13, Indels: 37
0.66 0.09 0.25
Matches are distributed among these distances:
6 1 0.01
7 13 0.13
8 4 0.04
9 10 0.10
10 41 0.42
11 29 0.30
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (10 bp):
ATATAATAAA
Found at i:19455193 original size:37 final size:38
Alignment explanation
Indices: 19455147--19455243 Score: 119
Period size: 37 Copynumber: 2.6 Consensus size: 38
19455137 ATTATAAAGA
*
19455147 ATAATATATAATAAAATATAATATGTAATAA-AAA-ATAT
1 ATAAAATATAATAAAATATAATATG--ATAAGAAATATAT
* *
19455185 AT-AGATATAATGAAATATAATATGATAAGAAATATAT
1 ATAAAATATAATAAAATATAATATGATAAGAAATATAT
19455222 ATAAAATATAATAATAATATAA
1 ATAAAATATAATAA-AATATAA
19455244 CAAGTATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
35 4 0.08
36 3 0.06
37 26 0.51
38 11 0.22
39 7 0.14
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (38 bp):
ATAAAATATAATAAAATATAATATGATAAGAAATATAT
Found at i:19455267 original size:65 final size:65
Alignment explanation
Indices: 19455149--19455301 Score: 154
Period size: 65 Copynumber: 2.4 Consensus size: 65
19455139 TATAAAGAAT
* * *
19455149 AATATATAATAAAATATAATATGTAATAAAAAATATATAGATATAATGAAATATAATATGATAAG
1 AATATATAATAAAATATAATATATAATAAAAAATATATACATATAA-GAAATATAATAAGATAAG
19455214 A
65 A
* * *
19455215 AATATAT-ATAAAATATAATA-ATAATATAACAAGTATTTTACATATAA-AAATATAGTAAGATA
1 AATATATAATAAAATATAATATATAATA-AA-AAATA-TATACATATAAGAAATATAATAAGATA
19455277 A-A
63 AGA
* *
19455279 TAATACATAATAAAAAAT-ATATA
1 -AATATATAATAAAATATAATATA
19455302 ACGTATAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
64 6 0.08
65 38 0.52
66 20 0.27
67 9 0.12
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (65 bp):
AATATATAATAAAATATAATATATAATAAAAAATATATACATATAAGAAATATAATAAGATAAGA
Found at i:19457817 original size:20 final size:20
Alignment explanation
Indices: 19457781--19457819 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19457771 AAAAGAATAA
*
19457781 ATTCAAGAACAAGAATAAAG
1 ATTCAAGAACAAAAATAAAG
19457801 ATTCAA-AACAATAAATAAA
1 ATTCAAGAACAA-AAATAAA
19457820 AAATATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.64, C:0.10, G:0.08, T:0.18
Consensus pattern (20 bp):
ATTCAAGAACAAAAATAAAG
Found at i:19459431 original size:27 final size:27
Alignment explanation
Indices: 19459383--19459540 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
19459373 GCGAGGCTGC
* * *
19459383 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
19459410 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
19459436 -AGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
19459462 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
19459489 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
19459516 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
19459541 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 8, Indels: 16
0.83 0.06 0.12
Matches are distributed among these distances:
25 6 0.05
26 21 0.18
27 84 0.73
28 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:19459514 original size:54 final size:54
Alignment explanation
Indices: 19459383--19459540 Score: 241
Period size: 54 Copynumber: 3.0 Consensus size: 54
19459373 GCGAGGCTGC
* * * *
19459383 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
*
19459436 -AGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
19459489 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
19459541 GACGCTTCCT
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
52 11 0.11
53 35 0.36
54 50 0.52
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:19461191 original size:26 final size:26
Alignment explanation
Indices: 19461161--19461268 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
19461151 TGAAATTCCC
*
19461161 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
19461187 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
**
19461213 ATCATAAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
19461239 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
19461265 ATCA
1 ATCA
19461269 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19466573 original size:27 final size:27
Alignment explanation
Indices: 19466525--19466682 Score: 155
Period size: 27 Copynumber: 5.9 Consensus size: 27
19466515 GCGAGGCTGC
* * *
19466525 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
19466552 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
19466578 -AGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
19466604 CAGATAATCGTGGCATAGCCACCA-AAA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
19466631 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
19466658 CAGATAATTATGACATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
19466683 GACGCTTCCT
Statistics
Matches: 109, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
25 6 0.06
26 22 0.20
27 76 0.70
28 5 0.05
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:19466654 original size:54 final size:53
Alignment explanation
Indices: 19466526--19466681 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 53
19466516 CGAGGCTGCC
* * * * *
19466526 AGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 AGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAAAA
*
19466578 AGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAAAA
1 AGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAAAA
* * *
19466631 CAGATATATGTGGTAGAGCCACCAGATCAGATAATTATGACATAGCCACCA
1 -AGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCA
19466682 GGACGCTTCC
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
52 11 0.12
53 34 0.37
54 46 0.51
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (53 bp):
AGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAAAA
Found at i:19468342 original size:26 final size:26
Alignment explanation
Indices: 19468303--19468410 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
19468293 TGAAATTCTC
*
19468303 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19468329 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
19468355 ATCATGAAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
19468381 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19468407 ATCA
1 ATCA
19468411 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19468421 original size:10 final size:10
Alignment explanation
Indices: 19468406--19468430 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19468396 CCTAACCCAT
19468406 TATCAATTTG
1 TATCAATTTG
19468416 TATCAATTTG
1 TATCAATTTG
19468426 TATCA
1 TATCA
19468431 TAAATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:19486536 original size:16 final size:16
Alignment explanation
Indices: 19486515--19486566 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
19486505 TGTATATATA
19486515 AATTTTAATTTTATGT
1 AATTTTAATTTTATGT
* *
19486531 AATTTT-A-TATATGA
1 AATTTTAATTTTATGT
* *
19486545 AATTTTAATTTGATCT
1 AATTTTAATTTTATGT
19486561 AATTTT
1 AATTTT
19486567 TTTGTAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 11 0.39
15 2 0.07
16 15 0.54
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (16 bp):
AATTTTAATTTTATGT
Found at i:19486550 original size:30 final size:29
Alignment explanation
Indices: 19486501--19486566 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
19486491 GTTTAATGTA
* * *
19486501 TAATTGTATATATAAATTTTAATTTTATG
1 TAATTTTATATATAAATTTTAATTTGATC
19486530 TAATTTTATATATGAAATTTTAATTTGATC
1 TAATTTTATATAT-AAATTTTAATTTGATC
19486560 TAATTTT
1 TAATTTT
19486567 TTTGTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (29 bp):
TAATTTTATATATAAATTTTAATTTGATC
Found at i:19502200 original size:69 final size:69
Alignment explanation
Indices: 19502089--19502227 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
19502079 GATAGGAAAA
* *
19502089 ACAGGTTCCAAAACAGGAGTAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
19502154 GCTG
66 GCTG
19502158 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
19502223 GCTG
66 GCTG
19502227 A
1 A
19502228 TAGAGTCTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.28
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:19508363 original size:27 final size:27
Alignment explanation
Indices: 19508343--19508395 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
19508333 AAATTTATAT
19508343 TTCT-TTATATAAATTATAAATCTATTG
1 TTCTCTTA-ATAAATTATAAATCTATTG
*
19508370 TTCTCTTAATAAATTATAAATGTATT
1 TTCTCTTAATAAATTATAAATCTATT
19508396 ATGTTGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (27 bp):
TTCTCTTAATAAATTATAAATCTATTG
Found at i:19508972 original size:6 final size:6
Alignment explanation
Indices: 19508949--19509026 Score: 131
Period size: 6 Copynumber: 13.0 Consensus size: 6
19508939 ATGCTGATCT
19508949 ATACTA TATACT- ATACTA ATACTA ATACTA ATACTA ATACTA ATACTA
1 ATACTA -ATACTA ATACTA ATACTA ATACTA ATACTA ATACTA ATACTA
*
19508997 ATACTA ATACTA ATACTA ATACTG ATACTA
1 ATACTA ATACTA ATACTA ATACTA ATACTA
19509027 TACAGAGAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
5 5 0.07
6 58 0.85
7 5 0.07
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (6 bp):
ATACTA
Found at i:19510659 original size:21 final size:22
Alignment explanation
Indices: 19510633--19510673 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
19510623 TTTTTAAATA
*
19510633 TATTAATATAA-ATAGTATTTT
1 TATTAATATAATATAATATTTT
19510654 TATTAATATAATATAATATT
1 TATTAATATAATATAATATT
19510674 GAATCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTAATATAATATAATATTTT
Found at i:19519354 original size:15 final size:15
Alignment explanation
Indices: 19519334--19519362 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19519324 AAAACTACCC
19519334 ATCCATCAACCCAAT
1 ATCCATCAACCCAAT
19519349 ATCCATCAACCCAA
1 ATCCATCAACCCAA
19519363 ACCAATTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (15 bp):
ATCCATCAACCCAAT
Found at i:19520773 original size:43 final size:43
Alignment explanation
Indices: 19520725--19520812 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
19520715 GATGCTGTAA
19520725 TTAATTATTTTGATGTTATTGGTTGGAGCTCATTTGCAAATAT
1 TTAATTATTTTGATGTTATTGGTTGGAGCTCATTTGCAAATAT
19520768 TTAATTATTTTGATGTTATTGGTTGGAGCTCATTTGCAAATAT
1 TTAATTATTTTGATGTTATTGGTTGGAGCTCATTTGCAAATAT
19520811 TT
1 TT
19520813 CTTGTCATGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.25, C:0.07, G:0.18, T:0.50
Consensus pattern (43 bp):
TTAATTATTTTGATGTTATTGGTTGGAGCTCATTTGCAAATAT
Found at i:19522855 original size:8 final size:8
Alignment explanation
Indices: 19522842--19522881 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
19522832 TTTTGTTTTG
19522842 TTTTATTA
1 TTTTATTA
19522850 TTTTATTA
1 TTTTATTA
19522858 TTTTTATTTTA
1 -TTTTA--TTA
19522869 TTTTATTA
1 TTTTATTA
19522877 TTTTA
1 TTTTA
19522882 GGATTAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 16 0.55
9 5 0.17
10 5 0.17
11 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATTA
Found at i:19522867 original size:22 final size:22
Alignment explanation
Indices: 19522827--19522878 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
19522817 AAATAGAATA
* *
19522827 TATTATTTTGTTTTGTTTTATTAT
1 TATTATTAT-TTTTATTTTATT-T
19522851 T-TTATTATTTTTATTTTATTT
1 TATTATTATTTTTATTTTATTT
19522872 TATTATT
1 TATTATT
19522879 TTAGGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 2 0.08
22 16 0.64
23 6 0.24
24 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (22 bp):
TATTATTATTTTTATTTTATTT
Found at i:19522872 original size:27 final size:26
Alignment explanation
Indices: 19522827--19522881 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
19522817 AAATAGAATA
* *
19522827 TATTATTTTGTTTTGTTTTATTATTT
1 TATTATTTTATTTTATTTTATTATTT
19522853 TATTATTTTTATTTTATTTTATTATTT
1 TATTA-TTTTATTTTATTTTATTATTT
19522880 TA
1 TA
19522882 GGATTAAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (26 bp):
TATTATTTTATTTTATTTTATTATTT
Found at i:19523974 original size:19 final size:19
Alignment explanation
Indices: 19523950--19523987 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19523940 GAAAATAGAG
19523950 CGAAAGCAACTCAAAAGCA
1 CGAAAGCAACTCAAAAGCA
19523969 CGAAAGCAACTCAAAAGCA
1 CGAAAGCAACTCAAAAGCA
19523988 AAGGAGTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.26, G:0.16, T:0.05
Consensus pattern (19 bp):
CGAAAGCAACTCAAAAGCA
Found at i:19524519 original size:21 final size:20
Alignment explanation
Indices: 19524489--19524532 Score: 54
Period size: 23 Copynumber: 2.1 Consensus size: 20
19524479 TAAAACTATC
19524489 ATTTTTAAT-ATTATAATATT
1 ATTTTTAATAATTATAAT-TT
19524509 ATTTTTAAATAAATTATAATTT
1 ATTTTT-AAT-AATTATAATTT
19524531 AT
1 AT
19524533 AACGCTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 4 0.19
23 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTAATAATTATAATTT
Found at i:19548401 original size:18 final size:18
Alignment explanation
Indices: 19548378--19548417 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
19548368 CAATTCTTGA
19548378 TATAACATCATTTTATTT
1 TATAACATCATTTTATTT
19548396 TATAACATCATTTTATTT
1 TATAACATCATTTTATTT
19548414 TATA
1 TATA
19548418 TGTTGCATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (18 bp):
TATAACATCATTTTATTT
Found at i:19548451 original size:49 final size:47
Alignment explanation
Indices: 19548396--19548488 Score: 159
Period size: 49 Copynumber: 1.9 Consensus size: 47
19548386 CATTTTATTT
19548396 TATAACATCATTTTATTTTATATGTTGCATACATTAACACAATTATTGA
1 TATAACATCATTTTATTTTATATGTTGCATACA-TAA-ACAATTATTGA
*
19548445 TATAACATCATTTTATTTTATATGTTGCATATATAAACAATTAT
1 TATAACATCATTTTATTTTATATGTTGCATACATAAACAATTAT
19548489 ATTTATCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
47 8 0.19
48 3 0.07
49 32 0.74
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (47 bp):
TATAACATCATTTTATTTTATATGTTGCATACATAAACAATTATTGA
Found at i:19548614 original size:30 final size:30
Alignment explanation
Indices: 19548535--19548602 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
19548525 CTTTAAATAT
*
19548535 GTAT-GATTAAATCAAAATTAAAACTTTAA
1 GTATAGATTAAATCAAAATTAAAACTTCAA
19548564 GTATAGATTAAATCAAAATTAAAACTTCAA
1 GTATAGATTAAATCAAAATTAAAACTTCAA
19548594 GTATAGATT
1 GTATAGATT
19548603 TGAACACAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 4 0.11
30 33 0.89
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (30 bp):
GTATAGATTAAATCAAAATTAAAACTTCAA
Found at i:19554898 original size:29 final size:28
Alignment explanation
Indices: 19554861--19554933 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 28
19554851 GTAATTTATA
*
19554861 TATTTTATATAAAAAATAGATAAATTAGT
1 TATTTTATATAAAAAATAG-CAAATTAGT
*
19554890 TATTGTATATTAAATCAAATAGCAAATTAGT
1 TATTTTATA-TAAA--AAATAGCAAATTAGT
19554921 TATTTTAT-TAAAA
1 TATTTTATATAAAA
19554934 GTATCATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 1 0.03
29 12 0.32
30 4 0.11
31 15 0.39
32 6 0.16
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (28 bp):
TATTTTATATAAAAAATAGCAAATTAGT
Found at i:19557126 original size:15 final size:15
Alignment explanation
Indices: 19557093--19557125 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19557083 TATAACGAAT
*
19557093 AAAATAAAATTGAAG
1 AAAATAAAATTCAAG
19557108 AAAATAAAATTC-AG
1 AAAATAAAATTCAAG
19557122 AAAA
1 AAAA
19557126 AGAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.70, C:0.03, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAATAAAATTCAAG
Found at i:19559604 original size:23 final size:25
Alignment explanation
Indices: 19559545--19559605 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 25
19559535 TATTAATAAC
19559545 AATAATAATGAATAATACAAAAATTG
1 AATAATAAT-AATAATACAAAAATTG
*
19559571 AA-AGTAA-AATAATA-AATAAA-T-
1 AATAATAATAATAATACAA-AAATTG
19559592 AATAATAATAATAA
1 AATAATAATAATAA
19559606 GGGCAAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 2 0.07
22 7 0.23
23 15 0.50
25 4 0.13
26 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (25 bp):
AATAATAATAATAATACAAAAATTG
Found at i:19566909 original size:14 final size:13
Alignment explanation
Indices: 19566873--19566910 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
19566863 AAATTTAAAT
19566873 CTAAATAATTATC
1 CTAAATAATTATC
*
19566886 CTTAATAATTATC
1 CTAAATAATTATC
19566899 CTAATATAATTA
1 CTAA-ATAATTA
19566911 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:19568165 original size:31 final size:31
Alignment explanation
Indices: 19568128--19568191 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
19568118 CACATGATCA
19568128 TGTGGCCTACACGGCCCAAAAGCCTAGCCTG
1 TGTGGCCTACACGGCCCAAAAGCCTAGCCTG
19568159 TGTGGCCTACACGGCCCAAAAGCCTAGCCTG
1 TGTGGCCTACACGGCCCAAAAGCCTAGCCTG
19568190 TG
1 TG
19568192 CCACCTACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.22, C:0.34, G:0.27, T:0.17
Consensus pattern (31 bp):
TGTGGCCTACACGGCCCAAAAGCCTAGCCTG
Found at i:19568199 original size:31 final size:31
Alignment explanation
Indices: 19568133--19568203 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
19568123 GATCATGTGG
***
19568133 CCTACACGGCCCAAAAGCCTAGCCTGTGTGG
1 CCTACACGGCCCAAAAGCCTAGCCTGTGCCA
19568164 CCTACACGGCCCAAAAGCCTAGCCTGTGCCA
1 CCTACACGGCCCAAAAGCCTAGCCTGTGCCA
19568195 CCTACACGG
1 CCTACACGG
19568204 TTTATAGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.24, C:0.39, G:0.23, T:0.14
Consensus pattern (31 bp):
CCTACACGGCCCAAAAGCCTAGCCTGTGCCA
Found at i:19569609 original size:43 final size:43
Alignment explanation
Indices: 19569534--19569650 Score: 144
Period size: 43 Copynumber: 2.7 Consensus size: 43
19569524 ATTAGAACAA
* * * *
19569534 TATACTGGCACACATAGTGCATCATCGAATATACCAAAGTAAT
1 TATACTGACACACATAGTGCATCATTGGATATACCAAAGCAAT
* * *
19569577 TATGCTGACACATATAGTGCATCATTGGATATACCGAAGCAAT
1 TATACTGACACACATAGTGCATCATTGGATATACCAAAGCAAT
* **
19569620 TATATTGGTACACATAGTGCATCATTGGATA
1 TATACTGACACACATAGTGCATCATTGGATA
19569651 AATCGAAGAA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (43 bp):
TATACTGACACACATAGTGCATCATTGGATATACCAAAGCAAT
Found at i:19573950 original size:16 final size:16
Alignment explanation
Indices: 19573929--19573984 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
19573919 AATTGAAAGC
19573929 AAATTAGAATTTTTTG
1 AAATTAGAATTTTTTG
* *
19573945 AAATTAAAATTTTTTT
1 AAATTAGAATTTTTTG
* * *
19573961 AATTTTAGAAATTTTAG
1 AA-ATTAGAATTTTTTG
19573978 AAATTAG
1 AAATTAG
19573985 TAACAAATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
16 20 0.65
17 11 0.35
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (16 bp):
AAATTAGAATTTTTTG
Found at i:19576734 original size:8 final size:8
Alignment explanation
Indices: 19576723--19576747 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19576713 ACAAAAATAA
19576723 AAAAAATT
1 AAAAAATT
19576731 AAAAAATT
1 AAAAAATT
19576739 AAAAAATT
1 AAAAAATT
19576747 A
1 A
19576748 TTTTATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAAATT
Found at i:19578503 original size:22 final size:22
Alignment explanation
Indices: 19578477--19578543 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
19578467 ATATCCAAAT
*
19578477 AATAACAATAAAATAATAGT-AA
1 AATAATAATAAAATAATA-TCAA
* * * *
19578499 TATAATAGTGAAATGATATCAA
1 AATAATAATAAAATAATATCAA
*
19578521 AATAATAATAAAATAATAACAA
1 AATAATAATAAAATAATATCAA
19578543 A
1 A
19578544 TTTTTTATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.25
Consensus pattern (22 bp):
AATAATAATAAAATAATATCAA
Found at i:19578533 original size:11 final size:11
Alignment explanation
Indices: 19578477--19578539 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
19578467 ATATCCAAAT
*
19578477 AATAACAATAA
1 AATAATAATAA
*
19578488 AATAATAGTAA
1 AATAATAATAA
* * *
19578499 TATAATAGTGA
1 AATAATAATAA
*
19578510 AATGAT-ATCAA
1 AATAATAAT-AA
19578521 AATAATAATAA
1 AATAATAATAA
19578532 AATAATAA
1 AATAATAA
19578540 CAAATTTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
10 1 0.02
11 38 0.93
12 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.27
Consensus pattern (11 bp):
AATAATAATAA
Found at i:19579719 original size:15 final size:15
Alignment explanation
Indices: 19579699--19579728 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19579689 CTAAAAACTA
*
19579699 AAATTTTATACTATT
1 AAATTTTATAATATT
19579714 AAATTTTATAATATT
1 AAATTTTATAATATT
19579729 CAAAATAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATTTTATAATATT
Found at i:19583534 original size:21 final size:21
Alignment explanation
Indices: 19583510--19583577 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
19583500 CATAGGCGTA
*
19583510 TGCCTCAGTCACACGGCTGTG
1 TGCCTCAATCACACGGCTGTG
**
19583531 TGCCCTCCTTCACACGGGC-GTG
1 TG-CCTCAATCACAC-GGCTGTG
* *
19583553 TGCCTTAACCACACGGCTGTG
1 TGCCTCAATCACACGGCTGTG
19583574 TGCC
1 TGCC
19583578 CCTTCTCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.08
21 17 0.45
22 15 0.39
23 3 0.08
ACGTcount: A:0.13, C:0.37, G:0.26, T:0.24
Consensus pattern (21 bp):
TGCCTCAATCACACGGCTGTG
Found at i:19583543 original size:22 final size:22
Alignment explanation
Indices: 19583518--19583578 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
19583508 TATGCCTCAG
*
19583518 TCACACGGCTGTGTGCCCT-CC
1 TCACACGGCTGTGTGCCCTAAC
*
19583539 TTCACACGGGC-GTGTGCCTTAAC
1 -TCACAC-GGCTGTGTGCCCTAAC
19583562 -CACACGGCTGTGTGCCC
1 TCACACGGCTGTGTGCCC
19583579 CTTCTCATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 3 0.09
21 12 0.36
22 14 0.42
23 4 0.12
ACGTcount: A:0.13, C:0.38, G:0.26, T:0.23
Consensus pattern (22 bp):
TCACACGGCTGTGTGCCCTAAC
Found at i:19588361 original size:21 final size:22
Alignment explanation
Indices: 19588326--19588385 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 22
19588316 ATATGGATTG
19588326 AAAAATAAT--TA-TTACACAT
1 AAAAATAATGATATTTACACAT
*
19588345 AAAAA-AATTATATTT--AC-T
1 AAAAATAATGATATTTACACAT
19588363 AAAAATAATGATATTTACA-AT
1 AAAAATAATGATATTTACACAT
19588384 AA
1 AA
19588386 TTATTTGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
18 9 0.27
19 16 0.48
20 2 0.06
21 6 0.18
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAAATAATGATATTTACACAT
Found at i:19588827 original size:27 final size:27
Alignment explanation
Indices: 19588796--19588849 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
19588786 TTCTCTCTCC
* *
19588796 AAAAACAACCTATTTTCATAAATATTA
1 AAAAACAACCTATTCTCAAAAATATTA
**
19588823 AAAAACGGCCTATTCTCAAAAATATTA
1 AAAAACAACCTATTCTCAAAAATATTA
19588850 CTTGGCATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAAACAACCTATTCTCAAAAATATTA
Found at i:19589518 original size:2 final size:2
Alignment explanation
Indices: 19589506--19589535 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19589496 ATAATTTACC
*
19589506 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19589536 TACCTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:19589765 original size:28 final size:28
Alignment explanation
Indices: 19589725--19589780 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
19589715 CTCAATCAAA
19589725 ATTTGGGATTTAATTAATTTATTATTAT
1 ATTTGGGATTTAATTAATTTATTATTAT
19589753 ATTTGGGATTTAATTAATTTATTATTAT
1 ATTTGGGATTTAATTAATTTATTATTAT
19589781 TTTCCTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (28 bp):
ATTTGGGATTTAATTAATTTATTATTAT
Found at i:19590268 original size:3 final size:3
Alignment explanation
Indices: 19590260--19590299 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
19590250 AGGAATCATA
19590260 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19590300 TGAGACATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19600545 original size:13 final size:13
Alignment explanation
Indices: 19600529--19600554 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19600519 AAAATGATTT
19600529 TTTGAAAATTTCG
1 TTTGAAAATTTCG
19600542 TTTGAAAATTTCG
1 TTTGAAAATTTCG
19600555 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTGAAAATTTCG
Found at i:19601289 original size:29 final size:30
Alignment explanation
Indices: 19601230--19601287 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19601220 TCCGAGCCTT
*
19601230 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
19601260 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
19601288 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:19601517 original size:13 final size:13
Alignment explanation
Indices: 19601499--19601530 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
19601489 TTTCCAGCAA
19601499 TTATGAATTTATT
1 TTATGAATTTATT
19601512 TTATGAATTTATT
1 TTATGAATTTATT
*
19601525 TGATGA
1 TTATGA
19601531 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:19601738 original size:50 final size:50
Alignment explanation
Indices: 19601625--19601866 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
19601615 ATTTGGGTAA
* * *
19601625 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
19601681 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
19601731 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
19601781 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCA-CTATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
19601831 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
19601867 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 2 0.01
50 89 0.54
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:19601814 original size:100 final size:103
Alignment explanation
Indices: 19601625--19601874 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
19601615 ATTTGGGTAA
19601625 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
19601690 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCA-CGATCACG
* * *
19601731 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
19601793 TAAGACCATGTCTGGGACATGGCATGGGCACTATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACGATCACG
* *
19601831 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
19601875 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 2 0.02
100 49 0.37
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACGATCACG
Found at i:19603996 original size:15 final size:16
Alignment explanation
Indices: 19603964--19603996 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19603954 TAGGTTTTTT
*
19603964 TTAAAAAAATTTATAA
1 TTAAAAAAATATATAA
19603980 TTAAAAAAATATA-AA
1 TTAAAAAAATATATAA
19603995 TT
1 TT
19603997 TTAGAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAAAAATATATAA
Found at i:19604012 original size:18 final size:19
Alignment explanation
Indices: 19603989--19604029 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19603979 ATTAAAAAAA
19603989 TATAAAT-TTTAGAACTTT
1 TATAAATATTTAGAACTTT
* *
19604007 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAACTTT
19604026 TATA
1 TATA
19604030 GAGTTACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAGAACTTT
Found at i:19616169 original size:26 final size:26
Alignment explanation
Indices: 19616124--19616174 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
19616114 ACAGAGGCTT
*
19616124 AGTTGTGACCACATGTTCATAAACTC
1 AGTTGTGACCACAAGTTCATAAACTC
19616150 AGTTGTGACCACACAG-TCATAAACT
1 AGTTGTGACCACA-AGTTCATAAACT
19616175 TTGTTTTCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (26 bp):
AGTTGTGACCACAAGTTCATAAACTC
Found at i:19620714 original size:11 final size:11
Alignment explanation
Indices: 19620700--19620752 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
19620690 AGATAAATAT
19620700 TATTTTATTAA
1 TATTTTATTAA
*
19620711 TATTTTAATAA
1 TATTTTATTAA
* *
19620722 TATATT-TTAT
1 TATTTTATTAA
*
19620732 TATTTTATTAT
1 TATTTTATTAA
19620743 TA-TTTATTAA
1 TATTTTATTAA
19620753 GTATAAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 14 0.40
11 21 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:19620743 original size:29 final size:32
Alignment explanation
Indices: 19620671--19620751 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 32
19620661 ATGTTGATGA
*
19620671 TATTTTATAATTATTAATTAGATAAATATTAT
1 TATTTTATTATTATTAATTAGATAAATATTAT
* * *
19620703 T-TTATTAATATT-TTAA-TA-ATATATTTTAT
1 TATT-TTATTATTATTAATTAGATAAATATTAT
*
19620732 TATTTTATTATTATTTATTA
1 TATTTTATTATTATTAATTA
19620752 AGTATAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
29 17 0.44
30 7 0.18
31 8 0.21
32 7 0.18
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (32 bp):
TATTTTATTATTATTAATTAGATAAATATTAT
Found at i:19622035 original size:51 final size:51
Alignment explanation
Indices: 19621959--19622075 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
19621949 CAAGTTATCT
*
19621959 GGATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAATTCC
1 GGATGAAATATGAAGCTCTTATTGAAGCTAGAGCAACAAAGTAATAATTCC
* **
19622010 GGATGAAATATGAAGCTCTTATTGAAGCTAGAGCAACAAGGTAATAATTTT
1 GGATGAAATATGAAGCTCTTATTGAAGCTAGAGCAACAAAGTAATAATTCC
19622061 GGAT-AAAGTATGAAG
1 GGATGAAA-TATGAAG
19622076 TAAGTTTGAG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 3 0.05
51 58 0.95
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.26
Consensus pattern (51 bp):
GGATGAAATATGAAGCTCTTATTGAAGCTAGAGCAACAAAGTAATAATTCC
Found at i:19622762 original size:15 final size:15
Alignment explanation
Indices: 19622742--19622770 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19622732 GTGCCTTACA
19622742 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
19622757 CACCGTGTTATCAA
1 CACCGTGTTATCAA
19622771 GAAATAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:19628225 original size:17 final size:17
Alignment explanation
Indices: 19628189--19628227 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19628179 TGATTTTGCG
*
19628189 TCTGTATTTGTAATGCA
1 TCTGTATTTGTAATGAA
19628206 TCTGTATTTGTAACT-AA
1 TCTGTATTTGTAA-TGAA
19628223 TCTGT
1 TCTGT
19628228 CTGTCATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (17 bp):
TCTGTATTTGTAATGAA
Found at i:19629555 original size:56 final size:56
Alignment explanation
Indices: 19629461--19629606 Score: 213
Period size: 56 Copynumber: 2.6 Consensus size: 56
19629451 GTAGTCACAC
*
19629461 AGGAATCAAATTGCTAAAAGATAATATCCC-TCAGTAATATAATATAATATCCCATT
1 AGGAATCAAATTGCTAAAAGATAATATCCCAT-AATAATATAATATAATATCCCATT
* ** *
19629517 AGGAATCAAATTGCTAAGAGATAATATCCCATAATAATATCCTATAATATCTCATT
1 AGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATAATATAATATCCCATT
* *
19629573 AGGAATTAAATTGCAAAAAGATAATATCCCATAA
1 AGGAATCAAATTGCTAAAAGATAATATCCCATAA
19629607 CCTCAAGTTG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 80 0.99
57 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (56 bp):
AGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATAATATAATATCCCATT
Found at i:19633857 original size:52 final size:48
Alignment explanation
Indices: 19633795--19633969 Score: 187
Period size: 47 Copynumber: 3.6 Consensus size: 48
19633785 GAAATGTGAT
* *
19633795 TTCCGTATAAGACCATAGT-TGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATA-TCTGGGATATGGCATC-GAG---TGTGATATGTGC
*
19633847 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATATCTGGGATATGGCATCGAGTGTGATATGTGC
* *
19633894 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATATCTGGGATATGGCATCGAGTGTGATATGTGC
* * ** *
19633940 ATCCGTGTAAGACCATGGCTGGGCTATGGC
1 TTCCGTATAAGACCATATCTGGGATATGGC
19633970 CTCGGTATGT
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 23 0.21
47 54 0.50
50 1 0.01
51 2 0.02
52 28 0.26
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
TTCCGTATAAGACCATATCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:19634373 original size:24 final size:22
Alignment explanation
Indices: 19634330--19634373 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
19634320 ATAAATTGTG
* *
19634330 AAAATTGAGTTAAGGGCTGAAT
1 AAAATTGAGTTAAAGCCTGAAT
19634352 AAAATATGAGATTAAAGCCTGA
1 AAAAT-TGAG-TTAAAGCCTGA
19634374 TGAGTCTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 4 0.22
24 9 0.50
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (22 bp):
AAAATTGAGTTAAAGCCTGAAT
Found at i:19639932 original size:17 final size:17
Alignment explanation
Indices: 19639896--19639935 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
19639886 ATTATATAAG
* *
19639896 TATATTATTAAATTATA
1 TATATTATTAAATAAAA
*
19639913 TATATTATTAAGTAAAA
1 TATATTATTAAATAAAA
19639930 TATATT
1 TATATT
19639936 TATATAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TATATTATTAAATAAAA
Found at i:19641360 original size:15 final size:16
Alignment explanation
Indices: 19641325--19641362 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19641315 AGTCCCATTA
*
19641325 TATTTAAAAATTTATT
1 TATTTTAAAATTTATT
*
19641341 TATTTTAAACTTTA-T
1 TATTTTAAAATTTATT
19641356 TATTTTA
1 TATTTTA
19641363 TATTTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTAAAATTTATT
Found at i:19642033 original size:22 final size:23
Alignment explanation
Indices: 19642008--19642052 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
19641998 CACTACTTTT
19642008 CTTAT-ATACTAAGTTAT-TATAC
1 CTTATAATA-TAAGTTATATATAC
*
19642030 CTTATAATATAATTTATATATAC
1 CTTATAATATAAGTTATATATAC
19642053 ATATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (23 bp):
CTTATAATATAAGTTATATATAC
Found at i:19654066 original size:119 final size:119
Alignment explanation
Indices: 19653851--19654323 Score: 786
Period size: 119 Copynumber: 4.0 Consensus size: 119
19653841 AGGTTGTAGC
19653851 ATAGCAGATTTGACCTTCAGACAATTAGATTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATTTGACCTTCAGACAATTAGATTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
*
19653916 TTATAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAT
*
19653970 ATAGCAGATTTGACCTTCAGACAATTAGATTGAAGCAGATCCAAGATGACTTGGTATTCTTGTGT
1 ATAGCAGATTTGACCTTCAGACAATTAGATTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
*
19654035 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGATGTTCTCAGAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAT
*
19654089 ATAGCAGATTTGACCTTTAGACAATTAGATTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATTTGACCTTCAGACAATTAGATTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
* *
19654154 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTTAGATGTTCTCAGAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAT
* *** * *
19654208 ATAGCAGATCT-AGCCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 ATAGCAGATTTGA-CCTTCAGACAATTAGATTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
19654272 GTTACAAGAAACAAATCGAGGGCATAGCAGATTTGACTCTCAGATATTCTCA
65 TTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
19654324 AACAAATCCA
Statistics
Matches: 334, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
118 1 0.00
119 333 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (119 bp):
ATAGCAGATTTGACCTTCAGACAATTAGATTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGAT
Found at i:19654667 original size:40 final size:40
Alignment explanation
Indices: 19654623--19654699 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
19654613 AACAAATCTA
19654623 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGG
1 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGG
*
19654663 AGATGATTTGGCATCTCTGTGTTGTCAGAGAACAAAT
1 AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
19654700 CAAAGTTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (40 bp):
AGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGG
Found at i:19656378 original size:8 final size:8
Alignment explanation
Indices: 19656365--19656397 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
19656355 ATATAATAAA
19656365 ATTATTTT
1 ATTATTTT
19656373 ATTA-TTT
1 ATTATTTT
*
19656380 ATTATTAT
1 ATTATTTT
19656388 ATTATTTT
1 ATTATTTT
19656396 AT
1 AT
19656398 ATGATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTATTTT
Found at i:19656384 original size:10 final size:11
Alignment explanation
Indices: 19656367--19656429 Score: 52
Period size: 10 Copynumber: 6.5 Consensus size: 11
19656357 ATAATAAAAT
19656367 TATT-TTATTA
1 TATTATTATTA
19656377 T-TTATTATTA
1 TATTATTATTA
19656387 TATTATT-TTA
1 TATTATTATTA
*
19656397 TATGA-TA-TA
1 TATTATTATTA
*
19656406 TA-TATTTTTA
1 TATTATTATTA
19656416 TATT-TTATTA
1 TATTATTATTA
19656426 -ATTA
1 TATTA
19656430 AATATTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
8 1 0.02
9 11 0.26
10 24 0.57
11 6 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTATTATTA
Found at i:19656385 original size:15 final size:15
Alignment explanation
Indices: 19656365--19656394 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19656355 ATATAATAAA
*
19656365 ATTATTTTATTATTT
1 ATTATTATATTATTT
19656380 ATTATTATATTATTT
1 ATTATTATATTATTT
19656395 TATATGATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTATTATATTATTT
Found at i:19656864 original size:21 final size:22
Alignment explanation
Indices: 19656827--19656873 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
19656817 ATTACCTTTA
19656827 TTTTATTATAAA-G-TATACAT
1 TTTTATTATAAATGATATACAT
* *
19656847 TTTTACTTATTAATTATATACAT
1 TTTTA-TTATAAATGATATACAT
19656870 TTTT
1 TTTT
19656874 TAAAGAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 6 0.27
23 11 0.50
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTATTATAAATGATATACAT
Found at i:19656931 original size:22 final size:23
Alignment explanation
Indices: 19656906--19656950 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
19656896 CACTACTTTT
19656906 CTTAT-ATACTAAGTTAT-TATAC
1 CTTATAATA-TAAGTTATATATAC
*
19656928 CTTATAATATAATTTATATATAC
1 CTTATAATATAAGTTATATATAC
19656951 ATATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (23 bp):
CTTATAATATAAGTTATATATAC
Found at i:19662686 original size:15 final size:15
Alignment explanation
Indices: 19662666--19662717 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
19662656 ACTACAAAAC
19662666 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
19662681 ATTTATAAGTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
19662700 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
19662715 ATT
1 ATT
19662718 AAGATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:19662744 original size:28 final size:28
Alignment explanation
Indices: 19662695--19662749 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
19662685 ATAAGTATAA
* *
19662695 TAAATATTTATTATTAAAATATTAAGAT
1 TAAATATTTATTAATAAAATATGAAGAT
*
19662723 TAAATATTT-TTCAATAATATATGAAGA
1 TAAATATTTATT-AATAAAATATGAAGA
19662750 ATATTATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (28 bp):
TAAATATTTATTAATAAAATATGAAGAT
Found at i:19662822 original size:13 final size:14
Alignment explanation
Indices: 19662805--19662846 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
19662795 ATTAAAATAC
19662805 TAAATAATTTATTA
1 TAAATAATTTATTA
* *
19662819 -AAATAA-TAAATA
1 TAAATAATTTATTA
19662831 TAAATAATTTATTA
1 TAAATAATTTATTA
19662845 TA
1 TA
19662847 TGATTAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
12 4 0.18
13 12 0.55
14 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATTTATTA
Found at i:19662822 original size:26 final size:25
Alignment explanation
Indices: 19662791--19662865 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 25
19662781 ATTATTAAAA
19662791 TAAAATTAAAATACTAAATAATTTAT
1 TAAAATTAAAATA-TAAATAATTTAT
*
19662817 TAAAATAATAAATATAAATAATTTAT
1 TAAAATTA-AAATATAAATAATTTAT
*
19662843 TATATGATT-AAATATAAATAATT
1 TA-A-AATTAAAATATAAATAATT
19662866 AAATATGTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
26 35 0.81
27 6 0.14
28 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (25 bp):
TAAAATTAAAATATAAATAATTTAT
Found at i:19663238 original size:26 final size:26
Alignment explanation
Indices: 19663202--19663252 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
19663192 AATTCTAAAA
*
19663202 GAAACACTTTATACAAGTTTGTTAGC
1 GAAAAACTTTATACAAGTTTGTTAGC
*
19663228 GAAAAACTTTATACAAGTTTTTTAG
1 GAAAAACTTTATACAAGTTTGTTAG
19663253 GGTAATATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (26 bp):
GAAAAACTTTATACAAGTTTGTTAGC
Found at i:19669082 original size:22 final size:22
Alignment explanation
Indices: 19669038--19669082 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
19669028 TTTTCATTCA
*
19669038 TTCTTTTATTTCTTTATTCTAT
1 TTCTTTTATTTCTTTAATCTAT
19669060 TTCTTTTATTTTCTTTAAT-TAT
1 TTCTTTTA-TTTCTTTAATCTAT
19669082 T
1 T
19669083 ATATTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (22 bp):
TTCTTTTATTTCTTTAATCTAT
Found at i:19673411 original size:49 final size:49
Alignment explanation
Indices: 19673352--19673451 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
19673342 TTAAGTGTTT
19673352 TACATTAATTTATTTCATTAATTAAAATTAATTAGGGTTAAAATATTAC
1 TACATTAATTTATTTCATTAATTAAAATTAATTAGGGTTAAAATATTAC
19673401 TACATTAATTTATTTCATTAATTAAAATTAATTAGGGTTAAAATATTAC
1 TACATTAATTTATTTCATTAATTAAAATTAATTAGGGTTAAAATATTAC
19673450 TA
1 TA
19673452 AGGAGAATTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (49 bp):
TACATTAATTTATTTCATTAATTAAAATTAATTAGGGTTAAAATATTAC
Found at i:19673867 original size:13 final size:14
Alignment explanation
Indices: 19673844--19673876 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
19673834 ATATATTGTA
*
19673844 ATTATTTTAATATT
1 ATTAATTTAATATT
19673858 -TTAATTTAATATT
1 ATTAATTTAATATT
19673871 ATTAAT
1 ATTAAT
19673877 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTAATTTAATATT
Found at i:19682065 original size:39 final size:39
Alignment explanation
Indices: 19682021--19682267 Score: 260
Period size: 39 Copynumber: 6.3 Consensus size: 39
19682011 ATGGAATACC
* *
19682021 GAATATACTGAATTATTGCTCAATCGAGCAAAACTTTCT
1 GAATATACTGAATTGTTGCTCAATCGAGCAAAACTTACT
* * *
19682060 GAATATACTGAAATGTTGCTCAAACAAGCAAAACTTACT
1 GAATATACTGAATTGTTGCTCAATCGAGCAAAACTTACT
* * * *
19682099 GGATATACTGAATTGTTGCTTAATTGAGCAAAACTTACC
1 GAATATACTGAATTGTTGCTCAATCGAGCAAAACTTACT
* * * * *
19682138 GAATATATTGAATTGTTGTTTAATCGAGAAAAACTTATT
1 GAATATACTGAATTGTTGCTCAATCGAGCAAAACTTACT
* * * * * *
19682177 GAACATACTAAATTGTTGTTCAATTGAGCAAAGCTCACT
1 GAATATACTGAATTGTTGCTCAATCGAGCAAAACTTACT
* * * * *
19682216 GAATATACTAAAATGTTGCTCAAGCAAGCAAAACTTACC
1 GAATATACTGAATTGTTGCTCAATCGAGCAAAACTTACT
*
19682255 AAATATACTGAAT
1 GAATATACTGAAT
19682268 ATGTAATGAC
Statistics
Matches: 168, Mismatches: 40, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 168 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (39 bp):
GAATATACTGAATTGTTGCTCAATCGAGCAAAACTTACT
Found at i:19682223 original size:117 final size:117
Alignment explanation
Indices: 19682017--19682267 Score: 290
Period size: 117 Copynumber: 2.1 Consensus size: 117
19682007 GAAAATGGAA
* *
19682017 TACCGAATATACTGAATTATTGCTCAATCGAGCAAAACTTTCTGAATATACTGAAATGTTGCTCA
1 TACCGAATATACTGAATTATTGCTCAATCGAGAAAAACTTTCTGAACATACTGAAATGTTGCTCA
* * * * * ***
19682082 AACAAGCAAAACTTACTGGATATACTGAATTGTTGCTTAATTGAGCAAAACT
66 AACAAGCAAAACTCACTGAATATACTAAAATGTTGCTCAAGCAAGCAAAACT
* * * * *
19682134 TACCGAATATATTGAATTGTTGTTTAATCGAGAAAAACTTAT-TGAACATACT-AAATTGTTGTT
1 TACCGAATATACTGAATTATTGCTCAATCGAGAAAAACTT-TCTGAACATACTGAAA-TGTTGCT
*** *
19682197 CAATTGAGCAAAGCTCACTGAATATACTAAAATGTTGCTCAAGCAAGCAAAACT
64 CAAACAAGCAAAACTCACTGAATATACTAAAATGTTGCTCAAGCAAGCAAAACT
*
19682251 TACCAAATATACTGAAT
1 TACCGAATATACTGAAT
19682268 ATGTAATGAC
Statistics
Matches: 111, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
116 3 0.03
117 107 0.96
118 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (117 bp):
TACCGAATATACTGAATTATTGCTCAATCGAGAAAAACTTTCTGAACATACTGAAATGTTGCTCA
AACAAGCAAAACTCACTGAATATACTAAAATGTTGCTCAAGCAAGCAAAACT
Found at i:19696005 original size:18 final size:18
Alignment explanation
Indices: 19695984--19696018 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19695974 TAAATCTTAT
19695984 CCAACCTTAAACCTTAAC
1 CCAACCTTAAACCTTAAC
*
19696002 CCAACCTTAAATCTTAA
1 CCAACCTTAAACCTTAA
19696019 TTTAATCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (18 bp):
CCAACCTTAAACCTTAAC
Found at i:19699767 original size:18 final size:17
Alignment explanation
Indices: 19699739--19699773 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19699729 ATTTTTAAGA
*
19699739 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
19699756 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
19699774 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:19700027 original size:16 final size:16
Alignment explanation
Indices: 19700006--19700044 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
19699996 TTGATTTGCT
*
19700006 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
*
19700022 ATTACACATCTATTCC
1 ATTACACAGCTATTCC
19700038 ATTACAC
1 ATTACAC
19700045 CTCTAATCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.31, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:19700049 original size:16 final size:16
Alignment explanation
Indices: 19700019--19700075 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
19700009 ACACAGCTTT
* * *
19700019 TCCATTACACATCTAT
1 TCCAATACACCTCTAA
*
19700035 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
*
19700051 TCCAATATACCTCTAA
1 TCCAATACACCTCTAA
19700067 TCCAATACA
1 TCCAATACA
19700076 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.32
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:19704868 original size:9 final size:9
Alignment explanation
Indices: 19704849--19704878 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19704839 CGTCCCATCG
19704849 CTGCT-CAC
1 CTGCTCCAC
19704857 CTGCTCCAC
1 CTGCTCCAC
19704866 CTGCTCCAC
1 CTGCTCCAC
19704875 CTGC
1 CTGC
19704879 AAAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.10, C:0.53, G:0.13, T:0.23
Consensus pattern (9 bp):
CTGCTCCAC
Found at i:19711068 original size:7 final size:8
Alignment explanation
Indices: 19711047--19711076 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
19711037 TCTCATGAAT
19711047 TCAAAAAA
1 TCAAAAAA
19711055 TCAAAAAA
1 TCAAAAAA
19711063 TCAAAAAAA
1 TC-AAAAAA
19711072 TCAAA
1 TCAAA
19711077 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:19713268 original size:44 final size:44
Alignment explanation
Indices: 19713219--19713445 Score: 169
Period size: 44 Copynumber: 5.2 Consensus size: 44
19713209 AGTTAAAGAT
19713219 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** * * * * *
19713263 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGATCGAAGACACAA-AC
*
19713307 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** * * * *
19713351 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTCGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGATCGAAGACACAA-AC
*
19713395 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
19713439 CTTGCCT
1 CTTGCCT
19713446 CTTTCGGTTG
Statistics
Matches: 130, Mismatches: 41, Indels: 24
0.67 0.21 0.12
Matches are distributed among these distances:
43 38 0.29
44 55 0.42
45 37 0.28
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:19713362 original size:88 final size:88
Alignment explanation
Indices: 19713213--19713605 Score: 589
Period size: 88 Copynumber: 4.5 Consensus size: 88
19713203 CAATGAAGTT
19713213 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
19713278 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
19713301 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
19713366 TGTGATGGAGCTGGTCGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
19713389 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
19713454 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * **
19713477 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCAC-CCATCG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGC-CTCTTTCG
* * * *
19713539 ATTG-CAGTGGAGCTAGTTAAAGA-A
64 GTTGTGA-TGGAGCTGGTTGAAGACA
** * *
19713563 GTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGA
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
19713606 TAGTAATCCT
Statistics
Matches: 285, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
86 44 0.15
87 29 0.10
88 212 0.74
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:19713487 original size:44 final size:44
Alignment explanation
Indices: 19713249--19713489 Score: 185
Period size: 43 Copynumber: 5.5 Consensus size: 44
19713239 GCGAAGCAGA
* *
19713249 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
* ** * * *
19713292 TTGAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGA
1 TCGAAGACAAAAGATCTTGCCTCTTTC-GGTTGTGA-TG-G-AGCTGG
* *
19713337 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
** * * *
19713380 TCGAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGA
1 TCGAAGACAAAAGATCTTGCCTCTTTC-GGTTGTGA-TG-G-AGCTGG
* *
19713425 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
*
19713468 TTGAAGACAAAAGATCTTGCCT
1 TCGAAGACAAAAGATCTTGCCT
19713490 TCCTACATTA
Statistics
Matches: 148, Mismatches: 33, Indels: 33
0.69 0.15 0.15
Matches are distributed among these distances:
42 16 0.11
43 47 0.32
44 32 0.22
45 37 0.25
46 16 0.11
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (44 bp):
TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
Found at i:19713750 original size:46 final size:44
Alignment explanation
Indices: 19713686--19714198 Score: 248
Period size: 46 Copynumber: 11.7 Consensus size: 44
19713676 AGAAGATCAC
* *
19713686 ATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
19713730 ATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA
1 AT--CAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * *
19713776 TAT-A-ATCCTATCTCCCTGA-AGTTACAGTGGAGC-GAAT-TAA-A
1 -ATCAGATCTTATCTCCCTGAGA-TTACAGTGGAACAG-ATCGAAGA
* * * *
19713817 ATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--A-C
1 AT-CA-GATCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCGAAGA
* *
19713860 ATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
19713904 ATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA
1 AT--CAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
19713950 TAT-A-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAA-A
1 -ATCAGATCTTATCTCCCTGAGA-TTACAGTGGAACAGATCGAAGA
* * * ** *
19713991 ATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GC
1 AT-CA-GATCTTATCTCCCTGAGA-TTACAGTGGAACAGATCGAAGA
* * * ** *
19714034 ATCAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
19714078 ATTGCAGATCTTATCCCCCTGA-AGTTACAGTGGAGCAGATTGAAGCC
1 A-T-CAGATCTTATCTCCCTGAGA-TTACAGTGGAACAGATCGAAG-A
* * * *
19714125 A-GAGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAG-
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* *
19714167 A-CACTATCCTATCTCCCTGA-AGTTACAGTGGA
1 ATCA-GATCTTATCTCCCTGAGA-TTACAGTGGA
19714199 GTGGGTTAAA
Statistics
Matches: 367, Mismatches: 64, Indels: 77
0.72 0.13 0.15
Matches are distributed among these distances:
40 5 0.01
41 59 0.16
42 13 0.04
43 81 0.22
44 96 0.26
45 3 0.01
46 105 0.29
47 5 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
Found at i:19713837 original size:174 final size:174
Alignment explanation
Indices: 19713586--19714122 Score: 861
Period size: 174 Copynumber: 3.1 Consensus size: 174
19713576 TCCTGCATTA
* * * *
19713586 ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGATTACAATGGAGCGGA-T----T
1 ACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAAT
19713645 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATT
64 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATT
19713710 ACAGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
129 ACAGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
*
19713756 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAA
1 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
19713821 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
19713886 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
131 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
19713930 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
* * * *
19713995 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTAC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
** * * * *
19714060 AGTGGAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGAAGTT
131 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
* *
19714104 ACAGTGGAGCAGATTGAAG
1 ACAGCGGAGCAGATCGAAG
19714123 CCAGAGATCT
Statistics
Matches: 343, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
169 28 0.08
170 23 0.07
174 292 0.85
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (174 bp):
ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
Found at i:19713840 original size:44 final size:44
Alignment explanation
Indices: 19713784--19714021 Score: 161
Period size: 44 Copynumber: 5.5 Consensus size: 44
19713774 GATATAATCC
19713784 TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
* * * * * *
19713828 TATCTCTCTGAAGTTACAGT--AGAGAAGATCACAT-CAGG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCGAA-TTAAAATAAAGGATCT
* *** **
19713869 TATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAATCGCA-GATCT
1 TATCTCCCTGAAG-TTACAGTGGAGC-GAATTAA-AAT-AAAGGATCT
* * * * * * *
19713915 TGTCTCCCTGAGGTTACAGCGGAGC-AGATCGAAGATATA--ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCGA-AT-TAAAATAAAGGATCT
*
19713958 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
*
19714002 TATCTCTCTGAAGTTACAGT
1 TATCTCCCTGAAGTTACAGT
19714022 AGAGTAGATC
Statistics
Matches: 146, Mismatches: 33, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
40 2 0.01
41 19 0.13
42 14 0.10
43 33 0.23
44 47 0.32
45 3 0.02
46 27 0.18
47 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
Found at i:19714105 original size:87 final size:87
Alignment explanation
Indices: 19713649--19714195 Score: 407
Period size: 87 Copynumber: 6.3 Consensus size: 87
19713639 CGGATTAAAG
* * * *
19713649 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
* *
19713714 TGGAACAGACCGAAGAATCGCA
66 TGGAGCAGACCGAAGAATTGCA
* * ** * ** * *
19713736 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
*** **
19713800 CAGTGGAGC-GAATTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTGCA
* * * *
19713822 GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
* *
19713887 GTGGAACAGACCGAAGAATCGCA
65 GTGGAGCAGACCGAAGAATTGCA
* * ** * ** * *
19713910 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** **
19713974 CAGTGGAGCGGA-TTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTGCA
* * *
19713996 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
*
19714061 GTGGAGTAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAATTGCA
* * * * * * *
19714084 GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-TCAG-G-TCTTATCTCCCTGAGGTTA
* *
19714149 CAGCGGAGCAGATCGAAG-A---CA
63 CAGTGGAGCAGACCGAAGAATTGCA
* *
19714170 CTATCCTATCTCCCTGAAGTTACAGT
1 -GATCTTATCTCCCTGAAGTTACAGT
19714196 GGAGTGGGTT
Statistics
Matches: 346, Mismatches: 94, Indels: 40
0.72 0.20 0.08
Matches are distributed among these distances:
85 54 0.16
86 12 0.03
87 179 0.52
88 14 0.04
89 56 0.16
90 31 0.09
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGCAGACCGAAGAATTGCA
Found at i:19714150 original size:44 final size:44
Alignment explanation
Indices: 19713909--19714199 Score: 132
Period size: 44 Copynumber: 6.7 Consensus size: 44
19713899 GAAGAATCGC
* * * ** *
19713909 AGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAT
1 AGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCAG
* * * * * *** *
19713953 A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAA
1 AGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCAG
* * ** * * *
19713995 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAG
1 A-GATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCAG
* * * * * * *
19714039 -G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAG-AATTG
1 AGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCA--G
* *
19714082 CAGATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
1 -AGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCAG
*
19714127 AGATCTTATCTCCCC-G-AGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATC-CCCCTGAAG-TTACAGCGGAGCAGATCGAAGCCAG
** * * *
19714170 CTATCCTATCTCCCTGAAGTTACAGTGGAG
1 AGATCTTATCCCCCTGAAGTTACAGCGGAG
19714200 TGGGTTAAAA
Statistics
Matches: 195, Mismatches: 38, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
41 33 0.17
42 10 0.05
43 49 0.25
44 64 0.33
45 7 0.04
46 31 0.16
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
AGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCAG
Found at i:19714650 original size:9 final size:9
Alignment explanation
Indices: 19714631--19714660 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19714621 CGTCCCATCG
19714631 CTGCT-CAC
1 CTGCTCCAC
19714639 CTGCTCCAC
1 CTGCTCCAC
19714648 CTGCTCCAC
1 CTGCTCCAC
19714657 CTGC
1 CTGC
19714661 AAAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.10, C:0.53, G:0.13, T:0.23
Consensus pattern (9 bp):
CTGCTCCAC
Found at i:19720843 original size:9 final size:9
Alignment explanation
Indices: 19720829--19720857 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
19720819 TCATGAATTC
19720829 AAAAAATCA
1 AAAAAATCA
19720838 AAAAAATCA
1 AAAAAATCA
19720847 AAAAAATCA
1 AAAAAATCA
19720856 AA
1 AA
19720858 GTCAAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATCA
Found at i:19723049 original size:44 final size:44
Alignment explanation
Indices: 19723000--19723226 Score: 169
Period size: 44 Copynumber: 5.2 Consensus size: 44
19722990 AGTTAAAGAT
19723000 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** * * * * *
19723044 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGATCGAAGACACAA-AC
*
19723088 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** * * * *
19723132 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTCGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGATCGAAGACACAA-AC
*
19723176 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
19723220 CTTGCCT
1 CTTGCCT
19723227 CTTTCGGTTG
Statistics
Matches: 130, Mismatches: 41, Indels: 24
0.67 0.21 0.12
Matches are distributed among these distances:
43 38 0.29
44 55 0.42
45 37 0.28
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:19723143 original size:88 final size:88
Alignment explanation
Indices: 19722994--19723386 Score: 589
Period size: 88 Copynumber: 4.5 Consensus size: 88
19722984 CAATGAAGTT
19722994 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
19723059 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
19723082 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
19723147 TGTGATGGAGCTGGTCGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
19723170 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
19723235 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * **
19723258 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCAC-CCATCG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGC-CTCTTTCG
* * * *
19723320 ATTG-CAGTGGAGCTAGTTAAAGA-A
64 GTTGTGA-TGGAGCTGGTTGAAGACA
** * *
19723344 GTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGA
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
19723387 TAGTAATCCT
Statistics
Matches: 285, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
86 44 0.15
87 29 0.10
88 212 0.74
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:19723268 original size:44 final size:44
Alignment explanation
Indices: 19723030--19723270 Score: 185
Period size: 43 Copynumber: 5.5 Consensus size: 44
19723020 GCGAAGCAGA
* *
19723030 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
* ** * * *
19723073 TTGAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGA
1 TCGAAGACAAAAGATCTTGCCTCTTTC-GGTTGTGA-TG-G-AGCTGG
* *
19723118 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
** * * *
19723161 TCGAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGA
1 TCGAAGACAAAAGATCTTGCCTCTTTC-GGTTGTGA-TG-G-AGCTGG
* *
19723206 TCGAAGACACAA-ACCTTGCCTCTTTCGGTTGTGATGGAGCTGG
1 TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
*
19723249 TTGAAGACAAAAGATCTTGCCT
1 TCGAAGACAAAAGATCTTGCCT
19723271 TCCTACATTA
Statistics
Matches: 148, Mismatches: 33, Indels: 33
0.69 0.15 0.15
Matches are distributed among these distances:
42 16 0.11
43 47 0.32
44 32 0.22
45 37 0.25
46 16 0.11
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (44 bp):
TCGAAGACAAAAGATCTTGCCTCTTTCGGTTGTGATGGAGCTGG
Found at i:19723531 original size:46 final size:44
Alignment explanation
Indices: 19723467--19723979 Score: 248
Period size: 46 Copynumber: 11.7 Consensus size: 44
19723457 AGAAGATCAC
* *
19723467 ATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
19723511 ATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA
1 AT--CAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * *
19723557 TAT-A-ATCCTATCTCCCTGA-AGTTACAGTGGAGC-GAAT-TAA-A
1 -ATCAGATCTTATCTCCCTGAGA-TTACAGTGGAACAG-ATCGAAGA
* * * *
19723598 ATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--A-C
1 AT-CA-GATCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCGAAGA
* *
19723641 ATCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
19723685 ATCGCAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA
1 AT--CAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
19723731 TAT-A-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAA-A
1 -ATCAGATCTTATCTCCCTGAGA-TTACAGTGGAACAGATCGAAGA
* * * ** *
19723772 ATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GC
1 AT-CA-GATCTTATCTCCCTGAGA-TTACAGTGGAACAGATCGAAGA
* * * ** *
19723815 ATCAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* * * *
19723859 ATTGCAGATCTTATCCCCCTGA-AGTTACAGTGGAGCAGATTGAAGCC
1 A-T-CAGATCTTATCTCCCTGAGA-TTACAGTGGAACAGATCGAAG-A
* * * *
19723906 A-GAGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAG-
1 ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
* *
19723948 A-CACTATCCTATCTCCCTGA-AGTTACAGTGGA
1 ATCA-GATCTTATCTCCCTGAGA-TTACAGTGGA
19723980 GTGGGTTAAA
Statistics
Matches: 367, Mismatches: 64, Indels: 77
0.72 0.13 0.15
Matches are distributed among these distances:
40 5 0.01
41 59 0.16
42 13 0.04
43 81 0.22
44 96 0.26
45 3 0.01
46 105 0.29
47 5 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
ATCAGATCTTATCTCCCTGAGATTACAGTGGAACAGATCGAAGA
Found at i:19723618 original size:174 final size:174
Alignment explanation
Indices: 19723367--19723903 Score: 861
Period size: 174 Copynumber: 3.1 Consensus size: 174
19723357 TCCTGCATTA
* * * *
19723367 ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGATTACAATGGAGCGGA-T----T
1 ACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAAT
19723426 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATT
64 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATT
19723491 ACAGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
129 ACAGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
*
19723537 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAA
1 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
19723602 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
19723667 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
131 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
19723711 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
* * * *
19723776 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTAC
66 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
** * * * *
19723841 AGTGGAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGAAGTT
131 AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
* *
19723885 ACAGTGGAGCAGATTGAAG
1 ACAGCGGAGCAGATCGAAG
19723904 CCAGAGATCT
Statistics
Matches: 343, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
169 28 0.08
170 23 0.07
174 292 0.85
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (174 bp):
ACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTAC
AGTGGAACAGACCGAAGAATCGCAGATCTTGTCTCCCTGAGGTT
Found at i:19723621 original size:44 final size:44
Alignment explanation
Indices: 19723565--19723802 Score: 161
Period size: 44 Copynumber: 5.5 Consensus size: 44
19723555 GATATAATCC
19723565 TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
* * * * * *
19723609 TATCTCTCTGAAGTTACAGT--AGAGAAGATCACAT-CAGG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCGAA-TTAAAATAAAGGATCT
* *** **
19723650 TATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAATCGCA-GATCT
1 TATCTCCCTGAAG-TTACAGTGGAGC-GAATTAA-AAT-AAAGGATCT
* * * * * * *
19723696 TGTCTCCCTGAGGTTACAGCGGAGC-AGATCGAAGATATA--ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCGA-AT-TAAAATAAAGGATCT
*
19723739 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
*
19723783 TATCTCTCTGAAGTTACAGT
1 TATCTCCCTGAAGTTACAGT
19723803 AGAGTAGATC
Statistics
Matches: 146, Mismatches: 33, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
40 2 0.01
41 19 0.13
42 14 0.10
43 33 0.23
44 47 0.32
45 3 0.02
46 27 0.18
47 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
Found at i:19723886 original size:87 final size:87
Alignment explanation
Indices: 19723430--19723976 Score: 407
Period size: 87 Copynumber: 6.3 Consensus size: 87
19723420 CGGATTAAAG
* * * *
19723430 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
* *
19723495 TGGAACAGACCGAAGAATCGCA
66 TGGAGCAGACCGAAGAATTGCA
* * ** * ** * *
19723517 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
*** **
19723581 CAGTGGAGC-GAATTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTGCA
* * * *
19723603 GGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
* *
19723668 GTGGAACAGACCGAAGAATCGCA
65 GTGGAGCAGACCGAAGAATTGCA
* * ** * ** * *
19723691 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** **
19723755 CAGTGGAGCGGA-TTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTGCA
* * *
19723777 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
*
19723842 GTGGAGTAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAATTGCA
* * * * * * *
19723865 GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-TCAG-G-TCTTATCTCCCTGAGGTTA
* *
19723930 CAGCGGAGCAGATCGAAG-A---CA
63 CAGTGGAGCAGACCGAAGAATTGCA
* *
19723951 CTATCCTATCTCCCTGAAGTTACAGT
1 -GATCTTATCTCCCTGAAGTTACAGT
19723977 GGAGTGGGTT
Statistics
Matches: 346, Mismatches: 94, Indels: 40
0.72 0.20 0.08
Matches are distributed among these distances:
85 54 0.16
86 12 0.03
87 179 0.52
88 14 0.04
89 56 0.16
90 31 0.09
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGCAGACCGAAGAATTGCA
Found at i:19723931 original size:44 final size:44
Alignment explanation
Indices: 19723690--19723980 Score: 132
Period size: 44 Copynumber: 6.7 Consensus size: 44
19723680 GAAGAATCGC
* * * ** *
19723690 AGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAT
1 AGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCAG
* * * * * *** *
19723734 A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAA
1 AGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCAG
* * ** * * *
19723776 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAG
1 A-GATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCAG
* * * * * * *
19723820 -G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAG-AATTG
1 AGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCA--G
* *
19723863 CAGATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAG
1 -AGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCAG
*
19723908 AGATCTTATCTCCCC-G-AGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATC-CCCCTGAAG-TTACAGCGGAGCAGATCGAAGCCAG
** * * *
19723951 CTATCCTATCTCCCTGAAGTTACAGTGGAG
1 AGATCTTATCCCCCTGAAGTTACAGCGGAG
19723981 TGGGTTAAAA
Statistics
Matches: 195, Mismatches: 38, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
41 33 0.17
42 10 0.05
43 49 0.25
44 64 0.33
45 7 0.04
46 31 0.16
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
AGATCTTATCCCCCTGAAGTTACAGCGGAGCAGATCGAAGCCAG
Found at i:19724431 original size:9 final size:9
Alignment explanation
Indices: 19724412--19724441 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19724402 CGTCCCATCG
19724412 CTGCT-CAC
1 CTGCTCCAC
19724420 CTGCTCCAC
1 CTGCTCCAC
19724429 CTGCTCCAC
1 CTGCTCCAC
19724438 CTGC
1 CTGC
19724442 AAAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.10, C:0.53, G:0.13, T:0.23
Consensus pattern (9 bp):
CTGCTCCAC
Found at i:19743629 original size:122 final size:122
Alignment explanation
Indices: 19743241--19743606 Score: 714
Period size: 122 Copynumber: 3.0 Consensus size: 122
19743231 TTATTGTATG
19743241 AATTGTGGGATATGCCAACTATTATGATTTTGTTTTTTGAGATTTATTAGCTTGAAAATATTTTT
1 AATTGTGGGATATGCCAACTATTATGATTTTGTTTTTTGAGATTTATTAGCTTGAAAATATTTTT
19743306 CAAGTATTTATGTGAATTTTTGTTTAATCATAAATACAACTTTGGATTTACATGGTA
66 CAAGTATTTATGTGAATTTTTGTTTAATCATAAATACAACTTTGGATTTACATGGTA
19743363 AATTGTGGGATATGCCAACTATTATGATTTTGTTTTTTGAGATTTATTAGCTTGAAAATATTTTT
1 AATTGTGGGATATGCCAACTATTATGATTTTGTTTTTTGAGATTTATTAGCTTGAAAATATTTTT
19743428 CAAGTATTTATGTGAATTTTTGTTTAATCATAAATACAACTTTGGATTTACATGGTA
66 CAAGTATTTATGTGAATTTTTGTTTAATCATAAATACAACTTTGGATTTACATGGTA
19743485 AATTGTGGGATATGCCAACTATTATGATTTTGTTTTTTGAGATTTATTAGCTTGAAAATATTTTT
1 AATTGTGGGATATGCCAACTATTATGATTTTGTTTTTTGAGATTTATTAGCTTGAAAATATTTTT
* *
19743550 CAAGTATTTATGTGAATATCTGTTTAATCATAAATACAACTTTGGATTTACATGGTA
66 CAAGTATTTATGTGAATTTTTGTTTAATCATAAATACAACTTTGGATTTACATGGTA
19743607 GATTCAGGGT
Statistics
Matches: 242, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 242 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.46
Consensus pattern (122 bp):
AATTGTGGGATATGCCAACTATTATGATTTTGTTTTTTGAGATTTATTAGCTTGAAAATATTTTT
CAAGTATTTATGTGAATTTTTGTTTAATCATAAATACAACTTTGGATTTACATGGTA
Found at i:19745896 original size:12 final size:12
Alignment explanation
Indices: 19745879--19745925 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
19745869 TAGCGGGAGA
19745879 TTTTATATTTGG
1 TTTTATATTTGG
*
19745891 TTTTATATGTTAAAG
1 TTTTATAT-TT--GG
19745906 TTTTATATTTGG
1 TTTTATATTTGG
19745918 TTTTATAT
1 TTTTATAT
19745926 GTTAATGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 17 0.57
13 2 0.07
14 2 0.07
15 9 0.30
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (12 bp):
TTTTATATTTGG
Done.