Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold344
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: 1758742
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 9 of 11
Found at i:1449426 original size:17 final size:18
Alignment explanation
Indices: 1449404--1449443 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
1449394 GATATTAATT
1449404 AATAAATTTATTA-AAAA
1 AATAAATTTATTATAAAA
*
1449421 AATAAATTTATTATATAA
1 AATAAATTTATTATAAAA
1449439 AATAA
1 AATAA
1449444 TAAAAAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAATTTATTATAAAA
Found at i:1449670 original size:88 final size:88
Alignment explanation
Indices: 1449565--1449757 Score: 273
Period size: 88 Copynumber: 2.2 Consensus size: 88
1449555 AAATAAATGT
* * * *
1449565 AATTATATCTTAAAATCAGATT-TTTTTTAT-GAAAAAAAAAAGTTGATTAATTGTAAATGTCAT
1 AATTATATCTGAGAATCA-ATTCTTTTTTATAG-AAAAAAAAAGTTGATTAATTCTAAATGTCAG
*
1449628 ACTGCAAAGATTAGACTAATGCATG
64 ACTGCAAAGATTAAACTAATGCATG
*
1449653 AATTATATCTGAGAATCAATTCTTTTTTATAGAAAAAAAAAGTTGATTGATTCTAAATGTCAGAC
1 AATTATATCTGAGAATCAATTCTTTTTTATAGAAAAAAAAAGTTGATTAATTCTAAATGTCAGAC
* * *
1449718 TGTAAGGATTAAATTAATGCATG
66 TGCAAAGATTAAACTAATGCATG
1449741 AATTATATCTGAGAATC
1 AATTATATCTGAGAATC
1449758 TATTGTAAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
87 3 0.03
88 90 0.96
89 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.36
Consensus pattern (88 bp):
AATTATATCTGAGAATCAATTCTTTTTTATAGAAAAAAAAAGTTGATTAATTCTAAATGTCAGAC
TGCAAAGATTAAACTAATGCATG
Found at i:1449854 original size:144 final size:145
Alignment explanation
Indices: 1449614--1449901 Score: 400
Period size: 144 Copynumber: 2.0 Consensus size: 145
1449604 AAGTTGATTA
* * * *
1449614 ATTGTAAATGTCATACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAATTCTTTT
1 ATTGTAAATGTCAGACTACAAAGATTAGACTAATGCATAAATTATATCTGAAAATCAATTCTTTT
* * * * * * *
1449679 TTATAGAAAAAAAAAGTTGATTGATTCTAAATGTCAGACTGTAAGGATTAAATTAATGCATGAAT
66 TAATAAAAAAAAAAAGTTGACTGATTCTAAATGTCAGACTGCAAGAATTAAACTAATGCATAAAT
*
1449744 TATATCTGAGAATCT
131 TATATCTGAAAATCT
*
1449759 ATTGTAAATGTCAGACTACAAGGATTAGA-TAATGCATAAATTATATCTGAAAATCAATT-TTTT
1 ATTGTAAATGTCAGACTACAAAGATTAGACTAATGCATAAATTATATCTGAAAATCAATTCTTTT
* * *
1449822 TAATAAAAAAAGAAAAGTTGACTGATTGTAAATGTTAGACTGCAAGAATTAGACTAATGCATAAA
66 TAATAAAAAAA-AAAAGTTGACTGATTCTAAATGTCAGACTGCAAGAATTAAACTAATGCATAAA
*
1449887 TTATATTTGAAAATC
130 TTATATCTGAAAATC
1449902 GAATTCTTTT
Statistics
Matches: 125, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
143 13 0.10
144 86 0.69
145 26 0.21
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (145 bp):
ATTGTAAATGTCAGACTACAAAGATTAGACTAATGCATAAATTATATCTGAAAATCAATTCTTTT
TAATAAAAAAAAAAAGTTGACTGATTCTAAATGTCAGACTGCAAGAATTAAACTAATGCATAAAT
TATATCTGAAAATCT
Found at i:1450061 original size:90 final size:90
Alignment explanation
Indices: 1449759--1450280 Score: 617
Period size: 91 Copynumber: 5.9 Consensus size: 90
1449749 CTGAGAATCT
*
1449759 ATTGTAAATGTCAGACTACAAGGATTAGA-TAATGCATAAATTATATCTGAAAATC-AATTTTTT
1 ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAAAATCGAATTTTTT
* *
1449822 TA-ATAAAAAAAGAAAAG-TTGACTG
66 TATAGAAAAAAAG-AAAGCTTGATTG
* * * * *
1449846 ATTGTAAATGTTAGACTGCAAGAATTAGACTAATGCATAAATTATATTTGAAAATCGAATTCTTT
1 ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAAAATCGAA-T-TTT
* *
1449911 TTTATAG-AAAAAA-AAAG-TTGACTA
64 TTTATAGAAAAAAAGAAAGCTTGATTG
* * *
1449935 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGAATTTTTT
1 ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAAAATCGAATTTTTT
1450000 TATAGAAAAAAAGAAAGCTTGATTG
66 TATAGAAAAAAAGAAAGCTTGATTG
** * * *
1450025 ATTGTAAATGTCAGACTGTAGGGATTAGACTAATGCATGAATTATATCTGAAAATTAGATTCTTT
1 ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAAAA-TCGAAT-TTT
1450090 TTTATAG-AAAAAAGAAAGAC-TGATTG
64 TTTATAGAAAAAAAGAAAG-CTTGATTG
*
1450116 ATTGTAAATGTCAGACTATAAGGATTAGACTAATGCATG-A--AT-TCT-AAGAATCGAATTTTT
1 ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAA-AATCGAATTTTT
1450176 TTATAGAAAAAAAGAAAAGC-TGATTG
65 TTATAGAAAAAAAG-AAAGCTTGATTG
* * * * *
1450202 ATTATAAATGTTAGACTAAAAGGATTAGACTTATGCATGAATTATATCTGAGAATC-AGATTCTT
1 ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAAAATCGA-ATT-TT
1450266 TTTATAGGAAAAAAA
64 TTTATA-GAAAAAAA
1450281 AACTGCAAGG
Statistics
Matches: 384, Mismatches: 29, Indels: 39
0.85 0.06 0.09
Matches are distributed among these distances:
85 10 0.03
86 55 0.14
87 46 0.12
88 34 0.09
89 72 0.19
90 67 0.17
91 80 0.21
92 20 0.05
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (90 bp):
ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAAAATCGAATTTTTT
TATAGAAAAAAAGAAAGCTTGATTG
Found at i:1450229 original size:177 final size:177
Alignment explanation
Indices: 1449759--1450282 Score: 679
Period size: 177 Copynumber: 3.0 Consensus size: 177
1449749 CTGAGAATCT
*
1449759 ATTGTAAATGTCAGACTACAAGGATTAGA-TAATGCATAAATTATATCTGAA-AATC-AATTTTT
1 ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCAT-GA-TATATCT-AAGAATCGAATTTTT
* * * * * *
1449821 TTA-ATAAAAAAAGAAAAGTTGACTGATTGTAAATGTTAGACTGCAAGAATTAGACTAATGCATA
63 TTATAGAAAAAAAGAAAAGCTGATTGATTGTAAATGTTAGACTGAAAGGATTAGACTAATGCATG
* * *
1449885 AATTATATTTGAAAA-TCGAATTCTTTTTTATAGAAAAAAAAAGTTGACTA
128 AATTATATCTGAAAATTAG-ATTCTTTTTTATAGAAAAAAAAAGCTGACTA
* * *
1449935 ATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCGAATTTTTT
1 ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATG-A-TATATCTAAGAATCGAATTTTTT
* * *
1450000 TATAGAAAAAAAG-AAAGCTTGATTGATTGTAAATGTCAGACTGTAGGGATTAGACTAATGCATG
64 TATAGAAAAAAAGAAAAGC-TGATTGATTGTAAATGTTAGACTGAAAGGATTAGACTAATGCATG
* *
1450064 AATTATATCTGAAAATTAGATTCTTTTTTATAGAAAAAAGAAAGACTGATTG
128 AATTATATCTGAAAATTAGATTCTTTTTTATAGAAAAAA-AAAG-CTGACTA
*
1450116 ATTGTAAATGTCAGACTATAAGGATTAGACTAATGCATGA-AT-TCTAAGAATCGAATTTTTTTA
1 ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGATATATCTAAGAATCGAATTTTTTTA
* * *
1450179 TAGAAAAAAAGAAAAGCTGATTGATTATAAATGTTAGACTAAAAGGATTAGACTTATGCATGAAT
66 TAGAAAAAAAGAAAAGCTGATTGATTGTAAATGTTAGACTGAAAGGATTAGACTAATGCATGAAT
* *
1450244 TATATCTGAGAATCAGATTC-TTTTTATAGGAAAAAAAAA
131 TATATCTGAAAATTAGATTCTTTTTTATA-GAAAAAAAAA
1450283 CTGCAAGGAT
Statistics
Matches: 308, Mismatches: 29, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
176 39 0.13
177 119 0.39
178 21 0.07
179 82 0.27
180 7 0.02
181 40 0.13
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (177 bp):
ATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATGATATATCTAAGAATCGAATTTTTTTA
TAGAAAAAAAGAAAAGCTGATTGATTGTAAATGTTAGACTGAAAGGATTAGACTAATGCATGAAT
TATATCTGAAAATTAGATTCTTTTTTATAGAAAAAAAAAGCTGACTA
Found at i:1450240 original size:267 final size:265
Alignment explanation
Indices: 1449759--1450280 Score: 673
Period size: 267 Copynumber: 2.0 Consensus size: 265
1449749 CTGAGAATCT
1449759 ATTGTAAATGTCAGACTACAAGGATTAGATAATGCATAAATTATATCTGAAAATCAATTTTTTTA
1 ATTGTAAATGTCAGACTACAAGGATTAGATAATGCATAAATTATATCTGAAAATCAATTTTTTTA
* * *
1449824 ATAAAAAAAGAAAAGTTGACTGATTGTAAATGTTAGACTGCAAGAATTAGACTAATGCATAAATT
66 ATAAAAAAAGAAAAGCTGACTGATTGTAAATGTCAGACTACAAGAATTAGACTAATGCATAAATT
* * *
1449889 ATATTTGAAAATCGAATTCTTTTTTATAGAAAAAAAAAGTTGACTAATTGTAAATGTCAGACTGC
131 ATA--T-AAAATCGAATTCTTTTTTATAGAAAAAAAAAGCTGACTAATTATAAATGTCAGACTGA
1449954 AAAGATTAGACTAATGCATGAATTATATCTGAGAATC-GAATT-TTTTTATA-GAAAAAAAGAAA
193 AAAGATTAGACTAATGCATGAATTATATCTGAGAATCAG-ATTCTTTTTATAGGAAAAAAAGAAA
1450016 GCTTGATTG
257 GCTTGATTG
** * * *
1450025 ATTGTAAATGTCAGACTGTAGGGATTAGACTAATGCATGAATTATATCTGAAAATTAGATTCTTT
1 ATTGTAAATGTCAGACTACAAGGATTAGA-TAATGCATAAATTATATCTGAAAATCA-ATT-TTT
* * * *
1450090 TTTATAGAAAAAAG-AAAGACTGATTGATTGTAAATGTCAGACTATAAGGATTAGACTAATGCAT
63 TTAATA-AAAAAAGAAAAG-CTGACTGATTGTAAATGTCAGACTACAAGAATTAGACTAATGCAT
* * * * * *
1450154 GAATTCTA-AGAATCGAA-T-TTTTTTATAGAAAAAAAGAAAAGCTGATTGATTATAAATGTTAG
126 AAATTATATAAAATCGAATTCTTTTTTATAG--AAAAA-AAAAGCTGACTAATTATAAATGTCAG
*
1450216 ACT-AAAAGGATTAGACTTATGCATGAATTATATCTGAGAATCAGATTCTTTTTATAGGAAAAAA
188 ACTGAAAA-GATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTATAGGAAAAAA
1450280 A
252 A
1450281 AACTGCAAGG
Statistics
Matches: 222, Mismatches: 22, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
264 10 0.05
265 1 0.00
266 42 0.19
267 85 0.38
268 12 0.05
269 20 0.09
270 52 0.23
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (265 bp):
ATTGTAAATGTCAGACTACAAGGATTAGATAATGCATAAATTATATCTGAAAATCAATTTTTTTA
ATAAAAAAAGAAAAGCTGACTGATTGTAAATGTCAGACTACAAGAATTAGACTAATGCATAAATT
ATATAAAATCGAATTCTTTTTTATAGAAAAAAAAAGCTGACTAATTATAAATGTCAGACTGAAAA
GATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTATAGGAAAAAAAGAAAGCTT
GATTG
Found at i:1450298 original size:66 final size:66
Alignment explanation
Indices: 1450216--1450416 Score: 230
Period size: 66 Copynumber: 3.0 Consensus size: 66
1450206 TAAATGTTAG
* *
1450216 ACTAAAAGGATTAGACTTATGCATGAATTATATCTGAGAATCAGATTCTTTTTATAGGAAAAAAA
1 ACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTATAGGAAAAAAA
1450281 A
66 A
* * *
1450282 ACTGCAAGGATTAGACTAATGCATGAATTATATCTAAAAATCAGATTCTTTTTCTATAGGAAAAA
1 ACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTC-TTTT-TATAGG-AAAA
1450347 AGAAA
63 A-AAA
** * * *
1450352 GACTACAAAAATTAGACTAATGCATGAATTTTA-CATGAGAATCGGATT-TTTTT-T-GGTAAAA
1 -ACTACAAGGATTAGACTAATGCATGAATTATATC-TGAGAATCAGATTCTTTTTATAGGAAAAA
1450413 AAA
64 AAA
1450416 A
1 A
1450417 GAAAAGTTGG
Statistics
Matches: 116, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
63 1 0.01
64 3 0.03
65 4 0.03
66 45 0.39
67 5 0.04
68 7 0.06
69 9 0.08
70 4 0.03
71 38 0.33
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (66 bp):
ACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTATAGGAAAAAAA
A
Found at i:1450405 original size:71 final size:67
Alignment explanation
Indices: 1450225--1450405 Score: 213
Period size: 71 Copynumber: 2.7 Consensus size: 67
1450215 GACTAAAAGG
* * *
1450225 ATTAGACTTATGCATGAATTATATCTGAGAATCAGA-TTCTTTTTATAGGAAAAAAAAACTGCAA
1 ATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTTTATAGGAAAAAAAAACTACAA
**
1450289 GG
66 AA
* * *
1450291 ATTAGACTAATGCATGAATTATATCTAAAAATCAGATTCTTTTTCTATAGGAAAAAAGAAAGACT
1 ATTAGACTAATGCATGAATTATATCTGAGAATCAGATT-TTTTTTTATAGG-AAAAA-AAA-ACT
1450356 ACAAAA
62 ACAAAA
* *
1450362 ATTAGACTAATGCATGAATTTTA-CATGAGAATCGGATTTTTTTT
1 ATTAGACTAATGCATGAATTATATC-TGAGAATCAGATTTTTTTT
1450406 GGTAAAAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
66 33 0.34
67 1 0.01
68 10 0.10
69 5 0.05
70 9 0.09
71 38 0.40
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (67 bp):
ATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTTTATAGGAAAAAAAAACTACAA
AA
Found at i:1450495 original size:90 final size:91
Alignment explanation
Indices: 1450362--1450527 Score: 199
Period size: 90 Copynumber: 1.8 Consensus size: 91
1450352 GACTACAAAA
* * * ** * **
1450362 ATTAGACTAATGCATGAATTTTACATGAGAATCGGATTTTTTTTGGTA-AAAAAAAGAAAAGTTG
1 ATTAGACTAATACATAAATTATACATGAGAATCAAATTATTTTTAATAGAAAAAAAGAAAAGTTG
*
1450426 GTTGATTATAAGTATGACACTGTAAT
66 ATTGATTATAAGTATGACACTGTAAT
** ***
1450452 ATTAGACTAATACATAAATTATATTTGAGAATCAAATTATTTTTAATAGAAAAGTTGAAAAGTTG
1 ATTAGACTAATACATAAATTATACATGAGAATCAAATTATTTTTAATAGAAAAAAAGAAAAGTTG
1450517 ATTGATTATAA
66 ATTGATTATAA
1450528 ATATCACAGT
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
90 38 0.62
91 23 0.38
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (91 bp):
ATTAGACTAATACATAAATTATACATGAGAATCAAATTATTTTTAATAGAAAAAAAGAAAAGTTG
ATTGATTATAAGTATGACACTGTAAT
Found at i:1454627 original size:27 final size:26
Alignment explanation
Indices: 1454597--1454682 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 26
1454587 TTTTTTATAA
1454597 ATTAATTAAATTTAAAAATAATAATAT
1 ATTAATTAAATTTAAAAA-AATAATAT
*
1454624 ATTAATTATTATTTTTAATAAAAATAATAT
1 ATTAATTA--A-ATTTAA-AAAAATAATAT
* * *
1454654 -TTAATTAACTTTAAAGAAAT-TTAT
1 ATTAATTAAATTTAAAAAAATAATAT
1454678 ATTAA
1 ATTAA
1454683 CAAATTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
24 3 0.06
25 9 0.18
26 5 0.10
27 9 0.18
29 8 0.16
30 13 0.26
31 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (26 bp):
ATTAATTAAATTTAAAAAAATAATAT
Found at i:1454858 original size:15 final size:16
Alignment explanation
Indices: 1454838--1454868 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1454828 TGTTTTTATA
1454838 AAAATAAAAA-ATTTT
1 AAAATAAAAAGATTTT
1454853 AAAATAAAAAGATTTT
1 AAAATAAAAAGATTTT
1454869 TTATTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAATAAAAAGATTTT
Found at i:1454900 original size:123 final size:122
Alignment explanation
Indices: 1454643--1455000 Score: 426
Period size: 123 Copynumber: 2.9 Consensus size: 122
1454633 TATTTTTAAT
*
1454643 AAAAATAATATTTAATTAACTTTAAAGAAATTTATATTAACAAATTAAAA--T-ATTA--AT-TA
1 AAAAATAATATTTAATTAAGTTTAAA-AAA-TTATATTAACAAATTAAAATTTAATTATTATGT-
* * * * *
1454702 TTTTTAATAATAAAAAATTTTAAATAAAATTAAAAAGGGTTTATTACTATTATTTTTTAATAAAA
63 TTTTTAAAAATAAAAAA-TTT---TAAAA-TAAAAA-GATTTTTTATTA-TAATTTTTAATAAAA
*
1454767 TT
121 TA
*
1454769 AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATTTAATTATTATGTTTT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTATATTAACAAATTAAAATTTAATTATTATGTTTT
1454834 TATAAAAATAAAAAATTTTAAAATAAAAAGATTTTTTATTATAATTTTTAATAAAATA
66 T-TAAAAATAAAAAATTTTAAAATAAAAAGATTTTTTATTATAATTTTTAATAAAATA
* * *
1454892 AAAAATAATAATTAATTAAGTTTAAAAATTTATGTTAACAAATTAAAATATTAATTATTATG-TT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTATATTAACAAATTAAAAT-TTAATTATTATGTTT
* *
1454956 TTTAAAAATAAAAAAATTTAAATTAAAAA-ATTTTATTATTATAAT
65 TTTAAAAATAAAAAATTTTAAAATAAAAAGATTTT-TTATTATAAT
1455001 AATATTTTTT
Statistics
Matches: 209, Mismatches: 14, Indels: 22
0.85 0.06 0.09
Matches are distributed among these distances:
121 5 0.02
122 35 0.17
123 64 0.31
124 39 0.19
125 9 0.04
126 31 0.15
127 4 0.02
129 9 0.04
130 13 0.06
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (122 bp):
AAAAATAATATTTAATTAAGTTTAAAAAATTATATTAACAAATTAAAATTTAATTATTATGTTTT
TTAAAAATAAAAAATTTTAAAATAAAAAGATTTTTTATTATAATTTTTAATAAAATA
Found at i:1455012 original size:22 final size:21
Alignment explanation
Indices: 1454986--1455030 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1454976 AATTAAAAAA
1454986 TTTTATTATTAT-AATAATATTT
1 TTTTATT-TTATAAAT-ATATTT
*
1455008 TTTTATTTTTTAAATATATTT
1 TTTTATTTTATAAATATATTT
1455029 TT
1 TT
1455031 GAGAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATTTTATAAATATATTT
Found at i:1455318 original size:22 final size:21
Alignment explanation
Indices: 1455292--1455343 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
1455282 AATAATGATA
1455292 AATTTTTTAATTCT-TTAAATGTT
1 AATTTTTTAATT-TGTT-AATG-T
*
1455315 ATTTTTTTAATTTGTTAATGT
1 AATTTTTTAATTTGTTAATGT
1455336 AATTTTTT
1 AATTTTTT
1455344 TAAATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 8 0.31
22 5 0.19
23 13 0.50
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (21 bp):
AATTTTTTAATTTGTTAATGT
Found at i:1455344 original size:22 final size:22
Alignment explanation
Indices: 1455284--1455346 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
1455274 TTTTTTAAAA
*
1455284 TAATGATAAATTTTTTAATTCTT
1 TAATG-TAATTTTTTTAATTCTT
*
1455307 TAAATGTTATTTTTTTAATT-TGT
1 T-AATGTAATTTTTTTAATTCT-T
1455330 TAATGTAATTTTTTTAA
1 TAATGTAATTTTTTTAA
1455347 ATTTAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 16 0.46
23 15 0.43
24 4 0.11
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (22 bp):
TAATGTAATTTTTTTAATTCTT
Found at i:1455448 original size:21 final size:20
Alignment explanation
Indices: 1455414--1455472 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
1455404 TTTTTATAAA
1455414 AATATA-TAATTAATATTTT
1 AATATATTAATTAATATTTT
*
1455433 AATATATTAATGTAATTTTTT
1 AATATATTAAT-TAATATTTT
1455454 AA-AT-TTAATTAAATATTTT
1 AATATATTAATT-AATATTTT
1455473 TTTAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 18 0.51
20 6 0.17
21 10 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATATATTAATTAATATTTT
Found at i:1455473 original size:21 final size:21
Alignment explanation
Indices: 1455447--1455487 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1455437 TATTAATGTA
1455447 ATTTTTTAAATTTAATTAAAT
1 ATTTTTTAAATTTAATTAAAT
* *
1455468 ATTTTTTTAATTTTATTAAA
1 ATTTTTTAAATTTAATTAAA
1455488 AATAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTTAAATTTAATTAAAT
Found at i:1455524 original size:13 final size:13
Alignment explanation
Indices: 1455506--1455530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1455496 TAATGAACCC
1455506 TTTTTAATTTAAT
1 TTTTTAATTTAAT
1455519 TTTTTAATTTAA
1 TTTTTAATTTAA
1455531 AAAATAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTAATTTAAT
Found at i:1455560 original size:115 final size:108
Alignment explanation
Indices: 1455319--1455594 Score: 304
Period size: 115 Copynumber: 2.4 Consensus size: 108
1455309 AATGTTATTT
*
1455319 TTTTAATTTGTTAATGTAATTTTTTTAAATTTAATTAAATATCATTTTTT-ATTTTATTAAAAAT
1 TTTTAATTTATTAATGTAA-TTTTTTAAATTTAATTAAATAT--TTTTTTAATTTTATTAAAAAT
* *
1455383 AATAATAAAAAATACTTTTTATTTTTATAAAAATATATAATTAATA
63 AATAATAAAAAACACTTTTTATTTTTATAAAAATAAATAATTAATA
*
1455429 TTTTAATATATTAATGTAATTTTTTAAATTTAATTAAATATTTTTTTAATTTTATTAAAAATAAT
1 TTTTAATTTATTAATGTAATTTTTTAAATTTAATTAAATATTTTTTTAATTTTATTAAAAATAAT
** * *
1455494 AATAATGAACCCTTTTTAATTTAATTTTTTAATTTAAA-AAATAATTAATA
66 AATAAAAAACACTTTTT-A--T--TTTTATAA---AAATAAATAATTAATA
* * * *
1455544 TTTTAATTTATCAATGTAATTTTTAAAAAAATTAATTAAAAATTATTTTTA
1 TTTTAATTTATTAATGTAATTTTT--TAAATTTAATTAAATATT-TTTTTA
1455595 TTAAAAAATA
Statistics
Matches: 141, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
107 6 0.04
108 30 0.21
109 23 0.16
110 17 0.12
111 1 0.01
113 7 0.05
115 33 0.23
116 3 0.02
117 15 0.11
118 6 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (108 bp):
TTTTAATTTATTAATGTAATTTTTTAAATTTAATTAAATATTTTTTTAATTTTATTAAAAATAAT
AATAAAAAACACTTTTTATTTTTATAAAAATAAATAATTAATA
Found at i:1455637 original size:115 final size:113
Alignment explanation
Indices: 1455419--1455645 Score: 248
Period size: 115 Copynumber: 2.0 Consensus size: 113
1455409 ATAAAAATAT
* * * *
1455419 ATAATTAATATTTTAATATATTAATGTAATTTTTTAAATTTAATTAAATATTTTTTTAATTTTAT
1 ATAATTAATATTTTAATATATCAATGTAATTTTTAAAAATTAATTAAAAATTTTTTTAA-TTTA-
* * *
1455484 TAAAAATAATAATAATGAACCCTTTTTAATTTAATTTTTTAATTTAAAAA
64 TAAAAATAATAATAATGAACCATTTTTAATTAAATTTTTAAATTTAAAAA
*
1455534 ATAATTAATATTTTAATTTATCAATGTAATTTTTAAAAAAATTAATTAAAAATTATTTTT-A-TT
1 ATAATTAATATTTTAATATATCAATGTAATTTTT--AAAAATTAATTAAAAATT-TTTTTAATTT
**
1455597 A-AAAAATAATAATTAAT-ATATTATTATTT-ATTAAATTTTTTAAATTTAA
63 ATAAAAATAATAA-TAATGA-ACCATT-TTTAATTAAA-TTTTTAAATTTAA
1455646 TTAATTTATA
Statistics
Matches: 95, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
113 12 0.13
114 12 0.13
115 50 0.53
117 16 0.17
118 5 0.05
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (113 bp):
ATAATTAATATTTTAATATATCAATGTAATTTTTAAAAATTAATTAAAAATTTTTTTAATTTATA
AAAATAATAATAATGAACCATTTTTAATTAAATTTTTAAATTTAAAAA
Found at i:1455936 original size:20 final size:19
Alignment explanation
Indices: 1455899--1455954 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1455889 AATATAAAAG
* * *
1455899 TAATATTTTCTGTAATTTT
1 TAATATTTTATATAATTTA
1455918 TAATATTTATATATAATTTA
1 TAATATTT-TATATAATTTA
*
1455938 TAATGTTTTATATAATT
1 TAATATTTTATATAATT
1455955 ACACGTAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
TAATATTTTATATAATTTA
Found at i:1455951 original size:19 final size:20
Alignment explanation
Indices: 1455911--1455954 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1455901 ATATTTTCTG
*
1455911 TAATTTTTAATATTTATATA
1 TAATTTATAATATTTATATA
*
1455931 TAATTTATAATGTTT-TATA
1 TAATTTATAATATTTATATA
1455950 TAATT
1 TAATT
1455955 ACACGTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTTATAATATTTATATA
Found at i:1455973 original size:48 final size:48
Alignment explanation
Indices: 1455918--1456050 Score: 171
Period size: 48 Copynumber: 2.8 Consensus size: 48
1455908 CTGTAATTTT
*
1455918 TAATATTTATATATAATTTATAATGTTT-TATATAATTACACGTAAAGA
1 TAATATTT-TATATAACTTATAATGTTTATATATAATTACACGTAAAGA
* * * *
1455966 TAATATTTTATCTAACTTATAATGTTTATATGTAATTACATGTAAAGT
1 TAATATTTTATATAACTTATAATGTTTATATATAATTACACGTAAAGA
**
1456014 TAATATTTTATGA-AACTCGTAATGTTTATATATAATT
1 TAATATTTTAT-ATAACTTATAATGTTTATATATAATT
1456051 TGTAATGTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 17 0.23
48 57 0.77
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (48 bp):
TAATATTTTATATAACTTATAATGTTTATATATAATTACACGTAAAGA
Found at i:1456018 original size:115 final size:114
Alignment explanation
Indices: 1455871--1456079 Score: 276
Period size: 115 Copynumber: 1.8 Consensus size: 114
1455861 ATGTAATTTT
* * * **
1455871 TAATATTTAATGTAATTAAATATAAAAGTAATATTTTCTGTAATTTTTAATATTTATATATAATT
1 TAATATTTAATGTAATTAAATATAAAAGTAATATTTTATGAAACTCGTAATATTTATATATAATT
1455936 TATAATGTTTTATATAATTACACGTAAAGATAATATTTTATCTAACTTA
66 TATAATGTTTTATATAATTACACGTAAAGATAATATTTTATCTAACTTA
* * * *
1455985 TAATGTTTATATGTAATTACATGT-AAAGTTAATATTTTATGAAACTCGTAATGTTTATATATAA
1 TAATATTTA-ATGTAATTAAATATAAAAG-TAATATTTTATGAAACTCGTAATATTTATATATAA
* * * *
1456049 TTTGTAATGTTTTATGTAATTATATGTAAAG
64 TTTATAATGTTTTATATAATTACACGTAAAG
1456080 GTCCTGTTTA
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
114 12 0.15
115 68 0.85
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.48
Consensus pattern (114 bp):
TAATATTTAATGTAATTAAATATAAAAGTAATATTTTATGAAACTCGTAATATTTATATATAATT
TATAATGTTTTATATAATTACACGTAAAGATAATATTTTATCTAACTTA
Found at i:1456057 original size:20 final size:19
Alignment explanation
Indices: 1456032--1456069 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1456022 TATGAAACTC
1456032 GTAATGTTTATATATAATTT
1 GTAATGTTT-TATATAATTT
*
1456052 GTAATGTTTTATGTAATT
1 GTAATGTTTTATATAATT
1456070 ATATGTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (19 bp):
GTAATGTTTTATATAATTT
Found at i:1457265 original size:11 final size:11
Alignment explanation
Indices: 1457243--1457275 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1457233 ATTAAATTTT
1457243 TTTATA-TATA
1 TTTATATTATA
1457253 TTTATATTATA
1 TTTATATTATA
*
1457264 TTTAGATTATA
1 TTTATATTATA
1457275 T
1 T
1457276 CAATTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
TTTATATTATA
Found at i:1458297 original size:21 final size:20
Alignment explanation
Indices: 1458273--1458312 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1458263 AAATATTTTA
1458273 TTAAATATAATTATAAAATAT
1 TTAAATATAA-TATAAAATAT
* *
1458294 TTAAATTTTATATAAAATA
1 TTAAATATAATATAAAATA
1458313 AGTTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAATATAATATAAAATAT
Found at i:1458482 original size:19 final size:21
Alignment explanation
Indices: 1458449--1458489 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1458439 TATTAAAATA
1458449 TTTTTAAAAATTAAATT-TAT
1 TTTTTAAAAATTAAATTATAT
*
1458469 TTTTTAGAAA-TAAATTATAT
1 TTTTTAAAAATTAAATTATAT
1458489 T
1 T
1458490 AATAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTTAAAAATTAAATTATAT
Found at i:1459246 original size:2 final size:2
Alignment explanation
Indices: 1459226--1459267 Score: 59
Period size: 2 Copynumber: 20.5 Consensus size: 2
1459216 GTGATAACAA
1459226 AT AT AGT AT AT AT GA- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT A-T AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1459268 ATCTTTTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 1 0.03
2 33 0.89
3 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1459362 original size:25 final size:25
Alignment explanation
Indices: 1459334--1459393 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
1459324 TGTAAATTAT
1459334 TTTAATATTAATAATATTT-ATCTAA
1 TTTAATATTAATAAT-TTTAATCTAA
* *
1459359 TTT-ATAAATAATAATTTTAATTTAA
1 TTTAAT-ATTAATAATTTTAATCTAA
1459384 TTATAATATT
1 TT-TAATATT
1459394 TTTAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
24 5 0.18
25 18 0.64
26 3 0.11
27 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTAATATTAATAATTTTAATCTAA
Found at i:1459651 original size:17 final size:17
Alignment explanation
Indices: 1459631--1459663 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1459621 AAACTTTATA
1459631 TGTTAATATAA-ATTTTT
1 TGTTAAT-TAATATTTTT
1459648 TGTTAATTAATATTTT
1 TGTTAATTAATATTTT
1459664 ATTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
TGTTAATTAATATTTTT
Found at i:1474966 original size:137 final size:135
Alignment explanation
Indices: 1474764--1475026 Score: 409
Period size: 137 Copynumber: 1.9 Consensus size: 135
1474754 ATCTCATAGA
* *
1474764 TATTAAAAATTTACAATTTCATCAGAAAACAAAGGGCAAGCAACTGTAAATATTACAAGTTTCAG
1 TATTAAAAATTTACAATTTCATCAGAAAAAAAAGGGCAAACAACTGTAAATATTACAAGTTTCAG
** *
1474829 ATAGTAGAGGAGTGTAACAATTAAAAGAAACATGATCCATAGAACTCGAAATCTGATAAAAAAAA
66 ATAGTAGAGGAGTGTAACAAACAAAAGAAACATGATCCATAGAACTCAAAATCTGATAAAAAAAA
1474894 GGATC
131 GGATC
* * * *
1474899 TATTGAAAATTTTACAATTTCATCAGAAAATAAAATGGCAAACAACTGTAGATCTTACAAGTTTC
1 TATT-AAAAATTTACAATTTCATCAGAAAA-AAAAGGGCAAACAACTGTAAATATTACAAGTTTC
* *
1474964 AGATAGTAGAGGAGTGTAACAAACAAAAGAAACATGATCTATAGAACTCAAAATCTGGTAAAA
64 AGATAGTAGAGGAGTGTAACAAACAAAAGAAACATGATCCATAGAACTCAAAATCTGATAAAA
1475027 GTAAAAAGGA
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
135 4 0.03
136 24 0.21
137 87 0.76
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.25
Consensus pattern (135 bp):
TATTAAAAATTTACAATTTCATCAGAAAAAAAAGGGCAAACAACTGTAAATATTACAAGTTTCAG
ATAGTAGAGGAGTGTAACAAACAAAAGAAACATGATCCATAGAACTCAAAATCTGATAAAAAAAA
GGATC
Found at i:1475207 original size:156 final size:159
Alignment explanation
Indices: 1474930--1475248 Score: 414
Period size: 157 Copynumber: 2.0 Consensus size: 159
1474920 ATCAGAAAAT
* * * * *
1474930 AAAATGGCAAACAACTGTAGATCTTACAAGTTTCAGATAGTAGAGGAGTGTAACAAACAAAAGAA
1 AAAATGGCAAACAACTATAAATATTACAAGTTTCAGACAGTAGAGGAGTGGAACAAACAAAAGAA
* * * *
1474995 ACATGATCTATAGAACTCAAAATCTGGTAAAAGTAAAAAGGATTTACTGAGCTGGGAATCTCATT
66 ACATGATCTATAGAACTCAAAATCTGATAAAAATAAAAAGGATATACTGAGCTGGGAATCTCATA
*
1475060 GATA-TAAAAATTTAGAATTTCA-CCAGA
131 GATATTAAAAATTTAGAATTTCATCCAAA
* * * **
1475087 AAAATGGCAAGCAACTATAAATATTAGAGAGTTTCAGACAGTAGAGGTGTGGAAC-AATTAAAGA
1 AAAATGGCAAACAACTATAAATATTACA-AGTTTCAGACAGTAGAGGAGTGGAACAAACAAAAGA
* * *
1475151 AACATGAT-TATATAGCTCAAAATCTGATAAAAATAAAAAGGATATA-TCGCGCTGGGAATCTCA
65 AACATGATCTATAGAACTCAAAATCTGATAAAAATAAAAAGGATATACT-GAGCTGGGAATCTCA
*
1475214 TAGATATTAAAAATTTATAATTTCATCCAAA
129 TAGATATTAAAAATTTAGAATTTCATCCAAA
1475245 AAAA
1 AAAA
1475249 AAAAGAAAAC
Statistics
Matches: 139, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
155 1 0.01
156 52 0.37
157 55 0.40
158 31 0.22
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (159 bp):
AAAATGGCAAACAACTATAAATATTACAAGTTTCAGACAGTAGAGGAGTGGAACAAACAAAAGAA
ACATGATCTATAGAACTCAAAATCTGATAAAAATAAAAAGGATATACTGAGCTGGGAATCTCATA
GATATTAAAAATTTAGAATTTCATCCAAA
Found at i:1478772 original size:2 final size:2
Alignment explanation
Indices: 1478767--1478818 Score: 77
Period size: 2 Copynumber: 25.5 Consensus size: 2
1478757 ATATATGCAC
* *
1478767 AT AT AT AA AT AT AT AT GAT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
1478810 AT AT AT AT A
1 AT AT AT AT A
1478819 CACACACACA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1479305 original size:25 final size:25
Alignment explanation
Indices: 1479277--1479324 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1479267 TTGAAGGTAC
1479277 GGATTAAAACAAAAAAAAATAAAGA
1 GGATTAAAACAAAAAAAAATAAAGA
** *
1479302 GGATTAAATTAAAATAAAATAAA
1 GGATTAAAACAAAAAAAAATAAA
1479325 ATAAATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (25 bp):
GGATTAAAACAAAAAAAAATAAAGA
Found at i:1479771 original size:15 final size:16
Alignment explanation
Indices: 1479746--1479775 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1479736 AGTATAAAGT
1479746 ACAACAAATATAAATA
1 ACAACAAATATAAATA
1479762 ACAA-AAATATAAAT
1 ACAACAAATATAAAT
1479776 TTCATCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (16 bp):
ACAACAAATATAAATA
Found at i:1482493 original size:13 final size:13
Alignment explanation
Indices: 1482475--1482499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1482465 CATGCTGCTT
1482475 TGTATCGATACAA
1 TGTATCGATACAA
1482488 TGTATCGATACA
1 TGTATCGATACA
1482500 TGCTCAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1482607 original size:13 final size:13
Alignment explanation
Indices: 1482586--1482616 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1482576 CGATACATGG
*
1482586 TACAATGTATCGA
1 TACATTGTATCGA
1482599 TACATTGTATCGA
1 TACATTGTATCGA
1482612 TACAT
1 TACAT
1482617 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1482612 original size:33 final size:32
Alignment explanation
Indices: 1482570--1482636 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
1482560 CTATCACTAT
1482570 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
1482603 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
1482636 T
1 T
1482637 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:1490690 original size:18 final size:19
Alignment explanation
Indices: 1490658--1490696 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1490648 ATAAATTTTT
*
1490658 TATAAAAAGGGGGAGAAGA
1 TATAAAAAGGAGGAGAAGA
1490677 TATAAAAA-GAGGAGAAGA
1 TATAAAAAGGAGGAGAAGA
1490695 TA
1 TA
1490697 ATCGTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.13
Consensus pattern (19 bp):
TATAAAAAGGAGGAGAAGA
Found at i:1490724 original size:18 final size:17
Alignment explanation
Indices: 1490701--1490768 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
1490691 AAGATAATCG
*
1490701 TTTAAGGGGGAGAATTTT
1 TTTAA-GGGGAGAATTCT
* *
1490719 TTTAAGAGGAGATAATCGT
1 TTTAAGGGGAGA-ATTC-T
*
1490738 TTAAAGGGGAGAATATCT
1 TTTAAGGGGAGAAT-TCT
1490756 TTTAAGGGGAGAA
1 TTTAAGGGGAGAA
1490769 AAACGAAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
17 6 0.15
18 21 0.52
19 13 0.32
ACGTcount: A:0.35, C:0.03, G:0.31, T:0.31
Consensus pattern (17 bp):
TTTAAGGGGAGAATTCT
Found at i:1490738 original size:36 final size:37
Alignment explanation
Indices: 1490692--1490767 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 37
1490682 AAAGAGGAGA
* *
1490692 AGATAATCGTTTAAGGGGGAGAAT-TTTTTTAAGAGG
1 AGATAATCGTTTAAAGGGGAGAATATCTTTTAAGAGG
*
1490728 AGATAATCGTTTAAAGGGGAGAATATCTTTTAAGGGG
1 AGATAATCGTTTAAAGGGGAGAATATCTTTTAAGAGG
1490765 AGA
1 AGA
1490768 AAAACGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 23 0.64
37 13 0.36
ACGTcount: A:0.36, C:0.04, G:0.30, T:0.30
Consensus pattern (37 bp):
AGATAATCGTTTAAAGGGGAGAATATCTTTTAAGAGG
Found at i:1490759 original size:19 final size:19
Alignment explanation
Indices: 1490701--1490768 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
1490691 AAGATAATCG
*
1490701 TTTAAGGGGGAGAAT-T-T
1 TTTAAAGGGGAGAATATCT
* * *
1490718 TTTTAAGAGGAG-ATAATCG
1 TTTAAAGGGGAGAAT-ATCT
1490737 TTTAAAGGGGAGAATATCT
1 TTTAAAGGGGAGAATATCT
1490756 TTT-AAGGGGAGAA
1 TTTAAAGGGGAGAA
1490769 AAACGAAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
16 2 0.05
17 9 0.22
18 11 0.28
19 16 0.40
20 2 0.05
ACGTcount: A:0.35, C:0.03, G:0.31, T:0.31
Consensus pattern (19 bp):
TTTAAAGGGGAGAATATCT
Found at i:1492080 original size:13 final size:13
Alignment explanation
Indices: 1492062--1492087 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1492052 CAATTTTTTG
1492062 TGTATCGATACAT
1 TGTATCGATACAT
1492075 TGTATCGATACAT
1 TGTATCGATACAT
1492088 ACTTGGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1492102 original size:32 final size:33
Alignment explanation
Indices: 1492042--1492106 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1492032 TACAAGCCAA
** *
1492042 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1492075 TGTATCGATAC-ATACTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1492107 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1494149 original size:21 final size:20
Alignment explanation
Indices: 1494120--1494162 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1494110 GACTAGTGTA
* *
1494120 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1494141 GGGATTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1494161 GG
1 GG
1494163 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.42, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1494621 original size:13 final size:13
Alignment explanation
Indices: 1494603--1494680 Score: 156
Period size: 13 Copynumber: 6.0 Consensus size: 13
1494593 ATAATCACCC
1494603 TGTATCGATACAA
1 TGTATCGATACAA
1494616 TGTATCGATACAA
1 TGTATCGATACAA
1494629 TGTATCGATACAA
1 TGTATCGATACAA
1494642 TGTATCGATACAA
1 TGTATCGATACAA
1494655 TGTATCGATACAA
1 TGTATCGATACAA
1494668 TGTATCGATACAA
1 TGTATCGATACAA
1494681 AGGAAAATGT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 65 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1498620 original size:21 final size:21
Alignment explanation
Indices: 1498591--1498635 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1498581 AAGTTTTTAT
*
1498591 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAAGTTCATTA
*
1498611 TTTTCATTAGCCAAGTTCTTTA
1 TTTTC-TTAGCCAAGTTCATTA
1498633 TTT
1 TTT
1498636 CAACTTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAAGTTCATTA
Found at i:1498635 original size:22 final size:21
Alignment explanation
Indices: 1498580--1498635 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
1498570 ATGAATCATG
1498580 CAAGTT-TTTATTTTTCTTAGC
1 CAAGTTCTTTA-TTTTCTTAGC
* *
1498601 TAA-TTCATTATTTTCATTAGC
1 CAAGTTCTTTATTTTC-TTAGC
1498622 CAAGTTCTTTATTT
1 CAAGTTCTTTATTT
1498636 CAACTTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (21 bp):
CAAGTTCTTTATTTTCTTAGC
Found at i:1500864 original size:13 final size:13
Alignment explanation
Indices: 1500846--1500871 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1500836 ACATTTTTTG
1500846 TGTATCGATACAT
1 TGTATCGATACAT
1500859 TGTATCGATACAT
1 TGTATCGATACAT
1500872 ACTTGGTGTA
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1500965 original size:20 final size:21
Alignment explanation
Indices: 1500919--1500973 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1500909 AATCCCAATG
***
1500919 ACATGTATCGATACATCTTTT
1 ACATGTATCGATACATCTGCA
1500940 ACATGTATCGATACAT-TGCA
1 ACATGTATCGATACATCTGCA
1500960 ACATGTATCGATAC
1 ACATGTATCGATAC
1500974 TTTGAATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (21 bp):
ACATGTATCGATACATCTGCA
Found at i:1501485 original size:13 final size:13
Alignment explanation
Indices: 1501467--1501491 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1501457 CATGCTGCTT
1501467 TGTATCGATACAA
1 TGTATCGATACAA
1501480 TGTATCGATACA
1 TGTATCGATACA
1501492 TGTTCAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1501528 original size:21 final size:19
Alignment explanation
Indices: 1501476--1501533 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
1501466 TTGTATCGAT
*
1501476 ACAATGTATCGATACATGT
1 ACAATGTATCGATACATGG
* *
1501495 TCAATGTAACGATACATGG
1 ACAATGTATCGATACATGG
1501514 ACAAATTGTATCGATACATG
1 AC-AA-TGTATCGATACATG
1501534 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 17 0.53
20 2 0.06
21 13 0.41
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (19 bp):
ACAATGTATCGATACATGG
Found at i:1504758 original size:79 final size:78
Alignment explanation
Indices: 1504571--1504953 Score: 230
Period size: 79 Copynumber: 4.8 Consensus size: 78
1504561 GAGGTTGGAA
* * * * * *
1504571 TATCCCCTCGAAAATAATGAGGTTAGAGTATCCCCGATTA-TGAAAAATCAGAGTTTT-AGAAAC
1 TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGA-TAGTGAAAAATCA-TGTTTTGA-AAAT
* *
1504634 AAAATCGG-GTTTGGAG
63 AAAACCGGAG-TTAGAG
* * * * * * * *
1504650 TATCTCCTCAAAAATTACGAGATTAGAGTATCCCTAATGGTGAAAAAGTCATGTTTTGAAAATAA
1 TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATAGTGAAAAA-TCATGTTTTGAAAATAA
*
1504715 AATC-GAGTATAGAG
65 AACCGGAGT-TAGAG
* * * *
1504729 TATCCTCTCGAAAATAACGGGGTTGGAGTAT-CATCGATAGTGGAAAATTGATGTTTTAGAAAA-
1 TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCT-GATAGT-GAAAAATCATGTTTT-GAAAAT
* *
1504792 AAAACCGGGGTTGGAG
63 AAAACCGGAGTTAGAG
* * *
1504808 TATCCCCTTGAAAGTAACGGGGTTGGAGTATCTCC-GATAGTGAAAAATCAATGTTTTGGAAATA
1 TATCCCCTCGAAAATAACGGGGTTGGAGTATC-CCTGATAGTGAAAAATC-ATGTTTTGAAAAT-
1504872 AAAACCAGG-G-TAGGAG
63 AAAACC-GGAGTTA-GAG
** * * ** * * *
1504888 TATTTCCTCGGAAATAACGAGGTTACAGTATCCC-GATGGTGGAAAATCA-GTATTTTAGAAATA
1 TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATAGTGAAAAATCATGT-TTTGA-AAATA
1504951 AAA
64 AAA
1504954 ACATCAATAA
Statistics
Matches: 240, Mismatches: 46, Indels: 37
0.74 0.14 0.11
Matches are distributed among these distances:
77 2 0.01
78 23 0.10
79 161 0.67
80 51 0.21
81 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (78 bp):
TATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTGATAGTGAAAAATCATGTTTTGAAAATAAA
ACCGGAGTTAGAG
Found at i:1504837 original size:158 final size:158
Alignment explanation
Indices: 1504571--1504955 Score: 368
Period size: 158 Copynumber: 2.4 Consensus size: 158
1504561 GAGGTTGGAA
* * *
1504571 TATCCCCTCGAAAATAATGAGGTTAGAGTATCCCCGATTATGAAAAATCAGAGTTTTAGAAACAA
1 TATCCCCTCGAAAATAACGAGGTTAGAGTATCACCGATTATGAAAAATCAGAGTTTTAGAAAAAA
* * * * *
1504636 AATCGGGTTTGGAGTATCTCCTCAAAAATTACGAGATTAGAGTATC-CCTAATGGTGAAAAAGTC
66 AACCGGGGTTGGAGTATCCCCTCAAAAATAACGAGATTAGAGTATCTCC-AATAGTGAAAAA-TC
1504700 -ATGTTTTGAAAATAAAATCGAGTATAGAG
129 AATGTTTTGAAAATAAAATCGAGTATAGAG
* * * * * *
1504729 TATCCTCTCGAAAATAACGGGGTTGGAGTATCATCGA-TAGTGGAAAAT-TGATGTTTTAGAAAA
1 TATCCCCTCGAAAATAACGAGGTTAGAGTATCACCGATTA-TGAAAAATCAGA-GTTTTAGAAAA
** * * * * *
1504792 AAAACCGGGGTTGGAGTATCCCCTTGAAAGTAACGGGGTTGGAGTATCTCCGATAGTGAAAAATC
64 AAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGAGATTAGAGTATCTCCAATAGTGAAAAATC
* * * **
1504857 AATGTTTTGGAAATAAAAACCAGGGTAGGAG
129 AATGTTTTGAAAATAAAATCGAGTATA-GAG
** * * ** *
1504888 TATTTCCTCGGAAATAACGAGGTTACAGTATC-CCGATGGTGGAAAATCAGTA-TTTTAGAAATA
1 TATCCCCTCGAAAATAACGAGGTTAGAGTATCACCGATTATGAAAAATCAG-AGTTTTAGAAA-A
1504951 AAAAC
64 AAAAC
1504956 ATCAATAAAA
Statistics
Matches: 181, Mismatches: 37, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
157 6 0.03
158 137 0.76
159 37 0.20
160 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (158 bp):
TATCCCCTCGAAAATAACGAGGTTAGAGTATCACCGATTATGAAAAATCAGAGTTTTAGAAAAAA
AACCGGGGTTGGAGTATCCCCTCAAAAATAACGAGATTAGAGTATCTCCAATAGTGAAAAATCAA
TGTTTTGAAAATAAAATCGAGTATAGAG
Found at i:1507372 original size:50 final size:50
Alignment explanation
Indices: 1507298--1507429 Score: 180
Period size: 50 Copynumber: 2.6 Consensus size: 50
1507288 AAAATGCCTG
*
1507298 AATGTATCGATACATTG-AGAAATGTATCGATATATCTAGGTAAAA-TC-T
1 AATGTATCGATACAATGAAG-AATGTATCGATATATCTAGGTAAAATTCAT
* *
1507346 AGATTGTATCAATACAATGAAGAATGTATCGATATATCTGGGTAAAATTCAT
1 A-A-TGTATCGATACAATGAAGAATGTATCGATATATCTAGGTAAAATTCAT
*
1507398 AATGTATCGATACAATGAAGGATGTATCGATA
1 AATGTATCGATACAATGAAGAATGTATCGATA
1507430 CAAATTATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 65 0.88
51 5 0.07
52 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (50 bp):
AATGTATCGATACAATGAAGAATGTATCGATATATCTAGGTAAAATTCAT
Found at i:1508111 original size:42 final size:41
Alignment explanation
Indices: 1507991--1508614 Score: 322
Period size: 42 Copynumber: 15.3 Consensus size: 41
1507981 GGGGGCATCT
** *
1507991 TGCTCTTTGAGGTTAAAGGAAAAAA--AAAGGAAA-GTGTCC
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGTG-CC
* * * *
1508030 TGCTCCTTGAGGACAAAGGGAAAAA-G-AGT-ACA--T-CC
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGTGCC
* *
1508065 TGCTCTTCGAGGACAAAGGAAAAAAGGAAATGAAGTGTGCC
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGTGCC
*
1508106 ATGCTCTTTGAGGACAAAGGCAAAAAGGAAAT-AAA-GTGCATCC
1 -TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGTG---CC
* * *
1508149 TGCTTTTTGAGGACAAAGGAAAAAGAAAGAAATGAAATGTGTCA
1 TGCTCTTTGAGGACAAAGG-AAAA-AAGGAAATGAAATGTG-CC
* * *
1508193 TGCTCTTTAAGGATAAAGGAAAAAA-GAGAATGAAATGTATCC
1 TGCTCTTTGAGGACAAAGGAAAAAAGGA-AATGAAATGT-GCC
* * * * *
1508235 TGCTTTTTGAGGATAAAGG--AAAATG--A-G-TACGT-CC
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGTGCC
* * * **
1508269 TGCTCTTCGAAGAC-AAGGGAAAAAGGAGAACAAAATGTGTCC
1 TGCTCTTTGAGGACAAAGGAAAAAAGGA-AATGAAATGTG-CC
* * ** * **
1508311 TACTCCTTGAGGACAAAGGAACAAAAAAAAAAGGAAA-GTGTTA
1 TGCTCTTTGAGGACAAAGG-A-AAAAAGGAAATGAAATGTG-CC
* * * * *
1508354 TGCTCCTTGAGGATAAAGG---GAA--AAAT--AGTGCGCCC
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGTG-CC
* **
1508389 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAGTGCACCC
1 TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATG-TGCC
* * *
1508431 TGCTCTTTGAAGACAAAAGAGAAAAA-GAAATAAAATGTGTCC
1 TGCTCTTTGAGGACAAAGGA-AAAAAGGAAATGAAATGTG-CC
1508473 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAATGTGTCC
1 TGCTCTTTGAGGACAAA-GGAAAA-AAGGAAATGAAATGTG-CC
* * ** * *
1508517 TACTCTTTGTGGTTAAAGGAAAAAA-GAGAACGAAATGTGTCT
1 TGCTCTTTGAGGACAAAGGAAAAAAGGA-AATGAAATGTG-CC
1508559 TGCTCTTTGAGGACAAAGGAAATAAAGGAAAT-AAA-GTGCATC
1 TGCTCTTTGAGGACAAAGGAAA-AAAGGAAATGAAATGTGC--C
1508601 TTGCTCTTTGAGGA
1 -TGCTCTTTGAGGA
1508615 TAAACAAAAA
Statistics
Matches: 452, Mismatches: 83, Indels: 96
0.72 0.13 0.15
Matches are distributed among these distances:
33 4 0.01
34 13 0.03
35 48 0.11
36 7 0.02
37 4 0.01
38 9 0.02
39 22 0.05
40 16 0.04
41 12 0.03
42 178 0.39
43 67 0.15
44 60 0.13
45 9 0.02
46 3 0.01
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (41 bp):
TGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGTGCC
Found at i:1508120 original size:77 final size:76
Alignment explanation
Indices: 1507986--1508220 Score: 215
Period size: 86 Copynumber: 3.0 Consensus size: 76
1507976 AAGGAGGGGG
* ** * *
1507986 CATCTTGCTCTTTGAGGTTAAAGGAAAAAA-AAAGGAAAGTGT-CC-TGCTCCTTGAGGACAAAG
1 CATCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATG-AAGTGTGCCATGCTCTTTGAGGACAAAG
*
1508048 GGAAAAAGAGTA
65 GAAAAAAGAGTA
*
1508060 CATCCTGCTCTTCGAGGACAAAGGAAAAAAGGAAATGAAGTGTGCCATGCTCTTTGAGGACAAAG
1 CATCCTGCTCTTTGAGGACAAAGGAAAAAA-GAAATGAAGTGTGCCATGCTCTTTGAGGACAAAG
* *
1508125 GCAAAAAGGAAATAAAGTG
65 G----AA--AAA-AGAGTA
* * * * *
1508144 CATCCTGCTTTTTGAGGACAAAGGAAAAAGAAAGAAATGAAATGTGTCATGCTCTTTAAGGATAA
1 CATCCTGCTCTTTGAGGACAAAGG--AAA-AAAGAAATGAAGTGTGCCATGCTCTTTGAGGACAA
1508209 AGGAAAAAAGAG
63 AGGAAAAAAGAG
1508221 AATGAAATGT
Statistics
Matches: 131, Mismatches: 16, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
74 26 0.20
75 6 0.05
76 6 0.05
77 18 0.14
79 3 0.02
80 3 0.02
81 1 0.01
82 2 0.02
83 3 0.02
84 26 0.20
86 34 0.26
87 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.20
Consensus pattern (76 bp):
CATCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATGAAGTGTGCCATGCTCTTTGAGGACAAAGG
AAAAAAGAGTA
Found at i:1508235 original size:86 final size:85
Alignment explanation
Indices: 1508061--1508618 Score: 390
Period size: 86 Copynumber: 6.8 Consensus size: 85
1508051 AAAAGAGTAC
* * * *
1508061 ATCCTGCTCTTCGAGGACAAAGG-AAAAAAGGAAATGAAGTGTGCCATGCTCTTTGAGGACAAAG
1 ATCCTGCTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAATGTGTCATGCTCTTTGAGGATAAAG
* *
1508125 GCAAAAAG-GAAAT-AAAGTGC
66 GAAAAAAGAG-AATGAAA-TGT
* * *
1508145 ATCCTGCTTTTTGAGGACAAAGGAAAAAGAAAGAAATGAAATGTGTCATGCTCTTTAAGGATAAA
1 ATCCTGCTCTTTGAGGACAAAGGAAAAA-AAGGAAATGAAATGTGTCATGCTCTTTGAGGATAAA
1508210 GGAAAAAAGAGAATGAAATGT
65 GGAAAAAAGAGAATGAAATGT
* * * ** * * * * *
1508231 ATCCTGCTTTTTGAGGATAAAGG------A--AAATG-AGTACGTCCTGCTCTTCGAAGACAAGG
1 ATCCTGCTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAATGTGTCATGCTCTTTGAGGATAAAG
* **
1508287 GAAAAAGGAGAACAAAATGT
66 GAAAAAAGAGAATGAAATGT
* * * ** * * *
1508307 GTCCTACTCCTTGAGGACAAAGGAACAAAAAAAAAAGGAAA-GTGTTATGCTCCTTGAGGATAAA
1 ATCCTGCTCTTTGAGGACAAAGGAA-AAAAAGGAAATGAAATGTGTCATGCTCTTTGAGGATAAA
* * *
1508371 GGGAAAAATAG--TG---CG-
65 GGAAAAAAGAGAATGAAATGT
* * *** * * * *
1508386 -CCCTGCTCTTTGAGGACAAAGG-AAAAAAGGAAATGAAGTGCACCCTGCTCTTTGAAGACAAAA
1 ATCCTGCTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAATGTGTCATGCTCTTTGAGGATAAAG
*
1508449 GAGAAAAAGA-AATAAAATGT
66 GA-AAAAAGAGAATGAAATGT
* * * * * *
1508469 GTCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAATGTGTCCTACTCTTTGTGGTTAAA
1 ATCCTGCTCTTTGAGGACAAA-GGAAAAAAAGGAAATGAAATGTGTCATGCTCTTTGAGGATAAA
*
1508534 GGAAAAAAGAGAACGAAATGT
65 GGAAAAAAGAGAATGAAATGT
* * * *
1508555 GTCTTGCTCTTTGAGGACAAAGGAAATAAAGGAAAT-AAA-GTGCATCTTGCTCTTTGAGGATAA
1 ATCCTGCTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAATGTG--TCATGCTCTTTGAGGATAA
1508618 A
64 A
1508619 CAAAAAAACA
Statistics
Matches: 361, Mismatches: 85, Indels: 55
0.72 0.17 0.11
Matches are distributed among these distances:
76 64 0.18
77 22 0.06
78 25 0.07
79 2 0.01
80 1 0.00
82 1 0.00
83 4 0.01
84 43 0.12
85 68 0.19
86 127 0.35
87 4 0.01
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.22
Consensus pattern (85 bp):
ATCCTGCTCTTTGAGGACAAAGGAAAAAAAGGAAATGAAATGTGTCATGCTCTTTGAGGATAAAG
GAAAAAAGAGAATGAAATGT
Found at i:1508270 original size:120 final size:119
Alignment explanation
Indices: 1508146--1508496 Score: 315
Period size: 120 Copynumber: 2.9 Consensus size: 119
1508136 ATAAAGTGCA
* * *
1508146 TCCTGCTTTTTGAGGACAAAGGAAAAAGAAAGAAATGAAATGTGTCATGCTCTTTAAGGATAAAG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGAAAGAAATGAAATGTGTCCTGCTCTTTAAGGACAAAG
*
1508211 GA-AAAAAGAGAATGAAATGTATCCTGCTTTTTGAGGATAAA-GGAAAATGAGTACG
66 GACAAAAAGA-AATGAAATGT-TCCTGCTCTTTGAGGATAAAGGGAAAAT-AGTACG
* * * * * * *
1508266 TCCTGCTCTTCGAAGACAAGGGAAAAAG-GAGAACA--AAATGTGTCCTACTCCTTGAGGACAAA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGAAAGAA-ATGAAATGTGTCCTGCTCTTTAAGGACAAA
* * * * *
1508328 GGAACAAAAAAAAAAGGAAAGTGTT-ATGCTCCTTGAGGATAAAGGGAAAAATAGTGCG
65 GG-AC-AAAAAGAAATGAAA-TGTTCCTGCTCTTTGAGGATAAAGGG-AAAATAGTACG
* * * ***
1508386 CCCTGCTCTTTGAGGACAAAGG-AAAA-AAGGAAATGAAGTGCACCCTGCTCTTTGAA-GACAAA
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGAAAGAAATGAAATGTGTCCTGCTCTTT-AAGGACAAA
* * * *
1508448 AGAGAAAAAGAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGGAAAA
65 GGACAAAAAGAAATGAAATGT-TCCTGCTCTTTGAGGATAAAGGGAAAA
1508497 GAAGGAAATG
Statistics
Matches: 181, Mismatches: 37, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
117 3 0.02
118 41 0.23
119 46 0.25
120 76 0.42
121 15 0.08
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (119 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAGAAAGAAATGAAATGTGTCCTGCTCTTTAAGGACAAAG
GACAAAAAGAAATGAAATGTTCCTGCTCTTTGAGGATAAAGGGAAAATAGTACG
Found at i:1508275 original size:162 final size:161
Alignment explanation
Indices: 1508107--1508580 Score: 464
Period size: 162 Copynumber: 2.9 Consensus size: 161
1508097 AAGTGTGCCA
* * ** *
1508107 TGCTCTTTGAGGACAAAGGCAAAAAGGAAATAAAGTGCATCCTGCTTTTTGAGGACAAAGGAAAA
1 TGCTCTTTGAAGACAAAGG-AAAAAGGAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAA
*
1508172 AGAAAGAAATGAAATGTGTCATGCTCTTTAAGGATAAAGGAAAAAAGAGAATGAAATGTATCCTG
65 AGAAAGAAATGAAATGTGTCATGCTCTTTGAGGATAAAGGAAAAAAGAGAATGAAATGT-TCCTG
* * **
1508237 CTTTTTGAGGATAAAGGAAAATG-AGTACGTCC
129 CTCTTTGAGGACAAAGGAAAATGAAGTACACCC
* * * * *
1508269 TGCTCTTCGAAGACAAGGGAAAAAGGAGAACAAAATGTGTCCTACTCCTTGAGGACAAAGGAACA
1 TGCTCTTTGAAGACAAAGGAAAAAGGA-AATAAAATGTGTCCTGCTCTTTGAGGACAAAGGAA-A
* * * * * * * *
1508334 AA-AAAAAAAGGAAA-GTGTTATGCTCCTTGAGGATAAAGGGAAAAATAG--TG---CG-CCCTG
64 AAGAAAGAAATGAAATGTGTCATGCTCTTTGAGGATAAAGGAAAAAAGAGAATGAAATGTTCCTG
*
1508391 CTCTTTGAGGACAAAGGAAAAAAGGAAATGAAGTGCACCC
129 CTCTTTGAGGACAAAGG-----A--AAATGAAGTACACCC
*
1508431 TGCTCTTTGAAGACAAAAGAGAAAAA-GAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGGAA
1 TGCTCTTTGAAGAC-AAAG-GAAAAAGGAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGAAA
* * * * * * *
1508495 AAGAAGGAAATGAAATGTGTCCTACTCTTTGTGGTTAAAGGAAAAAAGAGAACGAAATGTGTCTT
64 AAGAAAGAAATGAAATGTGTCATGCTCTTTGAGGATAAAGGAAAAAAGAGAATGAAATGT-TCCT
1508560 GCTCTTTGAGGACAAAGGAAA
128 GCTCTTTGAGGACAAAGGAAA
1508581 TAAAGGAAAT
Statistics
Matches: 246, Mismatches: 45, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
154 19 0.08
156 1 0.00
159 3 0.01
161 45 0.18
162 113 0.46
163 36 0.15
164 6 0.02
165 2 0.01
168 1 0.00
170 20 0.08
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (161 bp):
TGCTCTTTGAAGACAAAGGAAAAAGGAAATAAAATGTGTCCTGCTCTTTGAGGACAAAGGAAAAA
GAAAGAAATGAAATGTGTCATGCTCTTTGAGGATAAAGGAAAAAAGAGAATGAAATGTTCCTGCT
CTTTGAGGACAAAGGAAAATGAAGTACACCC
Found at i:1508837 original size:62 final size:62
Alignment explanation
Indices: 1508630--1509406 Score: 923
Period size: 62 Copynumber: 12.5 Consensus size: 62
1508620 AAAAAAACAG
* * * *
1508630 AAGGCGTCCTGCTCTTTAAGGACTAAAGGGTGCCTACTAACTCGTGTAGGCTTTGAAAAGAAA
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCC-ACCAACTCGTGTGGGCTTTGAAAAGAAA
* ** * *
1508693 AATGCATCCTATTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGT-GGTTTTCAAAAGAAA
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * *
1508754 AAGGCATCCTGCACTTTGAGGACAAAAAGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAA
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
1508816 AAGGCATTCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGCCTTTCAAAAGAAA
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
** * * *
1508878 AA-AAATGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTATGAGCTTTGAAAAAGAAA
1 AAGGCA--TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTG-AAAAGAAA
* * * * * * * **
1508942 AAGGCGTCATGTTCTTTGAAGACTAAAGGGTGCCATCAACTCGTGTGGGATTTCAAAAGGGA
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * ** * *
1509004 AAGGCATCCTACTCTTTGAGGATTAAAATGTGCCACCAACTCGTGTGTGCTTT-AAAAAAGAA
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AA
** * * * *
1509066 AAGGTGTCCTACTCTTTGAGGACTAAAAGGTACCACTAACTCGTGTGGGCTTTGAAAAGAAA
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * *
1509128 AAGGCATCTTACTCTTTGAGGACAAAAGGGTGCTACCAACTCGTGTGGGCTTTGAAAA-AAA
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
1509189 AAGGCATCTTGCTCTTTGAGGACTAAATGGGTGCTACCAACTCGTGTGGGCTTTGGAAAGAAA
1 AAGGCATCCTGCTCTTTGAGGACTAAA-GGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * *
1509252 AAGGCAACCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTATGGGCTTTAAAAAAGAAA
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT-GAAAAGAAA
** *
1509315 AAGGCATCCTATTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTCGGCTTTGAAAAGAAA
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
** *
1509377 AAGGTGTCCTGCTTTTTGAGGACTAAAGGG
1 AAGGCATCCTGCTCTTTGAGGACTAAAGGG
1509407 CTAAAAGGGG
Statistics
Matches: 606, Mismatches: 98, Indels: 21
0.84 0.14 0.03
Matches are distributed among these distances:
61 84 0.14
62 314 0.52
63 198 0.33
64 10 0.02
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (62 bp):
AAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
Found at i:1515650 original size:79 final size:79
Alignment explanation
Indices: 1515554--1516534 Score: 872
Period size: 79 Copynumber: 12.4 Consensus size: 79
1515544 GTACATTCCT
* * * *
1515554 CGATGGTGAAAAATTGATGTTTTGAAAATAGAATCGAGGTTGCAGTATCCCCTCGAAAATAACGG
1 CGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGG
1515619 GGTTGGAGTATCCC
66 GGTTGGAGTATCCC
* * * * * *
1515633 CGATTGTGAAATATTGATGTTTT-AGAAATAAAATCAAGATTGGAGTATCTCCTTAGAAATAACG
1 CGATTGTGAAAAATTGATGTTTTGA-AAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACG
1515697 GGGTTGGAGTATCCC
65 GGGTTGGAGTATCCC
* * * * * *
1515712 CGATTGTGAAAAA-TCAGTGTTTTGGAAATAAAAACCGACGTTAGAGTATCCCCTCAGAAATAAC
1 CGATTGTGAAAAATTGA-TGTTTTGAAAAT-AAAATCGAGGTTGGAGTATCCCCTCAAAAATAAC
** *
1515776 AAGATTGGAGTATCCC
64 GGGGTTGGAGTATCCC
* * *
1515792 CGATGGTGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGG
1 CGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGG
* *
1515857 GGTTGAAGTATCTC
66 GGTTGGAGTATCCC
* * * * * * *** *
1515871 TGATTATGAAAAATTGGTGTTTTGAAAATAAAATTGGGGTTGGAGTATCCTCTTGGAAATGACGG
1 CGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGG
* **
1515936 TGTTGGAGTATCTT
66 GGTTGGAGTATCCC
* ** * * ***
1515950 CGATTATGAAAAATCAATGTTTT-AGAAATAAAAACCAAGGTTGGAGTA-CCCCTTGGAAATAAC
1 CGATTGTGAAAAATTGATGTTTTGA-AAAT-AAAATCGAGGTTGGAGTATCCCCTCAAAAATAAC
** *
1516013 ACGGATGGAGTATCCC
64 GGGGTTGGAGTATCCC
* * * * *
1516029 TGATGGTGAAAAATTGATGTTTTGAAAATAAAATTGGGGTTGGAGTATCCCTTCAAAAATAACGG
1 CGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGG
* *
1516094 GGTCGTAGTATCCC
66 GGTTGGAGTATCCC
* * * * **
1516108 CGATTGTGGAAAATTGATATTTT-AGAAATAAAATCGAGGTTAGAGTATCCCCTCAGAAATAATA
1 CGATTGTGAAAAATTGATGTTTTGA-AAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACG
1516172 GGGTTGGAGTATCCC
65 GGGTTGGAGTATCCC
** * ** * * * *
1516187 CG-CGGTGGAAAATCAATGTTTTGGAAATAAAAACTGTGGTTGGAGTATCCCCTCAAAAATAATG
1 CGATTGTGAAAAATTGATGTTTTGAAAATAAAATC-GAGGTTGGAGTATCCCCTCAAAAATAACG
*
1516251 GGGTTGGTA-TATCTC
65 GGGTTGG-AGTATCCC
* * * ** *
1516266 TGATGGTGAAAAA-TCAGTGTTTTGGGAATAAAA-CTG-GGATTGGAGTATCCTCTCAAAAATAA
1 CGATTGTGAAAAATTGA-TGTTTTGAAAATAAAATC-GAGG-TTGGAGTATCCCCTCAAAAATAA
** * *
1516328 TAGGGTTAGAATATCCC
63 CGGGGTTGGAGTATCCC
* * * * *
1516345 CGATTTTGAAAAATCGATATTTTGAAAATAAAATCG-GAGTTGGTGTATCCCCTCAAAAATTACG
1 CGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGAG-GTTGGAGTATCCCCTCAAAAATAACG
1516409 GGGTTGGAGTATCCC
65 GGGTTGGAGTATCCC
* * * * * * * * *
1516424 CGATTGTG-AAAATCGGTGTTTTGAAAATAAAATTGGGGTTGGAGTATTCCCTCAGAATTGACAG
1 CGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGG
1516488 GGTTGGAGTATCCC
66 GGTTGGAGTATCCC
* * *
1516502 CGATGGTGAAAAATCGATATTTT-AGAAATAAAA
1 CGATTGTGAAAAATTGATGTTTTGA-AAATAAAA
1516535 CATGAATGAA
Statistics
Matches: 733, Mismatches: 146, Indels: 46
0.79 0.16 0.05
Matches are distributed among these distances:
78 113 0.15
79 512 0.70
80 106 0.14
81 2 0.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (79 bp):
CGATTGTGAAAAATTGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCAAAAATAACGG
GGTTGGAGTATCCC
Found at i:1516087 original size:237 final size:237
Alignment explanation
Indices: 1515555--1516534 Score: 1057
Period size: 237 Copynumber: 4.1 Consensus size: 237
1515545 TACATTCCTC
* * * *
1515555 GATGGTGAAAAATTGATGTTTTGAAAATAGAATCGAGGTTGCAGTATCCCCTCGAAAATAACGGG
1 GATGGTGAAAAATTGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGG
* * * * * *
1515620 GTTGGAGTATCCCCGATTGTGAAATATTGATGTTTTAGAAATAAAATCAAGATTGGAGTATCTCC
66 GTTGAAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
* *
1515685 TTAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGGAAATAAAAACCGA
131 TCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTGGAAATAAAAACCGA
* * * *
1515750 CGTTAGAGTATCCCCTCAGAAATAACAAGATTGGAGTATCCCC
196 GGTTGGAGTATCCCCTCAGAAATAACAGGA-TGGAGTATCCCT
*
1515793 GATGGTGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGG
1 GATGGTGAAAAATTGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGG
* * * * * * * *
1515858 GTTGAAGTATCTCTGATTATGAAAAATTGGTGTTTT-GAAAATAAAATTGGGGTTGGAGTATCCT
66 GTTGAAGTATCCCCGATTGTGAAAAATTGATATTTTAG-AAATAAAATCGAGGTTGGAGTATCCC
** * * ** * * *
1515922 CTTGGAAATGACGGTGTTGGAGTATCTTCGATTATGAAAAATCAATGTTTTAGAAATAAAAACCA
130 CTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTGGAAATAAAAACCG
**
1515987 AGGTTGGAGTA-CCCCTTGGAAATAACACGGATGGAGTATCCCT
195 AGGTTGGAGTATCCCCTCAGAAATAACA-GGATGGAGTATCCCT
* *
1516030 GATGGTGAAAAATTGATGTTTTGAAAATAAAATTGGGGTTGGAGTATCCCTTCAAAAATAACGGG
1 GATGGTGAAAAATTGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGG
* * * *
1516095 GTCGTAGTATCCCCGATTGTGGAAAATTGATATTTTAGAAATAAAATCGAGGTTAGAGTATCCCC
66 GTTGAAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
** ** * * *
1516160 TCAGAAATAATAGGGTTGGAGTATCCCCG-CGGTGGAAAATCAATGTTTTGGAAATAAAAACTGT
131 TCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTGGAAATAAAAACCGA
* ** * *
1516224 GGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGTA-TATCTCT
196 GGTTGGAGTATCCCCTCAGAAATAA-CAGGATGG-AGTATCCCT
* ** * * **
1516267 GATGGTGAAAAA-TCAGTGTTTTGGGAATAAAA-CTGGGATTGGAGTATCCTCTCAAAAATAATA
1 GATGGTGAAAAATTGA-TGTTTTGAAAATAAAATC-GGGGTTGGAGTATCCCCTCAAAAATAACG
* * *
1516330 GGGTTAGAA-TATCCCCGATTTTGAAAAATCGATATTTT-GAAAATAAAATCG-GAGTTGGTGTA
64 GGGTT-GAAGTATCCCCGATTGTGAAAAATTGATATTTTAG-AAATAAAATCGAG-GTTGGAGTA
* * ** *
1516392 TCCCCTCAAAAATTACGGGGTTGGAGTATCCCCGATTGTG-AAAATCGGTGTTTTGAAAAT-AAA
126 TCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTGGAAATAAAA
** * * * * * *
1516455 ATTGGGGTTGGAGTATTCCCTCAGAATTGACAGGGTTGGAGTATCCCC
191 ACCGAGGTTGGAGTATCCCCTCAGAAATAACA-GGATGGAGTATCCCT
* *
1516503 GATGGTGAAAAATCGATATTTT-AGAAATAAAA
1 GATGGTGAAAAATTGATGTTTTGA-AAATAAAA
1516535 CATGAATGAA
Statistics
Matches: 616, Mismatches: 110, Indels: 34
0.81 0.14 0.04
Matches are distributed among these distances:
235 1 0.00
236 103 0.17
237 328 0.53
238 184 0.30
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (237 bp):
GATGGTGAAAAATTGATGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGG
GTTGAAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
TCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGTTTTGGAAATAAAAACCGA
GGTTGGAGTATCCCCTCAGAAATAACAGGATGGAGTATCCCT
Found at i:1519661 original size:74 final size:75
Alignment explanation
Indices: 1519543--1519722 Score: 213
Period size: 74 Copynumber: 2.4 Consensus size: 75
1519533 AGGAAGGGGT
* * * *
1519543 GTCCTGCTCTTTGAGGACAAAGGAAAAAG-CGTACGTCTTACTCTTCAAGGACAAAGGAAAAAAG
1 GTCCTACTCTTTGA-GACAAAGGAAAAAGAAGTACATCCTACTCTTCAAGGACAAAGGAAAAAAG
* *
1519607 -AATGAAATGG
65 AAATAAAATGC
* * ** *
1519617 GTCCTACTCCTTGAGACAAAGGAAAAAGAAGTACATCCTGCTCTTTGAGGACAAAGGAAAAAGGA
1 GTCCTACTCTTTGAGACAAAGGAAAAAGAAGTACATCCTACTCTTCAAGGACAAAGGAAAAAAGA
1519682 AATAAAATGC
66 AATAAAATGC
*
1519692 GTCCTAGTCTTTGAAGACAAAGG-AAAAGAAG
1 GTCCTACTCTTTG-AGACAAAGGAAAAAGAAG
1519723 GAAATTAAGT
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
73 14 0.16
74 40 0.44
75 27 0.30
76 9 0.10
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.19
Consensus pattern (75 bp):
GTCCTACTCTTTGAGACAAAGGAAAAAGAAGTACATCCTACTCTTCAAGGACAAAGGAAAAAAGA
AATAAAATGC
Found at i:1519683 original size:42 final size:41
Alignment explanation
Indices: 1519634--1519879 Score: 178
Period size: 42 Copynumber: 5.8 Consensus size: 41
1519624 TCCTTGAGAC
* *
1519634 AAAGGAAAAAGAAGTACATCCTGCTCTTTGAGGACAAAGGAA
1 AAAGGAAAAA-AAGTGCGTCCTGCTCTTTGAGGACAAAGGAA
*
1519676 AAAGGAAATAAAA-TGCGTCCTAG-TCTTTGAAGACAAAGGAAA
1 AAAGGAAA-AAAAGTGCGTCCT-GCTCTTTGAGGACAAAGG-AA
** ** * * *
1519718 AGAAGGAAATTAAGTATGTCTTGCTCTTTGGGGACAAAAGAGA
1 A-AAGGAAAAAAAGTGCGTCCTGCTCTTTGAGGACAAAGGA-A
* * * *
1519761 AAA-GAAAATAAAGTGCGTCCTGCTTTTTAAAGACAAAGGGA
1 AAAGGAAAA-AAAGTGCGTCCTGCTCTTTGAGGACAAAGGAA
* *
1519802 AAAGGAAATAAAA-TGTGTCCTGCTCTTTGAGGATAAAAGGAA
1 AAAGGAAA-AAAAGTGCGTCCTGCTCTTTGAGGA-CAAAGGAA
**
1519844 AAA-GAAGGAAATGAAGTGTTTCCTGCTCTTTGAGGA
1 AAAGGAA--AAA--AAGTGCGTCCTGCTCTTTGAGGA
1519880 TAAAAAGATA
Statistics
Matches: 159, Mismatches: 29, Indels: 29
0.73 0.13 0.13
Matches are distributed among these distances:
41 48 0.30
42 59 0.37
43 31 0.19
44 2 0.01
45 19 0.12
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (41 bp):
AAAGGAAAAAAAGTGCGTCCTGCTCTTTGAGGACAAAGGAA
Found at i:1519711 original size:41 final size:41
Alignment explanation
Indices: 1519652--1519879 Score: 197
Period size: 41 Copynumber: 5.4 Consensus size: 41
1519642 AAGAAGTACA
1519652 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAATGCG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAATGCG
* * * **
1519693 TCCTAG-TCTTTGAAGACAAAGGAAAAGAAGGAAATTAAGTATG
1 TCCT-GCTCTTTGAGGACAAAGG-AAA-AAGGAAATAAAATGCG
* * * * *
1519736 TCTTGCTCTTTGGGGACAAAAGAGAAAAGAAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGGA-AAAAGGAAATAAAATGCG
* * * * *
1519778 TCCTGCTTTTTAAAGACAAAGGGAAAAGGAAATAAAATGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAATGCG
* * * **
1519819 TCCTGCTCTTTGAGGATAAAAGGAAAAAGAAGGAAATGAAGTGTT
1 TCCTGCTCTTTGAGGA-CAAAGG--AAA-AAGGAAATAAAATGCG
1519864 TCCTGCTCTTTGAGGA
1 TCCTGCTCTTTGAGGA
1519880 TAAAAAGATA
Statistics
Matches: 147, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
41 47 0.32
42 39 0.27
43 30 0.20
44 2 0.01
45 29 0.20
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.24
Consensus pattern (41 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAATGCG
Found at i:1519797 original size:126 final size:128
Alignment explanation
Indices: 1519652--1519884 Score: 319
Period size: 126 Copynumber: 1.8 Consensus size: 128
1519642 AAGAAGTACA
* * *
1519652 TCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAATGCGTCCTAG-TCTTTGAAGA-CAAAGG
1 TCCTGCTCTTTAAAGACAAAGGAAAAAGGAAATAAAATGCGTCCT-GCTCTTTGAAGATAAAAGG
* * *
1519715 -AAAAGAAGGAAATTAAGTATGTCTTGCTCTTTGGGGACAAAAGAGAAAAGAAAATAAAGTGCG
65 AAAAAGAAGGAAATGAAGTATGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAAATAAAGTGCG
* * * *
1519778 TCCTGCTTTTTAAAGACAAAGGGAAAAGGAAATAAAATGTGTCCTGCTCTTTGAGGATAAAAGGA
1 TCCTGCTCTTTAAAGACAAAGGAAAAAGGAAATAAAATGCGTCCTGCTCTTTGAAGATAAAAGGA
* * *
1519843 AAAAGAAGGAAATGAAGTGTTTCCTGCTCTTTGAGGATAAAA
66 AAAAGAAGGAAATGAAGTATGTCCTGCTCTTTGAGGACAAAA
1519885 AGATACCACC
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
125 1 0.01
126 49 0.54
127 5 0.05
128 36 0.40
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (128 bp):
TCCTGCTCTTTAAAGACAAAGGAAAAAGGAAATAAAATGCGTCCTGCTCTTTGAAGATAAAAGGA
AAAAGAAGGAAATGAAGTATGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAAATAAAGTGCG
Found at i:1520016 original size:61 final size:60
Alignment explanation
Indices: 1519919--1520240 Score: 368
Period size: 61 Copynumber: 5.4 Consensus size: 60
1519909 TTAAAAGGAA
* * * * *
1519919 AAAG-GAAAGTGTCTTGCTTTTTGGGGACTAGAAGGTGCCACAAACTTATGTGGGCTTTG
1 AAAGAGAAAGTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG
* * *
1519978 CAAGGAGAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTG
1 -AAAGAGAAAGTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG
* * * *
1520039 AAAG-GAAAGTATCCTGCTTTTTGAGGACT-GAAAGGTGCCACCAACTTGTATGGGCTTTA
1 AAAGAGAAAGTGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTG
* * * * * * *
1520098 AAAGAAAAAGGCGTCCTGCTTTTTGAGGACTGGAAAGTGCCATCAACTTGTGTGGGCTTTA
1 AAAGAGAAA-GTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG
*
1520159 AAAG-GAAAAGTTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTG
1 AAAGAG-AAAG-TGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG
*
1520220 -AAG-GAAAGTGTCTTGCTCTTT
1 AAAGAGAAAGTGTCCTGCTCTTT
1520241 AAGAACTGAA
Statistics
Matches: 225, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
58 13 0.06
59 55 0.24
60 14 0.06
61 142 0.63
62 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (60 bp):
AAAGAGAAAGTGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG
Found at i:1520085 original size:120 final size:118
Alignment explanation
Indices: 1519864--1520240 Score: 418
Period size: 120 Copynumber: 3.1 Consensus size: 118
1519854 ATGAAGTGTT
* * *
1519864 TCCTGCTCTTTGAGGA-TAAAAAGATACCACCAACTTGTATGGGCTTTAAAAGGAAAAAGGAAAG
1 TCCTGCTCTTTGAGGACTAGAAAG-TGCCACCAACTTGTGTGGGCTTT-------AAAAGGAAAG
* * * * *
1519928 TGTCTTGCTTTTTGGGGACTAGAAGGTGCCACAAACTTATGTGGGCTTTGCAAGGAGAAAGCG
58 TGTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTG-AA-GAGAAAGCG
* * * *
1519991 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTGAAAGGAAAGTATCCTGC
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCCTGC
* *
1520056 TTTTTGAGGACT-GAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAAGGCG
66 TTTTTGAGGACTAG-AAGGTGCCACCAACTTGTATGGGCTTT-GAAGAGAAA-GCG
* * *
1520111 TCCTGCTTTTTGAGGACTGGAAAGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAGTTGTCCT
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAG-TGTCCT
* *
1520176 GCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGAAG-GAAAGTG
64 GCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGAAGAGAAAGCG
*
1520230 TCTTGCTCTTT
1 TCCTGCTCTTT
1520241 AAGAACTGAA
Statistics
Matches: 216, Mismatches: 27, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
119 17 0.08
120 105 0.49
121 7 0.03
122 45 0.21
123 1 0.00
127 36 0.17
128 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (118 bp):
TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCCTGC
TTTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGAAGAGAAAGCG
Found at i:1520192 original size:181 final size:183
Alignment explanation
Indices: 1519864--1520253 Score: 513
Period size: 181 Copynumber: 2.1 Consensus size: 183
1519854 ATGAAGTGTT
* *
1519864 TCCTGCTCTTTGAGGA-TAAAAAGATACCACCAACTTGTATGGGCTTTAAAAGGAAAAAGGAAAG
1 TCCTGCTCTTTGAGGACT-GAAAGGTACCACCAACTTGTATGGGCTTTAAAAGGAAAAAGG--AG
* * * * **
1519928 TGTCTTGCTTTTTGGGGACTAGAAGGTGCCACAAACTTATGTGGGCTTTGCAAGGAGAAAGCGTC
63 CGTCCTGCTTTTTGAGGACTAGAAAGTGCCACAAACTTATGTGGGCTTTAAAAGGAGAAAGCGTC
* *
1519993 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTGAAAGGAAAGTA
128 CTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTG-AAGGAAAGTA
* *
1520050 TCCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAA-GAAAAA-G-GCGT
1 TCCTGCTCTTTGAGGACTGAAAGGTACCACCAACTTGTATGGGCTTTAAAAGGAAAAAGGAGCGT
* * *
1520112 CCTGCTTTTTGAGGACTGGAAAGTGCCATC-AACTTGTGTGGGCTTTAAAAGGA-AAAGTTGTCC
66 CCTGCTTTTTGAGGACTAGAAAGTGCCA-CAAACTTATGTGGGCTTTAAAAGGAGAAAG-CGTCC
*
1520175 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGAAGGAAAGTG
129 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGAAGGAAAGTA
* * *
1520230 TCTTGCTCTTTAAGAACTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
1520254 ATAAAGGTTT
Statistics
Matches: 181, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
180 33 0.18
181 94 0.52
182 1 0.01
184 1 0.01
185 6 0.03
186 45 0.25
187 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (183 bp):
TCCTGCTCTTTGAGGACTGAAAGGTACCACCAACTTGTATGGGCTTTAAAAGGAAAAAGGAGCGT
CCTGCTTTTTGAGGACTAGAAAGTGCCACAAACTTATGTGGGCTTTAAAAGGAGAAAGCGTCCTG
CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTGAAGGAAAGTA
Found at i:1521190 original size:61 final size:60
Alignment explanation
Indices: 1521083--1521656 Score: 645
Period size: 61 Copynumber: 9.4 Consensus size: 60
1521073 CCCTTTTAGC
* * * *
1521083 CCTTTAGTCCTTAAAGAGTAGGACGACTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACG-CCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCA
*
1521144 CCTTCTAGTCCTCAAGGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * *
1521205 CATTTTAATCCTCAAAGAGCAGGACGTCTTTTCTTTTTAAAG-CCACACAAGTTGGTGGCA
1 C-CTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCA
* *
1521265 CCTTTAGTCCTCAAAAAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC-TTTCAAAGCCCACACGAGTTGGTGGCA
* *
1521326 CCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * *
1521387 -CTTGCAGTCTTGAAAGAGTAGGATGCTTTTTCCTTTTC-AAGCCCACACGAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCC-TTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * * * **
1521447 CATTTCAATCCTCAAAGAGCAGGACATCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGAAA
1 CCTTT-AGTCCTCAAAGAGCAGGAC-GCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCA
* *
1521509 CCTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTCTT-AAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT-TTCAAAGCCCACACGAGTTGGTGGCA
* * * *
1521569 CCATTTAGTCCTCAATGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC-
1 CC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
1521629 GCTTCCCAGTCTTCAAAGAGCAGGACGC
1 CCTT--TAGTCCTCAAAGAGCAGGACGC
1521657 TCTCTCCTTT
Statistics
Matches: 435, Mismatches: 62, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
59 31 0.07
60 102 0.23
61 222 0.51
62 80 0.18
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (60 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:1521442 original size:182 final size:181
Alignment explanation
Indices: 1521083--1521655 Score: 724
Period size: 182 Copynumber: 3.1 Consensus size: 181
1521073 CCCTTTTAGC
* *
1521083 CCTTTAGTCCTTAAAGAGTAGGACGACTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
1 CCTTTAGTCCTCAAAGAGCAGGACGACTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
* * *
1521148 CTAGTCCTCAAGGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACATTTTAA
66 -TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACA-TTTAG
*
1521213 TCCTCAAAGAGCAGGACG-TCTTTTCTTTTTAAAG-CCACACAAGTTGGTGGCA
129 TCCTCAAAGAGCAGGACGCT-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1521265 CCTTTAGTCCTCAAAAAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCCT
1 CCTTTAGTCCTCAAAGAGCAGGACGACTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CCT
* *
1521330 TTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTGCAG
65 TTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACATT-TAG
* * * * * *
1521394 TCTTGAAAGAGTAGGATGCTTTTTCCTTTTCAAGCCCACACGAGTTGGTGGCA
129 TCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * **
1521447 CATTTCAATCCTCAAAGAGCAGGAC-ATCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGAAACC
1 CCTTT-AGTCCTCAAAGAGCAGGACGA-CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC
* * *
1521511 TTCAGTCCTCAAAGAGCAGGACGCTTTTTCCTCTTAAAGCCCACACGAGTTGGTGGCACCATTTA
64 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA-CATTTA
* * *
1521576 GTCCTCAATGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC-
128 GTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1521629 GCTTCCCAGTCTTCAAAGAGCAGGACG
1 CCTT--TAGTCCTCAAAGAGCAGGACG
1521656 CTCTCTCCTT
Statistics
Matches: 333, Mismatches: 47, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
180 2 0.01
181 27 0.08
182 189 0.57
183 113 0.34
184 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (181 bp):
CCTTTAGTCCTCAAAGAGCAGGACGACTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACATTTAGTC
CTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1521487 original size:122 final size:122
Alignment explanation
Indices: 1521085--1521656 Score: 737
Period size: 122 Copynumber: 4.7 Consensus size: 122
1521075 CTTTTAGCCC
* * * * * *
1521085 TTTAGTCCTTAAAGAGTAGGACGACTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTCT
1 TTTAATCCTCAAAGAGCAGGACG-CCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-
*
1521150 AGTCCTCAAGGAGCAGGACGCCTTTTCC-TTTCAAAGCCCACACGAGTTGGTGGCA-CA
64 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCA
* *
1521207 TTTTAATCCTCAAAGAGCAGGACGTCTTTTCTTTTTAAAG-CCACACAAGTTGGTGGCACCTTTA
1 -TTTAATCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCA
* * *
1521271 GTCCTCAAAAAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCC
65 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCA
* *
1521329 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTGCA
1 TTTAATCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CA
* * * * *
1521393 GTCTTGAAAGAGTAGGATGCTTTTTCCTTTTC-AAGCCCACACGAGTTGGTGGCA-CA
65 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCA
* * **
1521449 TTTCAATCCTCAAAGAGCAGGACATCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGAAACCTTC
1 TTT-AATCCTCAAAGAGCAGGAC-GCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
1521514 AGTCCTCAAAGAGCAGGACGCTTTTTCCTCTT-AAAGCCCACACGAGTTGGTGGCACCA
64 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCA
* * * * *
1521572 TTTAGTCCTCAATGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC-GCTTCCC
1 TTTAATCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTT--C
*
1521636 AGTCTTCAAAGAGCAGGACGC
64 AGTCCTCAAAGAGCAGGACGC
1521657 TCTCTCCTTT
Statistics
Matches: 395, Mismatches: 43, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
120 32 0.08
121 156 0.39
122 179 0.45
123 28 0.07
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (122 bp):
TTTAATCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
TCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCA
Found at i:1521795 original size:61 final size:61
Alignment explanation
Indices: 1521695--1522540 Score: 881
Period size: 61 Copynumber: 13.9 Consensus size: 61
1521685 GAGTAAGACG
* * * * *
1521695 CCTTTCAAAGCCCACATGAGTTGGTGGCACTATTT-AGTCCTCAAAGAGGAGGATGCCTTTT
1 CCTTTTAAAGCCCACACGAGTTGGTGGCGC-ATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * **
1521756 CCTTTTCAAGCCCACACGAGTTGGTGGTGCATTTCAGTCCTCAAAGAGCAGGGTGCCTTTT
1 CCTTTTAAAGCCCACACGAGTTGGTGGCGCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* ** *
1521817 -CTTCTTAAAGCCCACACGAGTTGGTGGCACCATTT-AGTCCTCAAAGAATAGGACGCCTTCT
1 CCTT-TTAAAGCCCACACGAGTTGGTGGC-GCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
1521878 CCTTTTAAAGCCCACACAAGTTGGTGGCGC-TTCCCAGTCCTCAAAGAGCAGGATG-TTTTCT
1 CCTTTTAAAGCCCACACGAGTTGGTGGCGCATT-TCAGTCCTCAAAGAGCAGGACGCCTTT-T
* * * *
1521939 CCATTTAAAGCCCACACGAGTTGGTGGCAC-CTTCTAGTCCTCAAGGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACGAGTTGGTGGCGCATTTC-AGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
1522000 CCTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACGAGTTGGTGGCGCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * * **
1522061 -GTTTTCAAAGTCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAAACCTTTT
1 CCTTTT-AAAGCCCACACGAGTTGGTGGCGCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
1522122 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAAAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACGAGTTGGTGGCGCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
1522182 CCTTTTCAAAGCCCCCACGAGTTGGTGGCACCCTTT-AGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTT-AAAGCCCACACGAGTTGGTGGC-GCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
1522244 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGTAGGACGCTTTTT
1 CCTTTTAAAGCCCACACGAGTTGGTGGCGCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
1522304 TCTTTTCAAGCCCACACGGGTTGGTGGCACATTTCAGTCCTCAAAGAGCAGGACGTCTTTT
1 CCTTTTAAAGCCCACACGAGTTGGTGGCGCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * * * *
1522365 CCTTTTTAAAGCCCACACAAGTTGGTAGCAC-CTTCAGTCCTTAAAGAGTAGGACACTTTTT
1 CC-TTTTAAAGCCCACACGAGTTGGTGGCGCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
1522426 CCTTTTCAAGCCCACACGAGTTGGTGGCCCCATTT-AGTCTTCAAAGAGCAGGATGCCTTCT
1 CCTTTTAAAGCCCACACGAGTTGGTGG-CGCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
1522487 CTTTTTAAAGCCCACACAATTTGGTGGCGC-TTCCCAGTCCTCAAAGAGCAGGAC
1 CCTTTTAAAGCCCACACGAGTTGGTGGCGCATT-TCAGTCCTCAAAGAGCAGGAC
1522541 ACTCTCTCCT
Statistics
Matches: 667, Mismatches: 97, Indels: 42
0.83 0.12 0.05
Matches are distributed among these distances:
59 7 0.01
60 117 0.18
61 464 0.70
62 79 0.12
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACGAGTTGGTGGCGCATTTCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:1522541 original size:122 final size:121
Alignment explanation
Indices: 1521697--1522552 Score: 1015
Period size: 122 Copynumber: 7.0 Consensus size: 121
1521687 GTAAGACGCC
* * * *
1521697 TTTCAAAGCCCACATGAGTTGGTGGCACTATTTAGTCCTCAAAGAGGAGGATGCCTTTTCCTTTT
1 TTTC-AAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * * * *** *
1521762 CAAGCCCACACGAGTTGGTGGTGCATTTCAGTCCTCAAAGAGCAGGGTGCCTTTT-CT
65 AAAGCCCACACAAGTTGGTGG-CCCTTTCAGTCCTCAAAGAGCAGGACACTTTTTCCT
* ** *
1521819 TCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGAATAGGACGCCTTCTCCTTTT
1 T-TTCAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * ** *
1521884 AAAGCCCACACAAGTTGGTGGCGCTTCCCAGTCCTCAAAGAGCAGGA-TGTTTTCTCCA
65 AAAGCCCACACAAGTTGGTGGCCCTT-TCAGTCCTCAAAGAGCAGGACACTTTT-TCCT
* * *
1521942 TTTAAAGCCCACACGAGTTGGTGGCACC-TTCTAGTCCTCAAGGAGCAGGACGCCTTTTCCTTTC
1 TTTCAAGCCCACACGAGTTGGTGGCACCATT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * * *
1522006 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTT-GT
65 AAAGCCCACACAAGTTGGTGGC-CCTTTCAGTCCTCAAAGAGCAGGACACTTTTTCCT
* * * ** *
1522063 TTTCAAAGTCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAAACCTTTTCTTTTT
1 TTTC-AAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * *
1522128 AAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAAAGCAGGACGCCTTTTCCT
65 AAAGCCCACACAAGTTGGTGGC-CCTTTCAGTCCTCAAAGAGCAGGACACTTTTTCCT
* *
1522185 TTTCAAAGCCCCCACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
1 TTTC-AAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * * *
1522250 AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGTAGGACGCTTTTTTCT
65 AAAGCCCACACAAGTTGGTGGCCCTTTCAGTCCTCAAAGAGCAGGACACTTTTTCCT
* *
1522307 TTTCAAGCCCACACGGGTTGGTGGCA-CATTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTT
1 TTTCAAGCCCACACGAGTTGGTGGCACCATTT-AGTCCTCAAAGAGCAGGACGCCTTTTCC-TTT
* * *
1522371 TAAAGCCCACACAAGTTGGTAGCACC-TTCAGTCCTTAAAGAGTAGGACACTTTTTCCT
64 TAAAGCCCACACAAGTTGGTGGC-CCTTTCAGTCCTCAAAGAGCAGGACACTTTTTCCT
* * * * *
1522429 TTTCAAGCCCACACGAGTTGGTGGCCCCATTTAGTCTTCAAAGAGCAGGATGCCTTCTCTTTTTA
1 TTTCAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTA
* * * * *
1522494 AAGCCCACACAATTTGGTGGCGCTTCCCAGTCCTCAAAGAGCAGGACACTCTCTCCT
66 AAGCCCACACAAGTTGGTGGCCCTT-TCAGTCCTCAAAGAGCAGGACACTTTTTCCT
1522551 TT
1 TT
1522553 CGCCCTTTAG
Statistics
Matches: 637, Mismatches: 80, Indels: 34
0.85 0.11 0.05
Matches are distributed among these distances:
120 5 0.01
121 110 0.17
122 504 0.79
123 18 0.03
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (121 bp):
TTTCAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTA
AAGCCCACACAAGTTGGTGGCCCTTTCAGTCCTCAAAGAGCAGGACACTTTTTCCT
Found at i:1522681 original size:61 final size:61
Alignment explanation
Indices: 1522583--1523014 Score: 410
Period size: 61 Copynumber: 7.1 Consensus size: 61
1522573 GCAGGATGCC
* *
1522583 TTTCAAAGCCCACACGAGTTGGTGGCACCATTT-AGTCCTCAAAGGGCATGACACCTTTTCCT
1 TTTC-AAGCCCACACGAGTTGGTGGCA-CATTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * * *
1522645 TTTCAAGCCTACACGAGTTGGTGGCGCATTTCAGTCCTCAAAGAGTAGGGCGCCTTTTCCT
1 TTTCAAGCCCACACGAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
* *
1522706 CTTAAAGCCCACACGAGTTGGTGGCACCATTT-AGTCCTCAAAGAGCAGGACACCTTTTCCT
1 TTTCAAGCCCACACGAGTTGGTGGCA-CATTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * * * * ** *
1522767 TTTAAAGTCCACACAAGTTGGTGGCGC-TTCCCAGTCCTAAAAGAGCAGGA-TGCTTTATTCT
1 TTTCAAGCCCACACGAGTTGGTGGCACATT-TCAGTCCTCAAAGAGCAGGACACCTTT-TCCT
* * * * * * *
1522828 TTTAAAGACCACTCGAGTTGGTGGCACTTTTCAGTTCTCAAAGAGCAGGATA-C-TTTCTT
1 TTTCAAGCCCACACGAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * * * * **
1522887 TTTGCAAAGCTCTCACAAGTTGGTGGCACCTTCCAGTTCTCAAAGAGCAGGATGCCTTTT-CT
1 TTT-C-AAGCCCACACGAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * *
1522949 TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCCT
1 TTTC-AAGCCCACACGAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
1523011 TTTC
1 TTTC
1523015 TCCTTTGTCT
Statistics
Matches: 306, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
59 7 0.02
60 12 0.04
61 262 0.86
62 22 0.07
63 3 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.30
Consensus pattern (61 bp):
TTTCAAGCCCACACGAGTTGGTGGCACATTTCAGTCCTCAAAGAGCAGGACACCTTTTCCT
Found at i:1522786 original size:122 final size:119
Alignment explanation
Indices: 1522568--1523013 Score: 512
Period size: 122 Copynumber: 3.7 Consensus size: 119
1522558 TTTAGTCTTT
*
1522568 AAAGAGCAGGATGCC-TTTC----AAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGG
1 AAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGA
* * * *
1522628 GCATGACACCTTTTCCTTTTCAAGCCTACACGAGTTGGTGGCGCATTTCAGTCCTC
66 GCAGGACACCTTTTCCTTTTAAAGCC-ACACAAGTTGGTGGCGC-TTCCAGTCCTC
* ** *
1522684 AAAGAGTAGGGCGCCTTTTCCTCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAG
1 AAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAG
*
1522749 AGCAGGACACCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCGCTTCCCAGTCCTA
65 AGCAGGACACCTTTTCCTTTTAAAG-CCACACAAGTTGGTGGCGCTT-CCAGTCCTC
* * * * *
1522806 AAAGAGCAGGATGCTTTATTCTTTTAAAGACCACTCGAGTTGGTGGCA-CTTTTCAGTTCTCAAA
1 AAAGAGCAGGATGCCTT-TTCTTTTAAAGCCCACACGAGTTGGTGGCACCATTT-AGTCCTCAAA
* * * * *
1522870 GAGCAGGATA-C-TTTCTTTTTGCAAAGCTCTCACAAGTTGGTGGCACCTTCCAGTTCTC
64 GAGCAGGACACCTTTTCCTTTT--AAAGC-CACACAAGTTGGTGGC-GCTTCCAGTCCTC
**
1522928 AAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAG
1 AAAGAGCAGGATGCCTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAG
* *
1522993 AGCAGGACGCTTTTTCCTTTT
65 AGCAGGACACCTTTTCCTTTT
1523014 CTCCTTTGTC
Statistics
Matches: 279, Mismatches: 33, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
116 12 0.04
117 3 0.01
118 1 0.00
120 8 0.03
121 15 0.05
122 221 0.79
123 11 0.04
124 8 0.03
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (119 bp):
AAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGA
GCAGGACACCTTTTCCTTTTAAAGCCACACAAGTTGGTGGCGCTTCCAGTCCTC
Found at i:1522799 original size:886 final size:884
Alignment explanation
Indices: 1521083--1522999 Score: 3014
Period size: 886 Copynumber: 2.2 Consensus size: 884
1521073 CCCTTTTAGC
* * *
1521083 CCTTTAGTCCTTAAAGAGTAGGACGACTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
1 CCTTTAGTCCTCAAAGAGCAGGACG-CCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
* * *
1521148 CTAGTCCTCAAGGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACATTTTAA
65 CTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACATTTTAG
***
1521213 TCCTCAAAGAGCAGGACGTCTTTTCTTTTTAAAGCCACACAAGTTGGTGGCACCTTTAGTCCTCA
130 TCCTCAAAGAGCAGGAAACCTTTTCTTTTTAAAGCCACACAAGTTGGTGGCACCTTTAGTCCTCA
*
1521278 AAAAGCAGGATGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAG
195 AAAAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAG
* *
1521343 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTGCAGTCTTGAAAGAGTAG
260 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTGCAGTCCTCAAAGAGTAG
*
1521408 GATGCTTTTTCCTTTTCAAGCCCACACGAGTTGGTGGCACATTTCAATCCTCAAAGAGCAGGACA
325 GACGCTTTTTCCTTTTCAAGCCCACACGAGTTGGTGGCACATTTCAATCCTCAAAGAGCAGGACA
* *
1521473 TCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGAAACCTTCAGTCCTCAAAGAGCAGGACGCTTT
390 TCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGAAACCTTCAGTCCTCAAAGAGCAGGACACTTT
*
1521538 TTCCTCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAATGAGCAGGACGCCTTCTCC
455 TTCCTCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGACGCCTTCTCC
* *
1521603 TTTTAAAGCCCACACAAGTTGGTGGCGCTTCCCAGTCTTCAAAGAGCAGGACGCTCTCTCCTTTC
520 TTTTAAAGCCCACACAAGTTGGTGGCGCTTCCCAGTCCTCAAAGAGCAGGACACTCTCTCCTTTC
* * *
1521668 GCCCTTTAGTCCTCAAAGAGTAAGACGCCTTTCAAAGCCCACATGAGTTGGTGGCACTATTTAGT
585 GCCCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACCATTTAGT
** *
1521733 CCTCAAAGAGGAGGATGCCTTTTCCTTTTCAAGCCCACACGAGTTGGTGGTGCATTTCAGTCCTC
650 CCTCAAAGAGGAGGACACCTTTTCCTTTTCAAGCCCACACGAGTTGGTGGCGCATTTCAGTCCTC
* *
1521798 AAAGAGCAGGGTGCCTTTTCTTCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAG
715 AAAGAGCAGGGCGCCTTTTCCTCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAG
* * *
1521863 AATAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCGCTTCCCAGTCCTCAAAGAGCA
780 AACAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCGCTTCCCAGTCCTAAAAGAGCA
* * *
1521928 GGATGTTTTCTCCATTTAAAGCCCACACGAGTTGGTGGCA
845 GGATGCTTTATCCATTTAAAGACCACACGAGTTGGTGGCA
* *
1521968 CCTTCTAGTCCTCAAGGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCTT
1 CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT
* * * * * *
1522033 TTAGTCCTCAAAGAGCAGGACACCTTTTGTTTTCAAAGTCCACATGAGTTGGTGGCACCTTTTAG
65 CTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACATTTTAG
1522098 TCCTCAAAGAGCAGGAAACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTC
130 TCCTCAAAGAGCAGGAAACCTTTTCTTTTTAAAG-CCACACAAGTTGGTGGCACCTTTAGTCCTC
*
1522163 AAAAAGCAGGACGCCTTTTCCTTTTCAAAGCCCCCACGAGTTGGTGGCACCCTTTAGTCCTCAAA
194 AAAAAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAA
*
1522228 GAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGTA
259 GAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTGCAGTCCTCAAAGAGTA
* * *
1522293 GGACGCTTTTTTCTTTTCAAGCCCACACGGGTTGGTGGCACATTTCAGTCCTCAAAGAGCAGGAC
324 GGACGCTTTTTCCTTTTCAAGCCCACACGAGTTGGTGGCACATTTCAATCCTCAAAGAGCAGGAC
* * * *
1522358 GTCTTTTCCTTTTTAAAGCCCACACAAGTTGGT-AGCACCTTCAGTCCTTAAAGAGTAGGACACT
389 ATCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGA-AACCTTCAGTCCTCAAAGAGCAGGACACT
* * * * *
1522422 TTTTCCTTTTCAAGCCCACACGAGTTGGTGGCCCCATTTAGTCTTCAAAGAGCAGGATGCCTTCT
453 TTTTCCTCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGACGCCTTCT
* *
1522487 CTTTTTAAAGCCCACACAATTTGGTGGCGCTTCCCAGTCCTCAAAGAGCAGGACACTCTCTCCTT
518 CCTTTTAAAGCCCACACAAGTTGGTGGCGCTTCCCAGTCCTCAAAGAGCAGGACACTCTCTCCTT
* * * *
1522552 TCGCCCTTTAGTCTTTAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCACCATTTA
583 TCGCCCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACCATTTA
* *
1522617 GTCCTCAAAG-GGCATGACACCTTTTCCTTTTCAAGCCTACACGAGTTGGTGGCGCATTTCAGTC
648 GTCCTCAAAGAGG-AGGACACCTTTTCCTTTTCAAGCCCACACGAGTTGGTGGCGCATTTCAGTC
*
1522681 CTCAAAGAGTAGGGCGCCTTTTCCTCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCA
712 CTCAAAGAGCAGGGCGCCTTTTCCTCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCA
* * *
1522746 AAGAGCAGGACACCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCGCTTCCCAGTCCTAAAAGA
777 AAGAACAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCGCTTCCCAGTCCTAAAAGA
* * *
1522811 GCAGGATGCTTTATTCTTTTAAAGACCACTCGAGTTGGTGGCA
842 GCAGGATGCTTTATCCATTTAAAGACCACACGAGTTGGTGGCA
* * ** * * *
1522854 CTTTTCAGTTCTCAAAGAGCAGGA-TAC-TTTCTTTTTGCAAAGCTCTCACAAGTTGGTGGCACC
1 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTTC-TTTT-CAAAGCCCACACGAGTTGGTGGCACC
* * * *
1522917 TTCCAGTTCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
63 TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACATTTT
1522982 AGTCCTCAAAGAGCAGGA
128 AGTCCTCAAAGAGCAGGA
1523000 CGCTTTTTCC
Statistics
Matches: 938, Mismatches: 87, Indels: 13
0.90 0.08 0.01
Matches are distributed among these distances:
884 4 0.00
885 136 0.14
886 798 0.85
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (884 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTC
TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACATTTTAGT
CCTCAAAGAGCAGGAAACCTTTTCTTTTTAAAGCCACACAAGTTGGTGGCACCTTTAGTCCTCAA
AAAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGA
GCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTGCAGTCCTCAAAGAGTAGG
ACGCTTTTTCCTTTTCAAGCCCACACGAGTTGGTGGCACATTTCAATCCTCAAAGAGCAGGACAT
CTTTTCCTTTTTAAAGCCCACACAAGTTGGTGAAACCTTCAGTCCTCAAAGAGCAGGACACTTTT
TCCTCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGACGCCTTCTCCT
TTTAAAGCCCACACAAGTTGGTGGCGCTTCCCAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCG
CCCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACCATTTAGTC
CTCAAAGAGGAGGACACCTTTTCCTTTTCAAGCCCACACGAGTTGGTGGCGCATTTCAGTCCTCA
AAGAGCAGGGCGCCTTTTCCTCTTAAAGCCCACACGAGTTGGTGGCACCATTTAGTCCTCAAAGA
ACAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCGCTTCCCAGTCCTAAAAGAGCAG
GATGCTTTATCCATTTAAAGACCACACGAGTTGGTGGCA
Found at i:1523116 original size:41 final size:43
Alignment explanation
Indices: 1523060--1523167 Score: 116
Period size: 41 Copynumber: 2.6 Consensus size: 43
1523050 TTTCTTTTCC
*
1523060 CTTTTGTCCTCAAAGAGTAGG-CGCACTTT-ATTTTCC-TCTTT
1 CTTTTGTCCTCAAAGAGCAGGACGCA-TTTCATTTTCCATCTTT
* * *
1523101 CTTTTGTCCTTAAAGAGCAGGACGTATTTCATTTTCCATTTTT
1 CTTTTGTCCTCAAAGAGCAGGACGCATTTCATTTTCCATCTTT
* *
1523144 CCTTTGTCCTCGAAA-AGTAGGACG
1 CTTTTGTCCTC-AAAGAGCAGGACG
1523168 TACTCTTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 22 0.39
42 10 0.18
43 21 0.38
44 3 0.05
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (43 bp):
CTTTTGTCCTCAAAGAGCAGGACGCATTTCATTTTCCATCTTT
Found at i:1523166 original size:43 final size:42
Alignment explanation
Indices: 1523062--1523171 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
1523052 TCTTTTCCCT
* *
1523062 TTTGTCCTCAAAGAGTAGG-CGCACTTTATTTTCCTCTTTCT
1 TTTGTCCTCAAAGAGTAGGACGTACTTTATTTTCCTCTTTCC
* * *
1523103 TTTGTCCTTAAAGAGCAGGACGTA-TTTCATTTTCCATTTTTCC
1 TTTGTCCTCAAAGAGTAGGACGTACTTT-ATTTTCC-TCTTTCC
1523146 TTTGTCCTCGAAA-AGTAGGACGTACT
1 TTTGTCCTC-AAAGAGTAGGACGTACT
1523172 CTTTTTCACT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 20 0.35
42 10 0.18
43 23 0.40
44 4 0.07
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (42 bp):
TTTGTCCTCAAAGAGTAGGACGTACTTTATTTTCCTCTTTCC
Found at i:1525569 original size:24 final size:24
Alignment explanation
Indices: 1525536--1525621 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
1525526 AAGAGAAAGA
*
1525536 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1525560 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1525578 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* * *
1525602 AGAGACGGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1525622 AGAGAGGAGG
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
18 11 0.23
20 2 0.04
21 6 0.12
22 2 0.04
24 27 0.56
ACGTcount: A:0.41, C:0.02, G:0.47, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1525588 original size:42 final size:42
Alignment explanation
Indices: 1525527--1525645 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1525517 TAGCCCTCAA
* *
1525527 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1525569 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACGGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1525611 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1525646 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.42, C:0.03, G:0.47, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1530678 original size:20 final size:19
Alignment explanation
Indices: 1530653--1530706 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1530643 TTTTTCCAGA
*
1530653 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCT-CAT
*
1530673 TGTATCGATACACTACTCAT
1 TGTATCGATACA-TTCTCAT
1530693 TGTATCGATACATT
1 TGTATCGATACATT
1530707 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 27 0.90
21 2 0.07
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTCTCAT
Found at i:1530708 original size:13 final size:13
Alignment explanation
Indices: 1530690--1530718 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1530680 ATACACTACT
1530690 CATTGTATCGATA
1 CATTGTATCGATA
1530703 CATTGTATCGATA
1 CATTGTATCGATA
1530716 CAT
1 CAT
1530719 GGCCCATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1530727 original size:33 final size:33
Alignment explanation
Indices: 1530670--1530732 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1530660 ATACATTTTG
*
1530670 CATTGTATCGATACACTACTCATTGTATCGATA
1 CATTGTATCGATACACTACCCATTGTATCGATA
*
1530703 CATTGTATCGATACA-TGGCCCATTGTATCG
1 CATTGTATCGATACACT-ACCCATTGTATCG
1530733 TTATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (33 bp):
CATTGTATCGATACACTACCCATTGTATCGATA
Found at i:1533136 original size:51 final size:52
Alignment explanation
Indices: 1533051--1533168 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 52
1533041 ATTTTTCATC
* * * * **
1533051 TCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAAATTTTCTTAA
1 TCGGGGATACTCCAACTCCCGATTTCATTTCCAAAACACCAAAATCTCACAA
* *
1533102 TCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAAAATCTCACAA
1 TCGGGGATACTCCAACTCCCGATTTCATTTCCAAAACACCAAAATCTCACAA
*
1533153 TTGGGGATACTCCAAC
1 TCGGGGATACTCCAAC
1533169 CTCGTTATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (52 bp):
TCGGGGATACTCCAACTCCCGATTTCATTTCCAAAACACCAAAATCTCACAA
Found at i:1533184 original size:28 final size:28
Alignment explanation
Indices: 1533152--1533206 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
1533142 AAATCTCACA
* *
1533152 ATTGGGGATACTCCAACCTCGTTATTTT
1 ATTGGGGATACGCCAACCCCGTTATTTT
*
1533180 ATTGGGGATACGCTAACCCCGTTATTT
1 ATTGGGGATACGCCAACCCCGTTATTT
1533207 CCAAGGGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (28 bp):
ATTGGGGATACGCCAACCCCGTTATTTT
Found at i:1533225 original size:28 final size:28
Alignment explanation
Indices: 1533155--1533228 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
1533145 TCTCACAATT
* * *
1533155 GGGGATACTCCAACCTCGTTATTTTATT
1 GGGGATACTCCAACCCCGTTATTTCATA
* *
1533183 GGGGATACGCTAACCCCGTTATTTCCA-A
1 GGGGATACTCCAACCCCGTTATTT-CATA
*
1533211 GGGGATACTTCAACCCCG
1 GGGGATACTCCAACCCCG
1533229 GCCTTATTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCATA
Found at i:1533396 original size:79 final size:77
Alignment explanation
Indices: 1533184--1533439 Score: 262
Period size: 79 Copynumber: 3.2 Consensus size: 77
1533174 TATTTTATTG
* * * * ** *
1533184 GGGATACGCTAACCCCGTTATTTCCAAGGGGATACTTCAACCCCGGCCTTA-TTTCCAAATCATC
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-GTTTTATTTTCAAAAT-ATC
* *
1533248 GATTTTTTCACAATC
64 AATTTTTT-ATAATC
* *
1533263 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTCATTTTCAAAATATCA
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG-TTTTATTTTCAAAATATCA
1533328 ATTTTTTATAATC
65 ATTTTTTATAATC
** *** * *
1533341 AGGGATACTCCAACCTTGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTTTGGAACACC
1 -GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-GTTTTATTTTCAAAATATC
*
1533406 AATTTTTCATAATC
64 AATTTTTTATAATC
*
1533420 GGGGATACTCCAGCCCCGTT
1 -GGGATACTCCAACCCCGTT
1533440 GTTATCTCTA
Statistics
Matches: 148, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
78 6 0.04
79 133 0.90
80 9 0.06
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (77 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGTTTTATTTTCAAAATATCAA
TTTTTTATAATC
Found at i:1535024 original size:8 final size:8
Alignment explanation
Indices: 1535002--1535042 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
1534992 CTTAAGCAGG
1535002 TTCTTTTCT
1 TTCTTTT-T
1535011 TT-TTTTT
1 TTCTTTTT
1535018 TTCTTTTT
1 TTCTTTTT
1535026 TTCTTTTT
1 TTCTTTTT
1535034 GTT-TTTTT
1 -TTCTTTTT
1535042 T
1 T
1535043 AAAAAAAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 4 0.13
8 22 0.73
9 4 0.13
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (8 bp):
TTCTTTTT
Found at i:1540280 original size:79 final size:80
Alignment explanation
Indices: 1540108--1540288 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
1540098 GAGATAACAG
* * * * *
1540108 CGGGGCTGGAGTATCCCTGATTATGAAAAATTGATGTTCTAGAAATAAAAATTGGAGTTTGAGTA
1 CGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTTCTAGAAATAAAAATGGGAGTTGGAGTA
* *
1540173 TCCCCTCGGACATAA
66 TCCCCTCGAAAATAA
* ** *
1540188 CAGGGTTAAAGTATCCCCGATTATAAAAAATTGATGTT-TTGAAA-ATAAAATCGGGA-TTGGAG
1 CGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTTCTAGAAATA-AAAAT-GGGAGTTGGAG
1540250 TATCCCCAT-GAAAATAA
64 TATCCCC-TCGAAAATAA
* *
1540267 TGGGGTTGGAGTATCCTCGATT
1 CGGGGTTGGAGTATCCCCGATT
1540289 GTGAGAAATC
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
78 1 0.01
79 45 0.55
80 36 0.44
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGATTATAAAAAATTGATGTTCTAGAAATAAAAATGGGAGTTGGAGTA
TCCCCTCGAAAATAA
Found at i:1540339 original size:51 final size:51
Alignment explanation
Indices: 1540268--1540523 Score: 184
Period size: 51 Copynumber: 4.9 Consensus size: 51
1540258 TGAAAATAAT
*
1540268 GGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
* * *
1540319 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTATAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
* * * * *** *
1540370 GAGGTTGGAGTGTCCCC--TCG-GAAATAATGGGGTTGGAGTTTCCCCGATGAAATAA---C
1 GGGGTTGGAGTATCCCCGATTGTGAGA-AAT--CAAT--A-TTT----TA-GAAATAAGGCC
* *
1540426 AGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
* * * * *
1540477 AGGGTTGAAGTATCCCCGATTGT-AAAAGATCAATATTCTGGAAATAA
1 GGGGTTGGAGTATCCCCGATTGTGAGAA-ATCAATATTTTAGAAATAA
1540524 AACTGGGATT
Statistics
Matches: 159, Mismatches: 28, Indels: 36
0.71 0.13 0.16
Matches are distributed among these distances:
48 10 0.06
49 6 0.04
50 3 0.02
51 101 0.64
53 4 0.03
54 4 0.03
56 16 0.10
58 6 0.04
59 9 0.06
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
Found at i:1540405 original size:28 final size:28
Alignment explanation
Indices: 1540372--1540442 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
1540362 ATAAAGCCGA
* ** **
1540372 GGTTGGAGTGTCCCCTCGGAAATAATGG
1 GGTTGGAGTATCCCCGAGGAAATAACAG
* *
1540400 GGTTGGAGTTTCCCCGATGAAATAACAG
1 GGTTGGAGTATCCCCGAGGAAATAACAG
1540428 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1540443 AATTGTGAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGAGGAAATAACAG
Found at i:1540437 original size:158 final size:158
Alignment explanation
Indices: 1540244--1540555 Score: 450
Period size: 158 Copynumber: 2.0 Consensus size: 158
1540234 AAAATCGGGA
** * *
1540244 TTGGAGTATCCCCATGAAAATAATGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATATTTTAG
1 TTGGAGTATCCCCATGAAAATAACAGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAG
* * * * *
1540309 AAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAA-ATCAATATTTTATAAATAAAGCCGAG
66 AAATAAGGCCAGGGTTGAAGTATCCCCGATTGT-AAAAGATCAATATTCTAGAAATAAAACCG-G
*
1540373 G-TTGGAGTGTCCCCTCGGAAATAATGGGG
129 GATTGGAGTATCCCCTCGGAAATAATGGGG
*
1540402 TTGGAGTTTCCCCGATG-AAATAACAGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTA
1 TTGGAGTATCCCC-ATGAAAATAACAGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTA
* *
1540466 GAAATAAGGCCAGGGTTGAAGTATCCCCGATTGTAAAAGATCAATATTCTGGAAATAAAACTGGG
65 GAAATAAGGCCAGGGTTGAAGTATCCCCGATTGTAAAAGATCAATATTCTAGAAATAAAACCGGG
*
1540531 ATTGGGGTATCCCCTCGGAAATAAT
130 ATTGGAGTATCCCCTCGGAAATAAT
1540556 TGTTAGGATT
Statistics
Matches: 137, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
157 5 0.04
158 129 0.94
159 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (158 bp):
TTGGAGTATCCCCATGAAAATAACAGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAG
AAATAAGGCCAGGGTTGAAGTATCCCCGATTGTAAAAGATCAATATTCTAGAAATAAAACCGGGA
TTGGAGTATCCCCTCGGAAATAATGGGG
Found at i:1540768 original size:21 final size:21
Alignment explanation
Indices: 1540735--1540775 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1540725 CTAAGTAAAA
1540735 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1540756 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1540776 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1540840 original size:20 final size:19
Alignment explanation
Indices: 1540815--1540885 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1540805 ACCCTGAAAA
1540815 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1540835 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
1540854 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1540875 GTATCGATACA
1 GTATCGATACA
1540886 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1540938 original size:53 final size:53
Alignment explanation
Indices: 1540855--1540991 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
1540845 AAATTGCATA
1540855 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1540909 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1540962 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1540992 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:1541034 original size:10 final size:10
Alignment explanation
Indices: 1541015--1541055 Score: 73
Period size: 10 Copynumber: 4.1 Consensus size: 10
1541005 AATCTCATTT
1541015 TCACTGTTCA
1 TCACTGTTCA
*
1541025 TCACTATTCA
1 TCACTGTTCA
1541035 TCACTGTTCA
1 TCACTGTTCA
1541045 TCACTGTTCA
1 TCACTGTTCA
1541055 T
1 T
1541056 GTATCGATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.22, C:0.29, G:0.07, T:0.41
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1541077 original size:21 final size:22
Alignment explanation
Indices: 1541043--1541098 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
1541033 CATCACTGTT
1541043 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1541065 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1541086 CATCACTGTTCAT
1 CATCACTGTTCAT
1541099 ATGTCACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:1542367 original size:13 final size:13
Alignment explanation
Indices: 1542349--1542374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1542339 ACATATTTGT
1542349 GTGTATCGATACA
1 GTGTATCGATACA
1542362 GTGTATCGATACA
1 GTGTATCGATACA
1542375 TCATAAATAG
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:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:1543240 original size:51 final size:51
Alignment explanation
Indices: 1543183--1543296 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
1543173 CAATAATGGG
** **
1543183 GTTGGAGTATCCCCGATGGTGAAAAATTAGTGTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATGGTGAAAAATTAGTGTTTTAAAAATAAAACCGGA
* * * * *
1543234 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATGGTGAAAAATTAGTGTTTTAAAAATAAAACCGGA
1543285 GTTGGAGTATCC
1 GTTGGAGTATCC
1543297 TCTCGGAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATGGTGAAAAATTAGTGTTTTAAAAATAAAACCGGA
Found at i:1545619 original size:20 final size:20
Alignment explanation
Indices: 1545594--1545632 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1545584 AAAATGCCTG
1545594 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
1545614 AATGTATCGATACATTGTA
1 AATGTATCGATACATTGTA
1545633 TTGTTACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTGTAA
Found at i:1545721 original size:13 final size:13
Alignment explanation
Indices: 1545703--1545739 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1545693 CAGAATTTTT
1545703 GATACAATGAATC
1 GATACAATGAATC
*
1545716 GATACAATGTATC
1 GATACAATGAATC
*
1545729 GATAAAATGAA
1 GATACAATGAA
1545740 CAATGTACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (13 bp):
GATACAATGAATC
Found at i:1545744 original size:20 final size:20
Alignment explanation
Indices: 1545719--1545777 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1545709 ATGAATCGAT
1545719 ACAATGTATCGATAAAATGA
1 ACAATGTATCGATAAAATGA
* * *
1545739 ACAATGTACCAATACAATGA
1 ACAATGTATCGATAAAATGA
* *
1545759 ATAATATATCGATACAAAT
1 ACAATGTATCGATA-AAAT
1545778 TGTGAAAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.51, C:0.14, G:0.10, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATAAAATGA
Found at i:1548355 original size:13 final size:13
Alignment explanation
Indices: 1548337--1548362 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1548327 GATAAAGTGT
1548337 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
1548350 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
1548363 ATAAATTGAA
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TTGAAAAAAAAAA
Found at i:1548363 original size:18 final size:18
Alignment explanation
Indices: 1548340--1548386 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
1548330 AAAGTGTTTG
1548340 AAAAAAAAAATTGAAAAA
1 AAAAAAAAAATTGAAAAA
*
1548358 AAAAAATAAATTGAAAAA
1 AAAAAAAAAATTGAAAAA
1548376 AAAAAAAAAAT
1 AAAAAAAAAAT
1548387 CCAAATGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAAAAAAAATTGAAAAA
Found at i:1548414 original size:21 final size:21
Alignment explanation
Indices: 1548390--1548446 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1548380 AAAAAATCCA
1548390 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1548411 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1548432 AATGTATCGATACAT
1 AATGTATCGATACAT
1548447 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1548526 original size:19 final size:19
Alignment explanation
Indices: 1548502--1548569 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1548492 AATTCAACGA
1548502 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1548521 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1548536 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1548553 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1548570 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1548540 original size:32 final size:32
Alignment explanation
Indices: 1548504--1548566 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1548494 TTCAACGATT
*
1548504 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1548536 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1548567 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1548541 original size:13 final size:13
Alignment explanation
Indices: 1548523--1548547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1548513 ACATAAGTTT
1548523 TGTATCGATACAA
1 TGTATCGATACAA
1548536 TGTATCGATACA
1 TGTATCGATACA
1548548 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1548627 original size:13 final size:13
Alignment explanation
Indices: 1548609--1548634 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1548599 CATTTTTCTG
1548609 TGTATCGATACAT
1 TGTATCGATACAT
1548622 TGTATCGATACAT
1 TGTATCGATACAT
1548635 GGATCTTTGT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1548631 original size:33 final size:33
Alignment explanation
Indices: 1548589--1548655 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1548579 GCCAAGGAAA
***
1548589 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1548622 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1548655 T
1 T
1548656 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1551172 original size:28 final size:27
Alignment explanation
Indices: 1551102--1551177 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
1551092 TTTCTTCACA
*
1551102 ATCGGGGATACTCCAACCCTGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
1551129 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
1551155 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
1551178 GTTTTATCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 22 0.50
28 18 0.41
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:1551329 original size:52 final size:51
Alignment explanation
Indices: 1550993--1551329 Score: 211
Period size: 52 Copynumber: 6.4 Consensus size: 51
1550983 ATCAATTCTC
* * * *
1550993 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTT
* * *
1551043 CTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACTCCGGTTTTATTTCC--AAAACACCAATTT-TT
* * * ** * *
1551098 CACAATCGGGGATACTCCAAC-CCTG-TTAATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACTCCGGTTTTAT-TTC--CAAAACACCAA-----TT-TTT
* * * ** * *
1551156 -TCGA--GGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTT
* * *
1551204 CCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTC
1 -CACAATCGGGGATACTCCAACTCC-GGTTTTATTTCCAAAACACCAATTTTT
** * *
1551256 CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGGTTTTATTTCC-AAAACACCAATTTTT
*
1551309 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
1551330 CTCGTTATTT
Statistics
Matches: 217, Mismatches: 46, Indels: 46
0.70 0.15 0.15
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 3 0.01
51 34 0.16
52 81 0.37
53 36 0.17
54 26 0.12
55 17 0.08
56 4 0.02
57 6 0.03
58 4 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTT
Found at i:1551349 original size:28 final size:28
Alignment explanation
Indices: 1551313--1551389 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
1551303 ATTTTTCACA
* * *
1551313 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
1551341 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
1551369 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1551390 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1551358 original size:212 final size:212
Alignment explanation
Indices: 1550991--1551396 Score: 640
Period size: 212 Copynumber: 1.9 Consensus size: 212
1550981 TTATCAATTC
* *
1550991 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
1551056 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
1551121 TGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATC
131 TGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
1551186 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
1551203 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
1551267 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAA-
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
*
1551329 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
129 CCT-GTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
1551394 TAT
192 TAT
1551397 TTCTAATCAT
Statistics
Matches: 178, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
210 3 0.02
211 28 0.16
212 112 0.63
213 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
TGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:1558190 original size:17 final size:17
Alignment explanation
Indices: 1558168--1558201 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1558158 CAGAGGTAAG
*
1558168 AAGGAAGGCAAAGTCAA
1 AAGGAAGCCAAAGTCAA
*
1558185 AAGGAAGCCACAGTCAA
1 AAGGAAGCCAAAGTCAA
1558202 GAATCGATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.18, G:0.26, T:0.06
Consensus pattern (17 bp):
AAGGAAGCCAAAGTCAA
Found at i:1563889 original size:13 final size:12
Alignment explanation
Indices: 1563871--1563928 Score: 64
Period size: 12 Copynumber: 4.7 Consensus size: 12
1563861 CTTCTCTTCA
1563871 AAAAAAAAGAAGC
1 AAAAAAAA-AAGC
*
1563884 AAAAAAAAAAGG
1 AAAAAAAAAAGC
1563896 AAAAAAAAAA-C
1 AAAAAAAAAAGC
*
1563907 AAAAAAACAAAAC
1 AAAAAAA-AAAGC
1563920 AAAGAAAAA
1 AAA-AAAAA
1563929 GAGAGAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 7 0.17
12 16 0.40
13 13 0.32
14 4 0.10
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGC
Found at i:1564991 original size:26 final size:26
Alignment explanation
Indices: 1564958--1565102 Score: 73
Period size: 26 Copynumber: 5.3 Consensus size: 26
1564948 AAGTTGGTGG
1564958 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
* * * **
1564984 CACCTTTCAAAGCCCACCCAAGTTGGTGG-
1 CACCTTTC--AGTCC-CCAAAG-AGCAGGA
* *
1565013 CA-TTTTCTAGTCCTCAAAGAGCAGGA
1 CACCTTTC-AGTCCCCAAAGAGCAGGA
* * **
1565039 CACCTCTTAAAG-CCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCC-CA-AAG-AGCAGGA
1565068 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
1565094 CACCTTTCA
1 CACCTTTCA
1565103 AAGCCCACCC
Statistics
Matches: 83, Mismatches: 23, Indels: 26
0.63 0.17 0.20
Matches are distributed among these distances:
25 6 0.07
26 26 0.31
27 11 0.13
28 19 0.23
29 15 0.18
30 6 0.07
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (26 bp):
CACCTTTCAGTCCCCAAAGAGCAGGA
Done.