Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 23 of 295
Found at i:6158045 original size:32 final size:32
Alignment explanation
Indices: 6157999--6158074 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
6157989 TGCCAATCAT
*
6157999 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
* *
6158031 TTCAATA-CCTAACAAATTCAAGACATAATAAT
1 TTCAATATCC-AACAAATTCAAAACATAATAAA
*
6158063 TTCAAAATCCAA
1 TTCAATATCCAA
6158075 TAAACTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
31 4 0.11
32 31 0.84
33 2 0.05
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:6158066 original size:16 final size:16
Alignment explanation
Indices: 6158021--6158067 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
6158011 CAAGCTTAAA
*
6158021 ACATAATAAATTCAAT
1 ACATAATAAATTCAAG
* *
6158037 ACCTAACAAATTCAAG
1 ACATAATAAATTCAAG
*
6158053 ACATAATAATTTCAA
1 ACATAATAAATTCAA
6158068 AATCCAATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (16 bp):
ACATAATAAATTCAAG
Found at i:6168803 original size:34 final size:34
Alignment explanation
Indices: 6168760--6168828 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
6168750 TAGTCATGAG
* * *
6168760 ATTCATGTAATAATTCATACTCAGAAATGTACAT
1 ATTCATGTAACAATTCATAATCACAAATGTACAT
6168794 ATTCATGTAACAATTCATAATCACAAATGTACAT
1 ATTCATGTAACAATTCATAATCACAAATGTACAT
6168828 A
1 A
6168829 GTTGTCAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.33
Consensus pattern (34 bp):
ATTCATGTAACAATTCATAATCACAAATGTACAT
Found at i:6169708 original size:15 final size:15
Alignment explanation
Indices: 6169688--6169719 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6169678 GCTAATCTTA
6169688 TACCTTTTCTTTTGC
1 TACCTTTTCTTTTGC
6169703 TACCTTTTCTTTTGC
1 TACCTTTTCTTTTGC
6169718 TA
1 TA
6169720 GTTATAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.25, G:0.06, T:0.59
Consensus pattern (15 bp):
TACCTTTTCTTTTGC
Found at i:6169791 original size:5 final size:5
Alignment explanation
Indices: 6169781--6169808 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6169771 TAATTCATAC
6169781 TCAAT TCAAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCAAT TCAAT TCA
6169809 CATCTTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
TCAAT
Found at i:6171888 original size:42 final size:42
Alignment explanation
Indices: 6171782--6171890 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
6171772 TTCGATTTAG
* * * * *
6171782 CCAATGATGCACTTATGTGCCAATATATTTTCTTCGGTTCAT
1 CCAATGATGCACTTATGAGCTAGTACATTTCCTTCGGTTCAT
* *
6171824 CCGATGATGCATTTAT-ATGCTAGTACATTTCCTTCGGTTCAT
1 CCAATGATGCACTTATGA-GCTAGTACATTTCCTTCGGTTCAT
* *
6171866 CTAATGATGGACTTATGAGCTAGTA
1 CCAATGATGCACTTATGAGCTAGTA
6171891 TAATTGATTC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 53 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (42 bp):
CCAATGATGCACTTATGAGCTAGTACATTTCCTTCGGTTCAT
Found at i:6176300 original size:13 final size:13
Alignment explanation
Indices: 6176284--6176316 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6176274 AAATTTGATT
6176284 AAAAATTAAAAAG
1 AAAAATTAAAAAG
6176297 AAAAA-TAAAAAG
1 AAAAATTAAAAAG
6176309 AGAAAATT
1 A-AAAATT
6176317 CATTGCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 9 0.50
14 1 0.06
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (13 bp):
AAAAATTAAAAAG
Found at i:6189841 original size:55 final size:54
Alignment explanation
Indices: 6189723--6189833 Score: 172
Period size: 55 Copynumber: 2.1 Consensus size: 54
6189713 GTTGTATATA
6189723 TGGAGAATTGAGAATAGACCAAAGTGTCTCATCTGATAAAAGAAAAAACAAATTT
1 TGGAGAATTGAGAATAGACCAAAGTGTCTCATCTGAT-AAAGAAAAAACAAATTT
* *
6189778 TGGAGAATTGAGAATAGACCGAAGTGTCTTCATCTGAT-AA-ATAAAACAAATTT
1 TGGAGAATTGAGAATAGACCAAAGTGTC-TCATCTGATAAAGAAAAAACAAATTT
6189831 TGG
1 TGG
6189834 TTGGAATTCC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
53 15 0.28
54 2 0.04
55 27 0.51
56 9 0.17
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (54 bp):
TGGAGAATTGAGAATAGACCAAAGTGTCTCATCTGATAAAGAAAAAACAAATTT
Found at i:6192245 original size:27 final size:27
Alignment explanation
Indices: 6192214--6192268 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
6192204 TCTCCTACAT
6192214 GTTCTCATCTTTTTCAACTCCATTTTG
1 GTTCTCATCTTTTTCAACTCCATTTTG
6192241 GTTCTCATCTTTTTCAACTCCATTTTG
1 GTTCTCATCTTTTTCAACTCCATTTTG
6192268 G
1 G
6192269 GGATTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.25, G:0.09, T:0.51
Consensus pattern (27 bp):
GTTCTCATCTTTTTCAACTCCATTTTG
Found at i:6195042 original size:42 final size:42
Alignment explanation
Indices: 6194995--6195075 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
6194985 AGGATTTGTC
*
6194995 ATTTCAGACTATAGAAAAAAAATTAATTTTGAGATTGTAATT
1 ATTTCAGACTATAAAAAAAAAATTAATTTTGAGATTGTAATT
*
6195037 ATTTCAGATTATAAAAAAAAAATTAATTTTGAGATTGTA
1 ATTTCAGACTATAAAAAAAAAATTAATTTTGAGATTGTA
6195076 CTTAAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (42 bp):
ATTTCAGACTATAAAAAAAAAATTAATTTTGAGATTGTAATT
Found at i:6198213 original size:15 final size:18
Alignment explanation
Indices: 6198185--6198221 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
6198175 AAATAAAATA
6198185 AAAAAATCTAAAG-AAAG
1 AAAAAATCTAAAGAAAAG
6198202 AAAAAA-CT-AAGAAAAG
1 AAAAAATCTAAAGAAAAG
6198218 AAAA
1 AAAA
6198222 TATGAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 10 0.53
17 6 0.32
ACGTcount: A:0.76, C:0.05, G:0.11, T:0.08
Consensus pattern (18 bp):
AAAAAATCTAAAGAAAAG
Found at i:6199325 original size:89 final size:88
Alignment explanation
Indices: 6199183--6199487 Score: 352
Period size: 89 Copynumber: 3.4 Consensus size: 88
6199173 ACGTGAGCTA
* * * * *
6199183 AGGCTCAACTCACCTCTCGCAATACGAGTTGGTTTTTTTG-AAA-CTTAATTTGAAAAGTAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAGCATAAATTGAAAAGAAGATT
6199246 TTGAAAATACCTC-GACATGTGACCCG
64 TTGAAAATACCTCAG-C-TGTGACCCG
* *
6199272 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAA-AACATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAGAAGATT--
6199336 TTGAAAATACCTCAGC-GTG-CCTCG
64 TTGAAAATACCTCAGCTGTGACC-CG
* * **
6199360 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAGCAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAGCATAAATTGAAAAGAAGATT
* *
6199425 TTGAAAATACCTCAGCGTGTGAGCCA
64 TTGAAAATACCTCAGC-TGTGACCCG
*
6199451 AGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6199488 TTGATGATAA
Statistics
Matches: 188, Mismatches: 16, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
87 8 0.04
88 44 0.23
89 60 0.32
90 37 0.20
91 38 0.20
92 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAGAAGATTTT
GAAAATACCTCAGCTGTGACCCG
Found at i:6199416 original size:14 final size:14
Alignment explanation
Indices: 6199397--6199431 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
6199387 GTTGATTTTT
6199397 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
6199411 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
6199425 TTGAAAA
1 TTGAAAA
6199432 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:6199481 original size:179 final size:171
Alignment explanation
Indices: 6199183--6199738 Score: 504
Period size: 179 Copynumber: 3.3 Consensus size: 171
6199173 ACGTGAGCTA
* * * * * **
6199183 AGGCTCAACTCACCTCTCGCAATACGAGTTGGTTTTTTTG-AAACTTAATTTGAAAAGTAGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATAAATTGAAAAGCAGAAAT
*
6199247 TGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA
66 TGAAAATACCTCAG-C-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* *
6199311 AAAGCATAAATTGAAAAAACATTAATTGAAAATACCTCAGCGTGCCTCG
129 AAA-CATAAATTGAAAAAA-ATT-A---AAAATACCTCAACGTGACTCG
*
6199360 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAGCAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-CATAAATTGAAAAGCAGAAA
* * *
6199425 TTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTT--
65 TTGAAAATACCTCAGC-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
** * * *
6199488 -----TTGA-TG--ATAAATTAAAAATACCTCAATGTGACTTG
129 AAACATAAATTGAAAAAAATTAAAAATACCTCAACGTGACTCG
* * *
6199523 AGGCTCAACTCACCTCTCGCGATATGAGTTGA--TTTTTGAAAA-ATAAATT-AAAACACAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATAAATTGAAAA-GCAGAAA
* * * *
6199584 TTGACAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTGTCGCAATATGAGTTGAATTTTGAA
65 TTGAAAATACCTCAGCTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-A
* * *
6199648 AAACAGAAATTG---AAAA-T----AT--CTCAGCGTGTC-CTG
129 AAACATAAATTGAAAAAAATTAAAAATACCTCAACGTGACTC-G
*
6199681 AGGCTCAACTCACCTCTCGCAATATTAGTTGATTTTTTTGACAAACA-ATAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACATA-AATTGAAAA
6199739 TACCTCAGCG
Statistics
Matches: 318, Mismatches: 41, Indels: 54
0.77 0.10 0.13
Matches are distributed among these distances:
157 39 0.12
158 43 0.14
159 26 0.08
160 9 0.03
161 14 0.04
162 5 0.02
163 52 0.16
164 1 0.00
165 4 0.01
166 3 0.01
167 3 0.01
168 3 0.01
170 2 0.01
171 2 0.01
177 38 0.12
178 3 0.01
179 70 0.22
180 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (171 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACATAAATTGAAAAGCAGAAAT
TGAAAATACCTCAGCTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
ACATAAATTGAAAAAAATTAAAAATACCTCAACGTGACTCG
Found at i:6199538 original size:163 final size:161
Alignment explanation
Indices: 6199325--6200295 Score: 514
Period size: 147 Copynumber: 6.5 Consensus size: 161
6199315 CATAAATTGA
** * *
6199325 AAAAACATTAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
6199390 GATTTTTTTGAAAAGCAGAAATTGAAAA-GCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGG
66 GATTTTTTTGAAAA-CA-AAATTGAAAACACAAAAATTGAAAATACCTCAGC--GTGACCCAAGG
*
6199454 CTCAACTCACCCCTCGCAATATGAGTTG-ATTTTT
127 CTCAACTCACCCCTCGCAATATGAGTTGAATTTTG
*** ** * * ** *
6199488 TTGATGATAAATTAAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCGATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
6199553 GA--TTTTTGAAAA-ATAAATT-AAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTC
66 GATTTTTTTGAAAACA-AAATTGAAAACACAAAAATTGAAAATACCTCAGCGTGACCCAAGGCTC
**
6199614 AACTCACCTGTCGCAATATGAGTTGAATTTTG
130 AACTCACCCCTCGCAATATGAGTTGAATTTTG
* * * *
6199646 AAAAACAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATTAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
6199711 GATTTTTTTG---AC---------AA-ACAATAATTGAAAATACCTCAGCGTG-CCCTGAGGCTC
66 GATTTTTTTGAAAACAAAATTGAAAACACAAAAATTGAAAATACCTCAGCGTGACCC-AAGGCTC
6199762 AACTCACCTCC-CGCAATATGAGTTG-ATTTT-
130 AACTCACC-CCTCGCAATATGAGTTGAATTTTG
* **
6199792 -----------TT-----T-CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
** ** * *
6199840 GA--TTTTTG---AC---------AA-ACAGTAATTGAAAATACCTTGGCGTGCCCCGAGGCTCA
66 GATTTTTTTGAAAACAAAATTGAAAACACAAAAATTGAAAATACCTCAGCGTGACCCAAGGCTCA
* * *
6199890 ACTCACCTCTCGCAATATAAGTTGATTTTTTTG
131 ACTCACCCCTCGCAATATGAGTTGA--ATTTTG
** * * * * *
6199923 -AAAGTAGAATTTGAAAATACCTCGGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGA---
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * * **
6199984 G------TTG------AATTTGAAAA-ACAGAAATTGAAAATATCTCAACGTGTCCTGAGGCTCA
66 GATTTTTTTGAAAACAAAATTGAAAACACAAAAATTGAAAATACCTCAGCGTGACCCAAGGCTCA
* *
6200036 ACTCACCTCTCGCAATATGAGTTGATTTTTTTG
131 ACTCACCCCTCGCAATATGAGTTGA--ATTTTG
* * ** *
6200069 ACAAACA-ATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGT
1 AAAAACAGA-AATTGAAAATACCTCAGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* ** * *
6200133 TGATCTTTTT---AAC---------AA-ACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTC
65 TGATTTTTTTGAAAACAAAATTGAAAACACAAAAATTGAAAATACCTCAGCGTGACCCAAGGCTC
* *
6200185 AACTCACCTCTCGCAATATGAGTTGATTTTTTTG
130 AACTCACCCCTCGCAATATGAGTTGA--ATTTTG
*** * ** * *
6200219 -AAAGTTGAATTTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
6200283 GATTTTTTTGAAA
66 GATTTTTTTGAAA
6200296 CAGAAATAAA
Statistics
Matches: 666, Mismatches: 87, Indels: 121
0.76 0.10 0.14
Matches are distributed among these distances:
126 1 0.00
127 61 0.09
128 3 0.00
129 43 0.06
130 5 0.01
135 2 0.00
140 3 0.00
141 2 0.00
144 1 0.00
146 67 0.10
147 98 0.15
148 53 0.08
149 60 0.09
150 70 0.11
152 1 0.00
156 2 0.00
157 35 0.05
158 62 0.09
159 26 0.04
160 6 0.01
161 10 0.02
163 55 0.08
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (161 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAACAAAATTGAAAACACAAAAATTGAAAATACCTCAGCGTGACCCAAGGCTCA
ACTCACCCCTCGCAATATGAGTTGAATTTTG
Found at i:6199750 original size:75 final size:74
Alignment explanation
Indices: 6199580--6199794 Score: 317
Period size: 75 Copynumber: 2.9 Consensus size: 74
6199570 TTAAAACACA
* * * *
6199580 AAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTGTCGCAATATGAGTTGA--ATT
1 AAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6199643 TTGAAAAAC
66 TTGAAAAAC
* * *
6199652 AGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATTAGTTGATTTT
1 A-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
6199717 TTTGACAAAC
65 TTTGAAAAAC
*
6199727 AATAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTT
1 AA-AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
6199792 TTT
65 TTT
6199795 CCTCAGCGTG
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
72 1 0.01
73 53 0.42
74 1 0.01
75 72 0.57
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (74 bp):
AAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTGAAAAAC
Found at i:6199805 original size:54 final size:54
Alignment explanation
Indices: 6199741--6199846 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
6199731 ATTGAAAATA
*
6199741 CCTCAGCGTGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTT
1 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTT
*
6199795 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTT
6199847 GACAAACAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.30
Consensus pattern (54 bp):
CCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTT
Found at i:6199895 original size:127 final size:128
Alignment explanation
Indices: 6199667--6199921 Score: 413
Period size: 127 Copynumber: 2.0 Consensus size: 128
6199657 TTGAAAATAT
* * *
6199667 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATTAGTTGATTTTTTTGACAAACAATAA
1 CTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACAATAA
* *
6199732 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTC
65 TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATAAGTTGATTTTTTTC
*
6199796 CTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGTAAT
1 CTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAATAAT
** *
6199860 TGAAAATACCTTGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTT
66 TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATAAGTTGATTTTTTT
6199922 GAAAGTAGAA
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
127 74 0.63
129 43 0.37
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (128 bp):
CTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAATAAT
TGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATAAGTTGATTTTTTTC
Found at i:6199963 original size:74 final size:74
Alignment explanation
Indices: 6199795--6200300 Score: 643
Period size: 75 Copynumber: 6.9 Consensus size: 74
6199785 TGATTTTTTT
6199795 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAGTA
1 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAG-A
6199858 A-TTGAAAATA
64 ATTTGAAAATA
** * **
6199868 CCTTGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAGTAGAAT
1 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAT
6199933 TTGAAAATA
66 TTGAAAATA
* ** *
6199942 CCTCGGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---ATTTGAAAAACAGAA
1 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAA
*
6200004 ATTGAAAATA
65 TTTGAAAATA
* * * *
6200014 TCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACA-AT
1 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAGA-
*
6200078 AATTGAAAATA
64 ATTTGAAAATA
* * *
6200089 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATCTTTTTAACAAACAGTA
1 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAG-A
6200154 A-TTGAAAATA
64 ATTTGAAAATA
***
6200164 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTTGAAT
1 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAT
6200229 TTGAAAATA
66 TTGAAAATA
** * ** *
6200238 CCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTG-AAACAGAA
1 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAA
6200301 ATAAAAACAT
Statistics
Matches: 380, Mismatches: 41, Indels: 24
0.85 0.09 0.05
Matches are distributed among these distances:
71 4 0.01
72 58 0.15
73 53 0.14
74 119 0.31
75 144 0.38
76 1 0.00
77 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (74 bp):
CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAT
TTGAAAATA
Found at i:6211810 original size:15 final size:18
Alignment explanation
Indices: 6211782--6211818 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
6211772 AAATAAAATA
6211782 AAAAAATCTAAAG-AAAG
1 AAAAAATCTAAAGAAAAG
6211799 AAAAAA-CT-AAGAAAAG
1 AAAAAATCTAAAGAAAAG
6211815 AAAA
1 AAAA
6211819 TATGAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 10 0.53
17 6 0.32
ACGTcount: A:0.76, C:0.05, G:0.11, T:0.08
Consensus pattern (18 bp):
AAAAAATCTAAAGAAAAG
Found at i:6220130 original size:87 final size:87
Alignment explanation
Indices: 6219989--6220150 Score: 202
Period size: 87 Copynumber: 1.9 Consensus size: 87
6219979 AGACTTGATG
* * * * *
6219989 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-CT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTATAACCT
6220053 TCAGGGAGATAGGATAGTGTCTT
66 T-AGGGAGATAGGATAGTGTCTT
* * * * *
6220076 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTATAACC
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCCT-TGACTTCAATCCGCTCCACTATAACC
6220140 TTAGGGAGATA
65 TTAGGGAGATA
6220151 AGATCTGAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 2 0.03
87 58 0.92
88 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCCTTGACTTCAATCCGCTCCACTATAACCT
TAGGGAGATAGGATAGTGTCTT
Found at i:6220318 original size:44 final size:45
Alignment explanation
Indices: 6220001--6220413 Score: 213
Period size: 44 Copynumber: 9.5 Consensus size: 45
6219991 ATCTACTCTG
* * * * *
6220001 CTGTAACCTCAGAGAGATAAGATCCT-TTAT-TTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGAT-CTACTATCTTTGATCTGCTCCA
* * * * *
6220045 CTGTAA-CTTCAGGGAGATAGGA--TAGTGTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCTACTATCTTTGATCTGCTCCA
** **
6220088 CTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTACTATCTTTGATCTGCTCCA
* * * * ** * *
6220132 CTATAACCTTAGGGAGATAAGATCTGA-AATTCTCCGGTCTACTCCA
1 CTGTAATCTCAGGGAGATAAGATCT-ACTA-TCTTTGATCTGCTCCA
* * * * *
6220178 CTGTAACCTCAGGGAAATAAGA-C--CTGA--TGTGATCTTCTCTA
1 CTGTAATCTCAGGGAGATAAGATCTACT-ATCTTTGATCTGCTCCA
* * *
6220219 CTGTAA-CTTCAGAGAGATAAGA--T-C---CTTTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTACTATCTTTGATCTGCTCCA
* * * *
6220258 TTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCTACTATCTTTGATCTGCTCCA
** **
6220302 CTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTACTATCTTTGATCTGCTCCA
* * * *
6220346 CTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT-ACTA-TCTTTGATCTGCTCCA
*
6220392 CTGTAATCCCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
6220414 CCTGTATAAT
Statistics
Matches: 281, Mismatches: 64, Indels: 46
0.72 0.16 0.12
Matches are distributed among these distances:
39 25 0.09
40 3 0.01
41 30 0.11
42 2 0.01
43 30 0.11
44 127 0.45
45 3 0.01
46 61 0.22
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (45 bp):
CTGTAATCTCAGGGAGATAAGATCTACTATCTTTGATCTGCTCCA
Found at i:6220340 original size:214 final size:214
Alignment explanation
Indices: 6219950--6220417 Score: 672
Period size: 214 Copynumber: 2.2 Consensus size: 214
6219940 GTTGTTTTCA
* * * * *
6219950 GTCTATTCCACTGCATCTTCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* * *
6220015 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGAT
66 AGATAAGATCC----TTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGAT
*
6220080 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTATAACCTTAGG
127 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTATAACCTCAGG
6220145 GAGATAAGATCTGAAATTCTCCG
192 GAGATAAGATCTGAAATTCTCCG
* * * *
6220168 GTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* *
6220233 AGATAAGATCC-TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCT
66 AGATAAGATCCTTTTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCT
*
6220296 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
129 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTATAACCTCAGGGA
**
6220361 GATAAGATCTGAAATTCTTTG
194 GATAAGATCTGAAATTCTCCG
* *
6220382 GTCTGTTCCACTGTAATCC-CAGGGAGATAAGACCTG
1 GTCTATTCCACTGTAA-CCTCAGGGAAATAAGACCTG
6220418 TATAATAAAC
Statistics
Matches: 226, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
212 1 0.00
213 32 0.14
214 124 0.55
215 2 0.01
218 67 0.30
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (214 bp):
GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
AGATAAGATCCTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGC
TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTATAACCTCAGGGAGA
TAAGATCTGAAATTCTCCG
Found at i:6239832 original size:33 final size:32
Alignment explanation
Indices: 6239795--6239867 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 32
6239785 ACATACATAA
6239795 ATTATAAA-A-TAGATAATATAGTCATGTATATAT
1 ATTATAAATATTAGA-AATATA-T-ATGTATATAT
*
6239828 ATTATTAAATATTAGACATATATATGTATATAT
1 ATTA-TAAATATTAGAAATATATATGTATATAT
6239861 ATATATA
1 AT-TATA
6239868 GTAAGATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
33 18 0.51
34 7 0.20
35 6 0.17
36 4 0.11
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (32 bp):
ATTATAAATATTAGAAATATATATGTATATAT
Found at i:6257741 original size:30 final size:30
Alignment explanation
Indices: 6257707--6257766 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
6257697 ACTTAACAAG
6257707 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
6257737 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
6257767 TAATAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:6257846 original size:22 final size:22
Alignment explanation
Indices: 6257798--6257846 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6257788 ATATCCAAAC
*
6257798 AATAATAATAAAATCGTAGCAA
1 AATAATAATAAAATCGTAACAA
* * *
6257820 CATAATAGTAAAATGGTAACAA
1 AATAATAATAAAATCGTAACAA
6257842 AATAA
1 AATAA
6257847 GGAGAAAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.22
Consensus pattern (22 bp):
AATAATAATAAAATCGTAACAA
Found at i:6262574 original size:24 final size:24
Alignment explanation
Indices: 6262484--6262574 Score: 71
Period size: 25 Copynumber: 3.7 Consensus size: 24
6262474 TGATAAGTAA
**
6262484 AAAATGAATTAATATAAATATTGTT
1 AAAAT-AATTAATATAAATATAATT
*
6262509 TAAATAATTTAATATAACA-ATACA-T
1 AAAATAA-TTAATATAA-ATATA-ATT
* *
6262534 AAAAT-ATAAATTTTAAATATAATT
1 AAAATAATTAA-TATAAATATAATT
6262558 AAAATAATTAATATAAA
1 AAAATAATTAATATAAA
6262575 ACCTTTTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
23 5 0.10
24 21 0.41
25 24 0.47
26 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
AAAATAATTAATATAAATATAATT
Found at i:6263000 original size:20 final size:21
Alignment explanation
Indices: 6262967--6263006 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
6262957 GGGTTGAGTT
*
6262967 GAATCATGTTATTTTATATTA
1 GAATCATGTAATTTTATATTA
6262988 GAAT-ATGTAATTTTATATT
1 GAATCATGTAATTTTATATT
6263007 CAAAATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (21 bp):
GAATCATGTAATTTTATATTA
Found at i:6265545 original size:42 final size:42
Alignment explanation
Indices: 6265496--6265610 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
6265486 CTTCGTTTTC
** *
6265496 TCGATGCCATAGTTCAACTACGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTACGGTCTTACACATATTCACAT-A
* * *
6265539 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTACGGTCTTACACATATTCACATA
* **
6265580 TCGATGCCATAGCCCAGCTATAGTCTTACAC
1 TCGATGCCATAGCCCAACTACGGTCTTACAC
6265611 GAATCACGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 2 0.03
42 61 0.95
43 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTACGGTCTTACACATATTCACATA
Found at i:6265642 original size:46 final size:47
Alignment explanation
Indices: 6265581--6265700 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 47
6265571 ATTCATATAT
* * * * * *
6265581 CGATGCCATAGCCCAGCTATAGTCTTACAC-GAATCACGTATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* * * *
6265627 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
6265674 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
6265701 TACGGAAATC
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 25 0.40
47 37 0.60
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
Found at i:6265768 original size:31 final size:31
Alignment explanation
Indices: 6265733--6265877 Score: 229
Period size: 31 Copynumber: 4.7 Consensus size: 31
6265723 TCACTTGTAA
*
6265733 CCGAAGCTACCACTATTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
*
6265764 CCGAAGCTACCATTTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
*
6265795 CCGGAA-CTATCACTTTTCACTGATCAGGTAG
1 CC-GAAGCTACCACTTTTCACTGATCAGGTAG
*
6265826 CAGAAGCTACCACTTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
*
6265857 CTGAAGCTACCACTTTTCACT
1 CCGAAGCTACCACTTTTCACT
6265878 TGTCATTTGT
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 3 0.03
31 99 0.94
32 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
CCGAAGCTACCACTTTTCACTGATCAGGTAG
Found at i:6265960 original size:50 final size:51
Alignment explanation
Indices: 6265853--6265981 Score: 174
Period size: 50 Copynumber: 2.5 Consensus size: 51
6265843 CACTGATCAG
* * * *
6265853 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCTATTAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCTAATAAGT
*
6265904 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATC-AGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCTA-ATAAGT
6265954 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
6265982 TGCCATGGTC
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
49 1 0.01
50 42 0.60
51 27 0.39
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCTAATAAGT
Found at i:6270800 original size:12 final size:12
Alignment explanation
Indices: 6270778--6270836 Score: 75
Period size: 12 Copynumber: 4.9 Consensus size: 12
6270768 AACAAAAAAT
6270778 TGAAGTAAATAAG
1 TGAA-TAAATAAG
6270791 TGAATAAATAAG
1 TGAATAAATAAG
*
6270803 TAAATAAATAAG
1 TGAATAAATAAG
*
6270815 TGAGTAAATAAG
1 TGAATAAATAAG
*
6270827 T-AAAAAATAA
1 TGAATAAATAA
6270837 TTAAGAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
11 7 0.17
12 30 0.73
13 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (12 bp):
TGAATAAATAAG
Found at i:6270810 original size:24 final size:24
Alignment explanation
Indices: 6270783--6270836 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
6270773 AAAATTGAAG
6270783 TAAATAAGTGAATAAATAAGTAAA
1 TAAATAAGTGAATAAATAAGTAAA
*
6270807 TAAATAAGTGAGTAAATAAGTAAA
1 TAAATAAGTGAATAAATAAGTAAA
6270831 -AAATAA
1 TAAATAA
6270837 TTAAGAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (24 bp):
TAAATAAGTGAATAAATAAGTAAA
Found at i:6273089 original size:34 final size:34
Alignment explanation
Indices: 6273051--6273149 Score: 171
Period size: 34 Copynumber: 2.9 Consensus size: 34
6273041 AAAAAGGATC
6273051 TAAAAAGAGTAAGTGTCACCACGAGCTGAGGACA
1 TAAAAAGAGTAAGTGTCACCACGAGCTGAGGACA
** *
6273085 TAAAAAGAACAAGTGTCACCACGAGCTGAGGACC
1 TAAAAAGAGTAAGTGTCACCACGAGCTGAGGACA
6273119 TAAAAAGAGTAAGTGTCACCACGAGCTGAGG
1 TAAAAAGAGTAAGTGTCACCACGAGCTGAGG
6273150 GCGTTCTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.14
Consensus pattern (34 bp):
TAAAAAGAGTAAGTGTCACCACGAGCTGAGGACA
Found at i:6273305 original size:29 final size:29
Alignment explanation
Indices: 6273261--6273361 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
6273251 CTTTATAAAA
*
6273261 TTTTAATAATAT--AATTATATTTTAATT
1 TTTTAAAAATATAAAATTATATTTTAATT
* * *
6273288 TTTTAAAAATA-ACAAATTTTAATTTAGTT
1 TTTTAAAAATATA-AAATTATATTTTAATT
*
6273317 TTTTAAAATTATAAAATTATATTTT--TT
1 TTTTAAAAATATAAAATTATATTTTAATT
* *
6273344 ATATAAAAATATAAAATT
1 TTTTAAAAATATAAAATT
6273362 TAATTCTACG
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 27 0.45
29 32 0.53
30 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
TTTTAAAAATATAAAATTATATTTTAATT
Found at i:6275206 original size:15 final size:16
Alignment explanation
Indices: 6275186--6275218 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6275176 ATATATATTT
6275186 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
6275201 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
6275218 T
1 T
6275219 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:6275333 original size:26 final size:24
Alignment explanation
Indices: 6275294--6275343 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
6275284 ATTTATTTTA
*
6275294 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
6275318 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
6275344 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:6280772 original size:3 final size:3
Alignment explanation
Indices: 6280764--6280827 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
6280754 ATTACTTTAG
* * * * * *
6280764 TAT TAT TAT TTT TAT T-G TAT CTAT TAA TAT TAT CAC AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
6280809 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
6280828 TTCATATATT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
2 1 0.02
3 44 0.92
4 3 0.06
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6281535 original size:16 final size:16
Alignment explanation
Indices: 6281509--6281548 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6281499 TTATACGTGT
*
6281509 ATATATATTTTTATATA
1 ATAT-TATTTTCATATA
*
6281526 GTATTATTTTCATATA
1 ATATTATTTTCATATA
6281542 ATATTAT
1 ATATTAT
6281549 ACTCATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (16 bp):
ATATTATTTTCATATA
Found at i:6281732 original size:21 final size:21
Alignment explanation
Indices: 6281699--6281745 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 21
6281689 ATATATATTG
6281699 TATATGTTCATTTATACTATGTA
1 TATATGTTCA-TT-TACTATGTA
*
6281722 TATATG-T-ATTTAGTATGTA
1 TATATGTTCATTTACTATGTA
6281741 TATAT
1 TATAT
6281746 TTAGTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 1 0.04
22 1 0.04
23 6 0.26
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (21 bp):
TATATGTTCATTTACTATGTA
Found at i:6281737 original size:15 final size:15
Alignment explanation
Indices: 6281719--6281752 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6281709 TTTATACTAT
*
6281719 GTATATATGTATTTA
1 GTATATATATATTTA
*
6281734 GTATGTATATATTTA
1 GTATATATATATTTA
6281749 GTAT
1 GTAT
6281753 TATTATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:6284033 original size:13 final size:13
Alignment explanation
Indices: 6284003--6284027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6283993 AGTACTTCAC
6284003 AAAAAATATTTTA
1 AAAAAATATTTTA
6284016 AAAAAATATTTT
1 AAAAAATATTTT
6284028 TCAAAAGTAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAAATATTTTA
Found at i:6285599 original size:9 final size:9
Alignment explanation
Indices: 6285585--6285609 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6285575 ATAAAATTTA
6285585 AATATAATT
1 AATATAATT
6285594 AATATAATT
1 AATATAATT
6285603 AATATAA
1 AATATAA
6285610 AATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATATAATT
Found at i:6286789 original size:32 final size:32
Alignment explanation
Indices: 6286748--6286814 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
6286738 AAGCTTCAAG
6286748 AATGATGAATCATGTTTTTGTTATAAGAATTA
1 AATGATGAATCATGTTTTTGTTATAAGAATTA
*
6286780 AATGATGAATGATGTTTTTGTTATAAGAATTA
1 AATGATGAATCATGTTTTTGTTATAAGAATTA
6286812 AAT
1 AAT
6286815 TTTGAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.43
Consensus pattern (32 bp):
AATGATGAATCATGTTTTTGTTATAAGAATTA
Found at i:6287481 original size:36 final size:36
Alignment explanation
Indices: 6287434--6287522 Score: 169
Period size: 36 Copynumber: 2.5 Consensus size: 36
6287424 ACCGTTTACG
6287434 GTACTATTCACGTATACGACACTATTCACGTATACA
1 GTACTATTCACGTATACGACACTATTCACGTATACA
6287470 GTACTATTCACGTATACGACACTATTCACGTATACA
1 GTACTATTCACGTATACGACACTATTCACGTATACA
*
6287506 GTACTGTTCACGTATAC
1 GTACTATTCACGTATAC
6287523 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (36 bp):
GTACTATTCACGTATACGACACTATTCACGTATACA
Found at i:6287525 original size:18 final size:18
Alignment explanation
Indices: 6287434--6287526 Score: 127
Period size: 18 Copynumber: 5.2 Consensus size: 18
6287424 ACCGTTTACG
6287434 GTACTATTCACGTATAC-
1 GTACTATTCACGTATACA
*
6287451 GACACTATTCACGTATACA
1 G-TACTATTCACGTATACA
6287470 GTACTATTCACGTATAC-
1 GTACTATTCACGTATACA
*
6287487 GACACTATTCACGTATACA
1 G-TACTATTCACGTATACA
*
6287506 GTACTGTTCACGTATACA
1 GTACTATTCACGTATACA
6287524 GTA
1 GTA
6287527 GTTGGGATTG
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
17 2 0.03
18 63 0.94
19 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (18 bp):
GTACTATTCACGTATACA
Found at i:6288418 original size:17 final size:19
Alignment explanation
Indices: 6288390--6288425 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6288380 TTTAATTTTT
6288390 AAAATTTCAAAAA-AAAAA
1 AAAATTTCAAAAATAAAAA
6288408 AAAATTT-AAAAATAAAAA
1 AAAATTTCAAAAATAAAAA
6288426 TTGCATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATTTCAAAAATAAAAA
Found at i:6288463 original size:30 final size:30
Alignment explanation
Indices: 6288423--6288524 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
6288413 TTAAAAATAA
* *
6288423 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
6288453 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
6288483 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
6288513 AAATTTCATTTT
1 AAATTTCATTTT
6288525 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.06
30 58 0.94
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:6289091 original size:10 final size:10
Alignment explanation
Indices: 6289076--6289132 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
6289066 GAAGAAAGGA
6289076 AAAAAGAAAG
1 AAAAAGAAAG
6289086 AAAAAGAAAG
1 AAAAAGAAAG
6289096 AAAAA-AAGGAG
1 AAAAAGAA--AG
*
6289107 AGAAAAAAATAG
1 A-AAAAGAA-AG
*
6289119 AAAAGGAAAG
1 AAAAAGAAAG
6289129 AAAA
1 AAAA
6289133 TAAAATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 2 0.05
10 21 0.52
11 8 0.20
12 7 0.17
13 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:6289093 original size:22 final size:23
Alignment explanation
Indices: 6289067--6289145 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 23
6289057 TAACCCGAAG
*
6289067 AAGAAAGGAAAAAA-GAAAGAAA
1 AAGAAAGAAAAAAAGGAAAGAAA
*
6289089 AAGAAAGAAAAAAAGGAGAGAAA
1 AAGAAAGAAAAAAAGGAAAGAAA
6289112 AA-AATAG---AAAAGGAAAGAAA
1 AAGAA-AGAAAAAAAGGAAAGAAA
*
6289132 ATA-AAATAAAAAAA
1 A-AGAAAGAAAAAAA
6289146 TAAAAAGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
20 14 0.30
21 3 0.06
22 15 0.32
23 15 0.32
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (23 bp):
AAGAAAGAAAAAAAGGAAAGAAA
Found at i:6289110 original size:13 final size:13
Alignment explanation
Indices: 6289078--6289121 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
6289068 AGAAAGGAAA
6289078 AAAGAAAGAAAAAG
1 AAAGAAA-AAAAAG
*
6289092 AAAGAAAAAAAGG
1 AAAGAAAAAAAAG
*
6289105 AGAGAAAAAAATAG
1 AAAGAAAAAAA-AG
6289119 AAA
1 AAA
6289122 AGGAAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:6289560 original size:15 final size:16
Alignment explanation
Indices: 6289542--6289571 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6289532 TAATTTAGTT
6289542 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
6289557 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
6289572 TTAACTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:6301055 original size:45 final size:44
Alignment explanation
Indices: 6300958--6301068 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
6300948 TTATGCTTAA
*
6300958 GATGAAAACCCGAAAAGGGCATCTTAAAAAAAAAAAAAGATCAG
1 GATGAAAACCCGAAAAGGGCGTCTTAAAAAAAAAAAAAGATCAG
** ** ** * *
6301002 GGCGAAAACCCGAAAAGGGCGTCTTGATTAGTACAAAAAGATTAG
1 GATGAAAACCCGAAAAGGGCGTCTT-AAAAAAAAAAAAAGATCAG
*
6301047 GATGAAAACCCG-AGAGGGCGTC
1 GATGAAAACCCGAAAAGGGCGTC
6301069 CTAATGAAAC
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 31 0.57
45 23 0.43
ACGTcount: A:0.45, C:0.16, G:0.25, T:0.14
Consensus pattern (44 bp):
GATGAAAACCCGAAAAGGGCGTCTTAAAAAAAAAAAAAGATCAG
Found at i:6302261 original size:135 final size:125
Alignment explanation
Indices: 6302081--6302464 Score: 381
Period size: 122 Copynumber: 3.0 Consensus size: 125
6302071 GCTGAGGTAA
*** **
6302081 TTTAATTTCTATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
1 TTTAATTTCTATTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTT
* *
6302146 GAGGTATTTCAATTCCTGTTCAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTG
66 GAGGTATTT-AATT--AG-T---TTATGTTTT---AAATCAACTCATATTGCGAGAGGTGAGTT-
6302211 AA-CC-
120 AAGCCT
* *
6302215 TTTAATTTCTACTTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGT
1 TTTAATTTCTA-TTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGT
* **
6302280 CGAGGTATTT--TTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
65 TGAGGTATTTAATTAGTTTATGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
* * *
6302339 TTTAATATT-T-GTTTTTCAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
1 TTTAAT-TTCTATTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGT
* * *
6302402 TGAGGTAATTTTAATT--TCTAT-TTTCAAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 TGAGGT-A-TTTAATTAGTTTATGTTT---TAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
6302464 T
125 T
6302465 CAAGACACGT
Statistics
Matches: 216, Mismatches: 23, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
122 55 0.25
123 32 0.15
124 14 0.06
125 2 0.01
126 43 0.20
129 1 0.00
130 1 0.00
132 2 0.01
134 11 0.05
135 55 0.25
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (125 bp):
TTTAATTTCTATTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGTT
GAGGTATTTAATTAGTTTATGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
Found at i:6302595 original size:139 final size:131
Alignment explanation
Indices: 6302410--6302758 Score: 364
Period size: 123 Copynumber: 2.6 Consensus size: 131
6302400 GCTGAGGTAA
*
6302410 TTTTAATTTCTA--TTTTCAAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTAATTTCTATTTTTTC-A-AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACAC
*
6302473 GTTGAGGTATTTTCAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGT
64 GTTGAGGTA-TTTCAATT-CTGTT-AATTTATG-ATTT---AAATCAACTCATATTGCGAGAGGT
*
6302538 GGGTTGAA-CC
122 GAGTT-AAGCC
** *
6302548 TTTTAATTTCTACTTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACG
1 TTTTAATTTCTA-TTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACG
** * **
6302613 CCGAGG----T--ATT-T-TTAGTTTATGATTTAAATTGACTCATATTGCGAGAGGTGAGTTAAG
65 TTGAGGTATTTCAATTCTGTTAATTTATGATTTAAATCAACTCATATTGCGAGAGGTGAGTTAAG
6302670 CC
130 CC
*
6302672 TTTTAATTT-T-TGTTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTAATTTCTAT-TTTTTCAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACAC
6302735 GTTGAGGTAATTTCAATTTCTGTT
64 GTTGAGGT-ATTTCAA-TTCTGTT
6302759 TTCAAAATTC
Statistics
Matches: 178, Mismatches: 17, Indels: 37
0.77 0.07 0.16
Matches are distributed among these distances:
121 1 0.01
122 10 0.06
123 44 0.25
124 37 0.21
127 3 0.02
128 8 0.04
129 2 0.01
130 2 0.01
131 2 0.01
132 4 0.02
133 2 0.01
134 1 0.01
138 12 0.07
139 44 0.25
140 1 0.01
141 5 0.03
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (131 bp):
TTTTAATTTCTATTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGT
TGAGGTATTTCAATTCTGTTAATTTATGATTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGC
C
Found at i:6302742 original size:123 final size:125
Alignment explanation
Indices: 6302495--6303088 Score: 374
Period size: 145 Copynumber: 4.4 Consensus size: 125
6302485 TCAATTCCTG
* * *
6302495 TTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCT
1 TTCAATTTATG-ATTT-AAAATTCAACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTTCT
* ** * *
6302559 ACTTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATT
63 A-TTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTAAT
* * *
6302623 TTTAGTTTATGATTT-AAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTT-T-TG
1 TTCAATTTATGATTTAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTAT-
**
6302684 TTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAAT
65 TTTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTAAT
* * *
6302746 TTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
1 TTCAATTTATGATTT-AAAATTCAACTCATATTGCGAG--A-G-G-TGAG--TTAAG-C-C-TT-
* * * *
6302811 AGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTAAGCCTCAAGA
54 --TTAATTTC--TAT-T-TTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
** *
6302876 CACGTTGAGGTATT
112 CACGCCGAGGTAAT
* * * *
6302890 TTCAATTTCTGCTTCTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTCAATTTATGATT-T-AAAATTCAACTCATATTGCGAG--A-G-G-TGAG--TTAAG-C-C-TT
*
6302955 GAGGTAATTT-TAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
54 ---TTAATTTCT-A--T-T-TTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*** *
6303019 GACACATTGAGGTATT
110 GACACGCCGAGGTAAT
* * * *
6303035 TTCAATTTCTGCTTTTCAAAACTT-AACTCATATTGCGAGAGATGAGTTGAGCCT
1 TTCAATTTATG-ATTT-AAAA-TTCAACTCATATTGCGAGAGGTGAGTTAAGCCT
6303089 CAAGGCACGC
Statistics
Matches: 400, Mismatches: 36, Indels: 53
0.82 0.07 0.11
Matches are distributed among these distances:
121 1 0.00
122 10 0.03
123 58 0.14
124 33 0.08
125 9 0.02
126 14 0.04
127 3 0.01
128 10 0.03
129 1 0.00
130 1 0.00
131 4 0.01
133 4 0.01
134 1 0.00
135 2 0.00
136 3 0.01
137 1 0.00
138 3 0.01
139 6 0.01
140 4 0.01
142 3 0.01
143 3 0.01
144 70 0.17
145 152 0.38
146 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (125 bp):
TTCAATTTATGATTTAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTATT
TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTAAT
Found at i:6302773 original size:334 final size:328
Alignment explanation
Indices: 6301905--6302830 Score: 1636
Period size: 334 Copynumber: 2.8 Consensus size: 328
6301895 AAAATTTAAA
6301905 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGTCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGTCGAGGTATTTTTAGTTTAT
6301970 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATATTTGTTTTTCAAAATCAA
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATATTTGTTTTTCAAAATCAA
6302035 TTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTAATTTCTATTTTCAAA
131 TTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTAATTTCTATTTTC-AA
6302100 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTCAATTCCTGT
195 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTCAATTCCTGT
6302165 TCAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTAATTTCTACTTT
260 TCAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTAATTTCTACTTT
6302230 TTTC
325 TTTC
6302234 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGTCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGTCGAGGTATTTTTAGTTTAT
6302299 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATATTTGTTTTTCAAAATCAA
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATATTTGTTTTTCAAAATCAA
6302364 TTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAA
131 TTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAA-TTTAATTTCTATTTTCAA
6302429 GAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCT
195 -AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTCAATTCCT
6302494 GTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
258 GTTCAA-TTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACC-TTTAATTTCT
6302559 ACTTTTTTC
320 ACTTTTTTC
*
6302568 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGTCGAGGTATTTTTAGTTTAT
* *
6302633 GATTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAACTCA
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATATTTGTTTTTCAAAA-TCA
* ** ** * *
6302698 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
130 ATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTT-AATTTCTATTTTCA
* ** *
6302763 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
194 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTCAATTCCT
6302828 GTT
258 GTT
6302831 TTCAAAATTC
Statistics
Matches: 574, Mismatches: 14, Indels: 13
0.96 0.02 0.02
Matches are distributed among these distances:
329 178 0.31
330 68 0.12
331 17 0.03
332 5 0.01
333 41 0.07
334 206 0.36
335 59 0.10
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (328 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGTCGAGGTATTTTTAGTTTAT
GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATATTTGTTTTTCAAAATCAA
TTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTAATTTCTATTTTCAAA
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTCAATTCCTGTT
CAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTAATTTCTACTTTT
TTC
Found at i:6302794 original size:72 final size:73
Alignment explanation
Indices: 6302676--6303122 Score: 722
Period size: 72 Copynumber: 6.2 Consensus size: 73
6302666 TAAGCCTTTT
* * *
6302676 AATTTTTGTTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
6302741 GTAATTTC
66 GTAATTTC
6302749 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
6302813 GTAATTTC
66 GTAATTTC
* *
6302821 AATTTCTG-TTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTAAGCCTCAAGACACGTTGAG
1 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
6302885 GTATTTTC
66 GTAATTTC
* *
6302893 AATTTCTGCTTCTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
6302958 GTAATTTT
66 GTAATTTC
*
6302966 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAG
1 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
6303030 GTATTTTC
66 GTAATTTC
* * *
6303038 AATTTCTGCTTTTCAAAACTT-AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACGCTGA
1 AATTTCTGCTTTTCAAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
*
6303102 GGTATTTTC
65 GGTAATTTC
6303111 AATTTCTGCTTT
1 AATTTCTGCTTT
6303123 ACTAATTCTA
Statistics
Matches: 353, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
72 207 0.59
73 144 0.41
74 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (73 bp):
AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
GTAATTTC
Found at i:6302955 original size:145 final size:145
Alignment explanation
Indices: 6302676--6303118 Score: 737
Period size: 145 Copynumber: 3.1 Consensus size: 145
6302666 TAAGCCTTTT
* *
6302676 AATTTTTGTTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
*
6302741 GTAATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
65 GTATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
6302805 ACGTTGAGGTAATTTC
130 ACGTTGAGGTAATTTC
* *
6302821 AATTTCTGTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTAAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* *
6302886 TATTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACA
66 TATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
6302951 CGTTGAGGTAATTTT
131 CGTTGAGGTAATTTC
*
6302966 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* *
6303031 TATTTTCAATTTCTGCTTTTCAAAACTT-AACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGC
66 TATTTTCAATTTCTGCTTTTCAAAA-TTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
* *
6303095 ACGCTGAGGTATTTTC
130 ACGTTGAGGTAATTTC
6303111 AATTTCTG
1 AATTTCTG
6303119 CTTTACTAAT
Statistics
Matches: 278, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
144 68 0.24
145 208 0.75
146 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (145 bp):
AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TATTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
CGTTGAGGTAATTTC
Found at i:6303218 original size:13 final size:13
Alignment explanation
Indices: 6303202--6303235 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
6303192 TCTTTTCAAA
6303202 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
6303215 TTCTGTTTTTTTAAT
1 TTCTG--TTTTTAAT
6303230 TTCTGT
1 TTCTGT
6303236 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.32
15 13 0.68
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.71
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:6303224 original size:86 final size:87
Alignment explanation
Indices: 6303033--6303224 Score: 214
Period size: 86 Copynumber: 2.2 Consensus size: 87
6303023 CATTGAGGTA
* * * *
6303033 TTTTCAATTTCTGCTTTTCAAAACTTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACG
1 TTTTTAATTTCTGTTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGGCACG
*
6303098 CTGAGGTATTTTCAATTTCTGC
66 CTGAGGTATTTTCAAATTCTGC
* * * *
6303120 TTTACTAA-TTCTACTTTTTC-AAA-TCAACTCATATTGCAAGAGGTGAGTTGAGTCTC-AGGCA
1 TTT-TTAATTTCT-GTTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGG--
*
6303181 ACACGCTGAGGTCTTTTCAAATTCTG-
62 -CACGCTGAGGTATTTTCAAATTCTGC
6303207 TTTTTAATTTCTGTTTTT
1 TTTTTAATTTCTGTTTTT
6303225 TTAATTTCTG
Statistics
Matches: 87, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
85 3 0.03
86 37 0.43
87 17 0.20
88 30 0.34
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (87 bp):
TTTTTAATTTCTGTTTTTCAAAACTCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGGCACG
CTGAGGTATTTTCAAATTCTGC
Found at i:6303227 original size:15 final size:15
Alignment explanation
Indices: 6303207--6303235 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6303197 TCAAATTCTG
6303207 TTTTTAATTTCTGTT
1 TTTTTAATTTCTGTT
6303222 TTTTTAATTTCTGT
1 TTTTTAATTTCTGT
6303236 GTTTCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTTAATTTCTGTT
Found at i:6303396 original size:54 final size:54
Alignment explanation
Indices: 6303321--6303636 Score: 518
Period size: 54 Copynumber: 5.9 Consensus size: 54
6303311 TACTTTTCAG
*
6303321 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTTTAA
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
6303375 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
6303429 TTTCTGTTTTTCAAAAATCAAC-CATATTGCGAGAGGTGAGTTGAGCCTTTTAA
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
* *
6303482 TTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT--
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
*
6303532 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAA
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AA
* *
6303588 ATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
6303637 GGCTCACGTG
Statistics
Matches: 248, Mismatches: 7, Indels: 13
0.93 0.03 0.05
Matches are distributed among these distances:
50 47 0.19
52 4 0.02
53 51 0.21
54 100 0.40
55 42 0.17
56 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (54 bp):
TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA
Found at i:6303508 original size:107 final size:105
Alignment explanation
Indices: 6303321--6303636 Score: 503
Period size: 107 Copynumber: 3.0 Consensus size: 105
6303311 TACTTTTCAG
*
6303321 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTTTAATTTCTGTTTTT
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT-TTTTT
6303386 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
65 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
6303427 AATTTCTGTTTTTCAAAAATCAAC-CATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTT
1 --TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT-TTT
*
6303491 TTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
63 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
* * *
6303532 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCTGTTT
1 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AATTTCTTTTT
*
6303597 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
64 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
6303637 GGCTCACGTG
Statistics
Matches: 195, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
103 21 0.11
104 29 0.15
105 41 0.21
106 6 0.03
107 76 0.39
108 22 0.11
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (105 bp):
TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTTTTTTC
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
Found at i:6303950 original size:30 final size:30
Alignment explanation
Indices: 6303916--6304017 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
6303906 TAAAAAATAA
* *
6303916 AAATTGCATTTTGACCCCTAAACTTTTACT
1 AAATTTCATTTTGACCCCTAAACTTTTATT
*
6303946 AAATTTCATTTTGACCCTTAAACTTTCT-TT
1 AAATTTCATTTTGACCCCTAAACTTT-TATT
* * *
6303976 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTTATT
6304006 AAATTTCATTTT
1 AAATTTCATTTT
6304018 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
30 60 0.98
31 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTTATT
Found at i:6304573 original size:12 final size:12
Alignment explanation
Indices: 6304556--6304615 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
6304546 TAACCCGAAG
6304556 AAGAAAGGAAAA
1 AAGAAAGGAAAA
6304568 AAGAAA-G-AAA
1 AAGAAAGGAAAA
*
6304578 AAGAAAGAAAAA
1 AAGAAAGGAAAA
* *
6304590 AAGGAGAGAAAAA
1 AA-GAAAGGAAAA
6304603 ATAGAAAAGGAAA
1 A-AG-AAAGGAAA
6304616 GAAAAGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 9 0.23
11 1 0.03
12 11 0.28
13 11 0.28
14 7 0.18
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (12 bp):
AAGAAAGGAAAA
Found at i:6304580 original size:10 final size:10
Alignment explanation
Indices: 6304565--6304630 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
6304555 GAAGAAAGGA
6304565 AAAAAGAAAG
1 AAAAAGAAAG
6304575 AAAAAGAAAG
1 AAAAAGAAAG
6304585 AAAAA-AAGGAG
1 AAAAAGAA--AG
6304596 AGAAAA-AATAG
1 A-AAAAGAA-AG
*
6304607 AAAAGGAAAG
1 AAAAAGAAAG
*
6304617 -AAAAGAAAT
1 AAAAAGAAAG
6304626 AAAAA
1 AAAAA
6304631 AATAAAAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
9 9 0.19
10 24 0.51
11 8 0.17
12 6 0.13
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:6304582 original size:22 final size:23
Alignment explanation
Indices: 6304556--6304632 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 23
6304546 TAACCCGAAG
*
6304556 AAGAAAGGAAAAAA-GAAAGAAA
1 AAGAAAGAAAAAAAGGAAAGAAA
*
6304578 AAGAAAGAAAAAAAGGAGAGAAA
1 AAGAAAGAAAAAAAGGAAAGAAA
*
6304601 AA-ATAG---AAAAGGAAAG-AA
1 AAGAAAGAAAAAAAGGAAAGAAA
*
6304619 AAGAAATAAAAAAA
1 AAGAAAGAAAAAAA
6304633 TAAAAAGATA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.09
19 11 0.25
22 20 0.45
23 9 0.20
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (23 bp):
AAGAAAGAAAAAAAGGAAAGAAA
Found at i:6304599 original size:13 final size:13
Alignment explanation
Indices: 6304567--6304632 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
6304557 AGAAAGGAAA
6304567 AAAGAAAGAAAAAG
1 AAAGAAA-AAAAAG
*
6304581 AAAGAAAAAAAGG
1 AAAGAAAAAAAAG
* *
6304594 AGAGAAAAAATAG
1 AAAGAAAAAAAAG
*
6304607 AAAAGGAAAGAAAAG
1 -AAA-GAAAAAAAAG
*
6304622 AAATAAAAAAA
1 AAAGAAAAAAA
6304633 TAAAAAGATA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
13 21 0.51
14 12 0.29
15 8 0.20
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:6305043 original size:15 final size:16
Alignment explanation
Indices: 6305025--6305054 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6305015 TAATTTAGTT
6305025 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
6305040 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
6305055 TTAACTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:6305618 original size:16 final size:17
Alignment explanation
Indices: 6305597--6305633 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6305587 GTGTTTTAAA
6305597 AAAATT-ATGTGTTTTC
1 AAAATTCATGTGTTTTC
*
6305613 AAAATTCTTGTGTTTTC
1 AAAATTCATGTGTTTTC
6305630 AAAA
1 AAAA
6305634 CAAGAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (17 bp):
AAAATTCATGTGTTTTC
Found at i:6311589 original size:17 final size:17
Alignment explanation
Indices: 6311567--6311600 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6311557 CCTATCCACC
6311567 CCGACATGCCGGAAGGG
1 CCGACATGCCGGAAGGG
6311584 CCGACATGCCGGAAGGG
1 CCGACATGCCGGAAGGG
6311601 TGGACTGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.41, T:0.06
Consensus pattern (17 bp):
CCGACATGCCGGAAGGG
Found at i:6316437 original size:5 final size:5
Alignment explanation
Indices: 6316419--6316449 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
6316409 TAGGAAGATA
6316419 TTATT TTGATT TTATT TTATT TTATT TTATT
1 TTATT TT-ATT TTATT TTATT TTATT TTATT
6316450 AGTTAGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:6317071 original size:15 final size:15
Alignment explanation
Indices: 6317037--6317082 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
6317027 ATTTATCTCT
6317037 TTATATTTATAATATTA
1 TTATATTTAT-AT-TTA
*
6317054 TTATATTTCTATTTA
1 TTATATTTATATTTA
*
6317069 TTATATTTTTATTT
1 TTATATTTATATTT
6317083 CTATTTATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 2 0.07
17 9 0.33
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTATATTTA
Found at i:6317592 original size:126 final size:126
Alignment explanation
Indices: 6317264--6317868 Score: 743
Period size: 126 Copynumber: 4.8 Consensus size: 126
6317254 TTTCATATAT
* * * * * * *
6317264 TATCTTTTTTGAAATTTCGTCCATGCTTT-TTAAAATTAAATGAAGCAATATTTTGTATTTGGGG
1 TATCCTTTTTGAAATTTCATCCATGTTTTCTTAAAATAAAATGAGGCAATATTTCGTATTT-GGA
* * * * * *
6317328 AGTTTGAGAGATCGTGCTCAATCGTGTTGGGTTTTGATTTTTCGTTCAACTAAAATACGAAA
65 AGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACGGAA
* * * * * *
6317390 CATCC-TTTGGAAATTTCGTCCATGCTTT-TTAAAATTAAATGAGGCAATATTTCGTATTTGGGA
1 TATCCTTTTTGAAATTTCATCCATGTTTTCTTAAAATAAAATGAGGCAATATTTCGTATTTGGAA
* *
6317453 GTTTGAGAGATCGTGCCCAATCATGCTGGGTTTTGATTTTTCATTCGACTAAAATACGGAA
66 GTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACGGAA
* * *
6317514 TATCCTTTTTGAAATTTCATCCATGTTTTCTTAAACTAAAACGAGGCAATATTTCGTGTTTGGAA
1 TATCCTTTTTGAAATTTCATCCATGTTTTCTTAAAATAAAATGAGGCAATATTTCGTATTTGGAA
* * *
6317579 GTTTGAGGGATCGTGCCCAATCGTGATGGGTTTCGATTTTTCATTCGACTAAAATATGGAA
66 GTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACGGAA
* * * *
6317640 TATCTTTTTTG-AATCTTCATCCATGTTTTCTTAAACTAAAACGAGGCAATATTTCGTGTTTGGA
1 TATCCTTTTTGAAAT-TTCATCCATGTTTTCTTAAAATAAAATGAGGCAATATTTCGTATTTGGA
* * * * * *
6317704 AGTTTGAGGGATCGTGCTCAATTGTGCTAGGTTTCGATTTTTCATTCGACTAAGATACGGGA
65 AGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACGGAA
* * *
6317766 TATCC-TTTTGACATTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTTGTATTTGGAA
1 TATCCTTTTTGAAATTTCATCCATGTTTTCTTAAAATAAAATGAGGCAATATTTCGTATTTGGAA
* * * * * *
6317830 ATTCGATAAATCGTGCCCAATCATGCTGGGTTGCGATTT
66 GTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTT
6317869 ACTGTTTGGC
Statistics
Matches: 426, Mismatches: 49, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
124 63 0.15
125 154 0.36
126 209 0.49
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (126 bp):
TATCCTTTTTGAAATTTCATCCATGTTTTCTTAAAATAAAATGAGGCAATATTTCGTATTTGGAA
GTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACGGAA
Found at i:6321226 original size:31 final size:32
Alignment explanation
Indices: 6321199--6321283 Score: 102
Period size: 32 Copynumber: 2.6 Consensus size: 32
6321189 GTTCAAAGTA
* *
6321199 TTGTTTTCCAATTTTTAAGGTACTCAAAAAAT
1 TTGTTTACCAACTTTTAAGGTACTCAAAAAAT
*
6321231 TTGTTTACCAACTTTTAAGGTACTTAAAAAAAAT
1 TTGTTTACCAACTTTTAAGGTAC-T-CAAAAAAT
6321265 TT-TCTT-CCAACTTTTAAGG
1 TTGT-TTACCAACTTTTAAGG
6321284 AACCTAAAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
32 21 0.45
33 15 0.32
34 11 0.23
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.42
Consensus pattern (32 bp):
TTGTTTACCAACTTTTAAGGTACTCAAAAAAT
Found at i:6321235 original size:32 final size:34
Alignment explanation
Indices: 6321199--6321292 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 34
6321189 GTTCAAAGTA
* *
6321199 TTGTTTTCCAATTTTTAAGGTAC-T-CAAAAAAT
1 TTGTTTTCCAACTTTTAAGGTACTTAAAAAAAAT
*
6321231 TTGTTTACCAACTTTTAAGGTACTTAAAAAAAAT
1 TTGTTTTCCAACTTTTAAGGTACTTAAAAAAAAT
* * *
6321265 TT-TCTTCCAACTTTTAAGGAACCTAAAA
1 TTGTTTTCCAACTTTTAAGGTACTTAAAA
6321293 CTCCAATCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 21 0.40
33 23 0.43
34 9 0.17
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (34 bp):
TTGTTTTCCAACTTTTAAGGTACTTAAAAAAAAT
Found at i:6322824 original size:27 final size:26
Alignment explanation
Indices: 6322786--6322841 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
6322776 AAGATTCAAA
*
6322786 GTTGATTAGATTGCTTACTATATGTAC
1 GTTGATTAGATTGCTTA-TACATGTAC
6322813 GTTGATTAGATTGCTTATACATGTAC
1 GTTGATTAGATTGCTTATACATGTAC
6322839 GTT
1 GTT
6322842 ATTCCCATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.45
Consensus pattern (26 bp):
GTTGATTAGATTGCTTATACATGTAC
Found at i:6323812 original size:40 final size:40
Alignment explanation
Indices: 6323757--6323836 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
6323747 AGCTTATAGG
6323757 GACGAAGATGCGAAAGAGGTCAAGATAAAACTATATTAAA
1 GACGAAGATGCGAAAGAGGTCAAGATAAAACTATATTAAA
6323797 GACGAAGATGCGAAAGAGGTCAAGATAAAACTATATTAAA
1 GACGAAGATGCGAAAGAGGTCAAGATAAAACTATATTAAA
6323837 AATTGAAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.50, C:0.10, G:0.23, T:0.17
Consensus pattern (40 bp):
GACGAAGATGCGAAAGAGGTCAAGATAAAACTATATTAAA
Found at i:6325316 original size:11 final size:11
Alignment explanation
Indices: 6325300--6325339 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
6325290 TTATTTTTTC
6325300 CTATTTTGCTA
1 CTATTTTGCTA
*
6325311 CTATTTTACTA
1 CTATTTTGCTA
* *
6325322 TTATGTTGCTA
1 CTATTTTGCTA
6325333 CTATTTT
1 CTATTTT
6325340 ATTGTTATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:6325509 original size:21 final size:21
Alignment explanation
Indices: 6325452--6325511 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 21
6325442 AAGTCTAAAT
*
6325452 ATTTTTTAAAATTTATTTTTA
1 ATTTTTTAATATTTATTTTTA
6325473 ATTTGTTGTGATATATTTA-TTTTA
1 ATTT-TT-T-A-ATATTTATTTTTA
6325497 ATGTTTTTAATATTT
1 AT-TTTTTAATATTT
6325512 TTGATGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
21 10 0.30
22 3 0.09
23 2 0.06
24 10 0.30
25 8 0.24
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (21 bp):
ATTTTTTAATATTTATTTTTA
Found at i:6325547 original size:11 final size:11
Alignment explanation
Indices: 6325531--6325562 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6325521 TATATATATT
6325531 TAAAAATTATA
1 TAAAAATTATA
*
6325542 TAAAAATAATA
1 TAAAAATTATA
6325553 TAAAAATTAT
1 TAAAAATTAT
6325563 TACGGGCGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:6334976 original size:16 final size:17
Alignment explanation
Indices: 6334955--6334988 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
6334945 TGTATGTCTA
6334955 ATTATTTTCAAAT-TTT
1 ATTATTTTCAAATATTT
6334971 ATTATTTTCAAATATTT
1 ATTATTTTCAAATATTT
6334988 A
1 A
6334989 ATAAAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTTTCAAATATTT
Found at i:6337260 original size:20 final size:20
Alignment explanation
Indices: 6337235--6337284 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
6337225 ATTTTTCTTT
6337235 AATTATGAAAAAAA-ATTAAA
1 AATTAT-AAAAAAATATTAAA
*
6337255 AATTATAAAAAAATTTTAAA
1 AATTATAAAAAAATATTAAA
*
6337275 AATTTTAAAA
1 AATTATAAAA
6337285 TTTTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AATTATAAAAAAATATTAAA
Found at i:6337902 original size:7 final size:7
Alignment explanation
Indices: 6337890--6337921 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
6337880 CTTTCATATT
6337890 TTCTTTG
1 TTCTTTG
6337897 TTCTTTG
1 TTCTTTG
6337904 TTCTTTG
1 TTCTTTG
*
6337911 TTCTTTA
1 TTCTTTG
6337918 TTCT
1 TTCT
6337922 CTCCATCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.03, C:0.16, G:0.09, T:0.72
Consensus pattern (7 bp):
TTCTTTG
Found at i:6347814 original size:21 final size:21
Alignment explanation
Indices: 6347788--6347828 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6347778 AGACGAGCAA
* *
6347788 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
6347809 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
6347829 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:6357105 original size:18 final size:19
Alignment explanation
Indices: 6357070--6357105 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6357060 GAGAGGAATG
6357070 TTGAGAAATGAGGGATGAT
1 TTGAGAAATGAGGGATGAT
*
6357089 TTGAGAAGTGA-GGATGA
1 TTGAGAAATGAGGGATGA
6357106 CAAGGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.39, T:0.25
Consensus pattern (19 bp):
TTGAGAAATGAGGGATGAT
Found at i:6358393 original size:24 final size:23
Alignment explanation
Indices: 6358348--6358478 Score: 69
Period size: 24 Copynumber: 5.7 Consensus size: 23
6358338 ATATATATAT
*
6358348 ATATTAAAAATAAATACGTAATA
1 ATATTAAAAATAAATACATAATA
**
6358371 ATATTAAAAAGTATGTACATAAT-
1 ATATTAAAAA-TAAATACATAATA
* *
6358394 ATAATGAAAATATATATACATAATATA
1 AT-ATTAAAA-ATAAATACAT-A-ATA
6358421 ATATGTAAAAAT--ATA-AT-ATA
1 ATAT-TAAAAATAAATACATAATA
* ** *
6358441 GTATTCGAAATATATACATAAT-
1 ATATTAAAAATAAATACATAATA
6358463 ATA-TAAAAATACAATA
1 ATATTAAAAATA-AATA
6358479 TTAAAAAGTA
Statistics
Matches: 83, Mismatches: 13, Indels: 25
0.69 0.11 0.21
Matches are distributed among these distances:
19 5 0.06
20 6 0.07
21 9 0.11
22 7 0.08
23 16 0.19
24 26 0.31
25 2 0.02
26 6 0.07
27 6 0.07
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (23 bp):
ATATTAAAAATAAATACATAATA
Found at i:6358438 original size:20 final size:19
Alignment explanation
Indices: 6358413--6358479 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
6358403 ATATATATAC
6358413 ATAATATAATATGTAAAAAT
1 ATAATATAATAT-TAAAAAT
* **
6358433 ATAATATAGTATTCGAAAT
1 ATAATATAATATTAAAAAT
*
6358452 ATATACATAATATATAAAAAT
1 ATA-ATATAATAT-TAAAAAT
*
6358473 ACAATAT
1 ATAATAT
6358480 TAAAAAGTAT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
19 8 0.22
20 21 0.58
21 7 0.19
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (19 bp):
ATAATATAATATTAAAAAT
Found at i:6358906 original size:3 final size:3
Alignment explanation
Indices: 6358882--6358970 Score: 51
Period size: 3 Copynumber: 30.0 Consensus size: 3
6358872 ACTAGTACTG
* * * * *
6358882 ATA ATA TTA TTA ATA A-A TATA ATA ATA ATA ATA GT- ATG TTA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* **
6358926 ACA GCA ATA ATA TATA A-A ATA ATA ATA ATA AT- ATAA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
6358971 TATGTATGCA
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
2 6 0.09
3 56 0.82
4 6 0.09
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6361082 original size:75 final size:75
Alignment explanation
Indices: 6360883--6361107 Score: 245
Period size: 80 Copynumber: 2.9 Consensus size: 75
6360873 AACAGACATT
* * *
6360883 AAAACAGAAATTGAAAATAACTCAGCACAAGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 AAAACAGAAATTGAAAATAACTCAGCA-TAGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
6360948 TGAATATAAATTGAA
65 TG-AT-T-AATTG-A
* * **
6360963 AAAACAGAAATTGAAAATAGCTCAGCACTAGAGCCGAGGATCAACTCATTTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAACTCAGCA-TAGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
6361028 TGATT-TTTGA
65 TGATTAATTGA
* * * * * * *
6361038 AAAGCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTTACCTCTAGCAATATGAGT
1 AAAACAGAAATTGAAAATAACTCAGCAT-AGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGT
6361103 TGATT
65 TGATT
6361108 GATTTTTTTG
Statistics
Matches: 126, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
74 1 0.01
75 59 0.47
76 3 0.02
78 1 0.01
79 2 0.02
80 60 0.48
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (75 bp):
AAAACAGAAATTGAAAATAACTCAGCATAGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTAATTGA
Found at i:6361314 original size:158 final size:160
Alignment explanation
Indices: 6361131--6361509 Score: 654
Period size: 160 Copynumber: 2.4 Consensus size: 160
6361121 ATAAATTGAG
*
6361131 AATACCTCAATGTGACTTGATGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAACATA
1 AATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATA
* *
6361195 AAT-TAAAAAACAAAAATTGAAAATACCCCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATA
66 AATAAAAAAAACAAAAATTGAAAATACCCCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
*
6361259 TGAGTCGATTTTTGAAAAATAGAAATTAAA
131 TGAGTCAATTTTTGAAAAATAGAAATTAAA
* *
6361289 AATACCTCAACGTGACTTGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATA
1 AATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATA
* *
6361354 AATAAAAAAAACAAAAATTGAACATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
66 AATAAAAAAAACAAAAATTGAAAATACCCCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
*
6361419 TGAGTCAATTTTTGAAAAATAGAAATTGAA
131 TGAGTCAATTTTTGAAAAATAGAAATTAAA
*
6361449 AATACCTCAGTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
1 AATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
6361510 AATATAAATA
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
158 48 0.23
159 16 0.08
160 143 0.69
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (160 bp):
AATACCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACATA
AATAAAAAAAACAAAAATTGAAAATACCCCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTCAATTTTTGAAAAATAGAAATTAAA
Found at i:6361321 original size:73 final size:74
Alignment explanation
Indices: 6361208--6361349 Score: 214
Period size: 73 Copynumber: 1.9 Consensus size: 74
6361198 TAAAAAACAA
* * *
6361208 AAATTGAAAATACCCCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTT
1 AAATTAAAAATACCCCAACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTT
6361272 GAAAAATAG
66 GAAAAATAG
* * * *
6361281 AAATTAAAAATACCTCAACGTGACTTGAGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTAAAAATACCCCAACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTT
6361346 GAAA
66 GAAA
6361350 CATAAATAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 52 0.85
74 9 0.15
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (74 bp):
AAATTAAAAATACCCCAACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTT
GAAAAATAG
Found at i:6361479 original size:73 final size:74
Alignment explanation
Indices: 6361368--6361518 Score: 223
Period size: 73 Copynumber: 2.1 Consensus size: 74
6361358 AAAAAAACAA
* *
6361368 AAATTGAACATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG-TCAATTTTT
1 AAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTT
6361432 GAAAAATAG
66 GAAAAATAG
* ** * *
6361441 AAATTGAAAATACCTCAGTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTT
*
6361506 GAAAAATAT
66 GAAAAATAG
6361515 AAAT
1 AAAT
6361519 ATCAGAATAC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 50 0.72
74 19 0.28
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (74 bp):
AAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTT
GAAAAATAG
Found at i:6373833 original size:25 final size:25
Alignment explanation
Indices: 6373804--6373909 Score: 103
Period size: 25 Copynumber: 4.3 Consensus size: 25
6373794 AATACTACAT
*
6373804 AAATATGTACATATATATATAT-TAA
1 AAATATATACATA-ATATATATGTAA
* *
6373829 AAATAAATACGTAATA-ATAT-TAA
1 AAATATATACATAATATATATGTAA
* * *
6373852 AAGTATGTACATAATATA-ATGAAA
1 AAATATATACATAATATATATGTAA
6373876 AATATATATACATAATATAATATGTAA
1 AA-ATATATACATAATAT-ATATGTAA
6373903 AAATATA
1 AAATATA
6373910 ATATAGTATT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
23 21 0.32
24 8 0.12
25 23 0.35
26 6 0.09
27 7 0.11
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
AAATATATACATAATATATATGTAA
Found at i:6373892 original size:48 final size:51
Alignment explanation
Indices: 6373778--6373892 Score: 129
Period size: 48 Copynumber: 2.4 Consensus size: 51
6373768 CTAATAACAT
*
6373778 AAAAATATATAT--TAATAATACTACATAAATATGTACATATATATATATT
1 AAAAATATATATACTAATAATACTACATAAATATGTACATATATATATATG
* *
6373827 AAAAATA-A-ATACGTAATAATATTA-A-AAGTATGTACATA-ATATA-ATG
1 AAAAATATATATAC-TAATAATACTACATAAATATGTACATATATATATATG
6373873 AAAAATATATATACATAATA
1 AAAAATATATATAC-TAATA
6373893 TAATATGTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
46 9 0.16
47 8 0.14
48 22 0.39
49 8 0.14
50 10 0.18
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (51 bp):
AAAAATATATATACTAATAATACTACATAAATATGTACATATATATATATG
Found at i:6374369 original size:12 final size:13
Alignment explanation
Indices: 6374354--6374444 Score: 62
Period size: 12 Copynumber: 6.8 Consensus size: 13
6374344 ATACTAGTAC
*
6374354 TAATAATAT-TAT
1 TAATAATATATAA
6374366 TAATAA-ATATAA
1 TAATAATATATAA
**
6374378 TAATAATAGTATGT
1 TAATAATA-TATAA
* *
6374392 TAATAACAGCAATAA
1 TAATAATA--TATAA
*
6374407 TATATAAAATAATAA
1 TA-ATAATAT-ATAA
6374422 TAATAATATA-AA
1 TAATAATATATAA
6374434 TAATAATATAT
1 TAATAATATAT
6374445 GTATGCAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
11 2 0.03
12 26 0.43
13 2 0.03
14 16 0.26
15 10 0.16
16 5 0.08
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.36
Consensus pattern (13 bp):
TAATAATATATAA
Found at i:6374425 original size:18 final size:18
Alignment explanation
Indices: 6374402--6374441 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
6374392 TAATAACAGC
6374402 AATAAT-ATATAAAATAAT
1 AATAATAATAT-AAATAAT
6374420 AATAATAATATAAATAAT
1 AATAATAATATAAATAAT
6374438 AATA
1 AATA
6374442 TATGTATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATAATATAAATAAT
Found at i:6375115 original size:13 final size:13
Alignment explanation
Indices: 6375097--6375125 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6375087 CGGTGAGTAA
6375097 GCCGCCGTATGTC
1 GCCGCCGTATGTC
6375110 GCCGCCGTATGTC
1 GCCGCCGTATGTC
6375123 GCC
1 GCC
6375126 ATCGCCGGCC
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:0.07, C:0.41, G:0.31, T:0.21
Consensus pattern (13 bp):
GCCGCCGTATGTC
Found at i:6376051 original size:12 final size:12
Alignment explanation
Indices: 6376017--6376053 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 12
6376007 ATCGCCAGTC
6376017 TATACTATTATA
1 TATACTATTATA
6376029 TATATCATATTATA
1 TATA-C-TATTATA
6376043 TATACTATTAT
1 TATACTATTAT
6376054 TTAAACCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.43
13 2 0.09
14 11 0.48
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (12 bp):
TATACTATTATA
Found at i:6377527 original size:13 final size:13
Alignment explanation
Indices: 6377509--6377533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6377499 TATTATAATT
6377509 TAAAATTTAATAA
1 TAAAATTTAATAA
6377522 TAAAATTTAATA
1 TAAAATTTAATA
6377534 GCATAATAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAATTTAATAA
Found at i:6378281 original size:61 final size:60
Alignment explanation
Indices: 6378182--6378303 Score: 199
Period size: 61 Copynumber: 2.0 Consensus size: 60
6378172 TGACATTTGC
*
6378182 TTTGTCACAACAAGCAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCATTTT
1 TTTGTCACAACAAGCAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTC-TTTT
* * *
6378243 TTTGTCACAACAAGGAACTCTTCCCATTTCTCTGTATAATCCTTCAGCTTAGAGTCTTTT
1 TTTGTCACAACAAGCAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTTT
6378303 T
1 T
6378304 CAGGAGACCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
60 5 0.09
61 52 0.91
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (60 bp):
TTTGTCACAACAAGCAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTTT
Found at i:6378348 original size:92 final size:92
Alignment explanation
Indices: 6378243--6379119 Score: 1449
Period size: 92 Copynumber: 9.6 Consensus size: 92
6378233 GAGTCATTTT
* * *
6378243 TTTGTCACAACAAGGAACTCTTCCCATTTCTCTGTATAATCCTTCAGCTTAGAGTCTTTTTCAGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
*
6378308 AGACCATGGCCCTTTCTTCACATTTGT
66 AGACCATGGCCCTTTCTTCACATTTGC
*
6378335 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCTTCTTCAGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
**
6378400 AGACCATGGCCCTTTCTTGGCATTTGC
66 AGACCATGGCCCTTTCTTCACATTTGC
*
6378427 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTT--AGTCTTCTTCAGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
**
6378490 AGACCATGGCCCTTTCTTGGCATTTGC
66 AGACCATGGCCCTTTCTTCACATTTGC
* * *
6378517 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGCGTCTTCTTCAGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
6378582 AGACCATGGCCCTTTCTTCACATTTGC
66 AGACCATGGCCCTTTCTTCACATTTGC
* *
6378609 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCTTTCAGCTTAGAGTCTT-TT-AGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
*
6378672 AGACCATGGCCCTTTCTTCACATTTTC
66 AGACCATGGCCCTTTCTTCACATTTGC
* * * *
6378699 TTCGTCACAACAAGGAAATCTCCCCATTTCTCTCTATCATCCTTCAGCTTAGAGTCTTCTTC-GT
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAG-
*
6378763 GAGACCATGGCCCTTTTTTCACATTTGC
65 GAGACCATGGCCCTTTCTTCACATTTGC
* * *
6378791 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCTTTCAGCTTAGAGTCTTTTTCAGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
* *
6378856 AGACCATCGCCCTCTCTTCACATTTGC
66 AGACCATGGCCCTTTCTTCACATTTGC
*
6378883 TTTGTCACAACAAGGAACTCTTCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
6378948 AGACCATGGCCCTTTCTTCACATTTGC
66 AGACCATGGCCCTTTCTTCACATTTGC
*
6378975 TTTGTCACAACAAGGAACTCTTCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
6379040 AGACCATGGCCCTTTCTTCACATTTGC
66 AGACCATGGCCCTTTCTTCACATTTGC
*
6379067 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGA
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGA
6379120 TTTACTCACT
Statistics
Matches: 738, Mismatches: 41, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
90 170 0.23
91 5 0.01
92 562 0.76
93 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.36
Consensus pattern (92 bp):
TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
AGACCATGGCCCTTTCTTCACATTTGC
Found at i:6378552 original size:182 final size:183
Alignment explanation
Indices: 6378243--6379119 Score: 1420
Period size: 182 Copynumber: 4.8 Consensus size: 183
6378233 GAGTCATTTT
* * *
6378243 TTTGTCACAACAAGGAACTCTTCCCATTTCTCTGTATAATCCTTCAGCTTAGAGTCTTTTTCAGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTA-AGTCTTCTTCAGG
* *
6378308 AGACCATGGCCCTTTCTTCACATTTGTTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATG
65 AGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATA
**
6378373 ATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTGGCATTTGC
130 ATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGC
*
6378427 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTT-AGTCTTCTTCAGGA
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAAGTCTTCTTCAGGA
** * *
6378491 GACCATGGCCCTTTCTTGGCATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATGA
66 GACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAA
*
6378556 TCCTTCAGCTTAGCGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGC
131 TCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGC
* *
6378609 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCTTTCAGCTTAGAGTCTT-TT-AGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTA-AGTCTTCTTCAGG
* * * * *
6378672 AGACCATGGCCCTTTCTTCACATTTTCTTCGTCACAACAAGGAAATCTCCCCATTTCTCTCTATC
65 AGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATA
*
6378737 ATCCTTCAGCTTAGAGTCTTCTTC-GTGAGACCATGGCCCTTTTTTCACATTTGC
130 ATCCTTCAGCTTAGAGTCTTCTTCAG-GAGACCATGGCCCTTTCTTCACATTTGC
* * *
6378791 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCTTTCAGCTTAGAGTCTTTTTCAGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTA-AGTCTTCTTCAGG
* * *
6378856 AGACCATCGCCCTCTCTTCACATTTGCTTTGTCACAACAAGGAACTCTTCCCATTTCTCTATATA
65 AGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATA
6378921 ATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGC
130 ATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGC
*
6378975 TTTGTCACAACAAGGAACTCTTCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGG
1 TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTA-AGTCTTCTTCAGG
*
6379040 AGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATA
65 AGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATA
6379105 ATCCTTCAGCTTAGA
130 ATCCTTCAGCTTAGA
6379120 TTTACTCACT
Statistics
Matches: 646, Mismatches: 41, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
181 1 0.00
182 339 0.52
183 4 0.01
184 301 0.47
185 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.36
Consensus pattern (183 bp):
TTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAAGTCTTCTTCAGGA
GACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAA
TCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGC
Found at i:6378735 original size:274 final size:275
Alignment explanation
Indices: 6378243--6379119 Score: 1465
Period size: 274 Copynumber: 3.2 Consensus size: 275
6378233 GAGTCATTTT
* * *
6378243 TTTGTCACAACAAGGAACTCTTCCCATTTCTCTGTATAATCCTTCAGCTTAGAGTCTTTTTCAGG
1 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTTTTCAGG
* *
6378308 AGACCATGGCCCTTTCTTCACATTTGTTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATG
66 AGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATA
**
6378373 ATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTGGCATTTGCTTTGTCACAAC
131 ATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAC
*
6378438 AAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTT-AGTCTTCTTCAGGAGACCATGGCCC
196 AAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAAGTCTTCTTCAGGAGACCATGGCCC
**
6378502 TTTCTTGGCATTTGC
261 TTTCTTCACATTTGC
* * *
6378517 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGCGTCTTCTTCAGG
1 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTTTTCAGG
*
6378582 AGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATA
66 AGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATA
* * *
6378647 ATCTTTCAGCTTAGAGTCTT-TT-AGGAGACCATGGCCCTTTCTTCACATTTTCTTCGTCACAAC
131 ATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAC
* * *
6378710 AAGGAAATCTCCCCATTTCTCTCTATCATCCTTCAGCTTAGAGTCTTCTTC-GTGAGACCATGGC
196 AAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTA-AGTCTTCTTCAG-GAGACCATGGC
*
6378774 CCTTTTTTCACATTTGC
259 CCTTTCTTCACATTTGC
*
6378791 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCTTTCAGCTTAGAGTCTTTTTCAGG
1 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTTTTCAGG
* * *
6378856 AGACCATCGCCCTCTCTTCACATTTGCTTTGTCACAACAAGGAACTCTTCCCATTTCTCTATATA
66 AGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATA
6378921 ATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAC
131 ATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAC
*
6378986 AAGGAACTCTTCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCC
196 AAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTA-AGTCTTCTTCAGGAGACCATGGCC
6379051 CTTTCTTCACATTTGC
260 CTTTCTTCACATTTGC
6379067 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGA
1 TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGA
6379120 TTTACTCACT
Statistics
Matches: 560, Mismatches: 37, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
272 73 0.13
273 3 0.01
274 316 0.56
275 2 0.00
276 165 0.29
277 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.36
Consensus pattern (275 bp):
TTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTTTTCAGG
AGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATA
ATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAC
AAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAAGTCTTCTTCAGGAGACCATGGCCC
TTTCTTCACATTTGC
Found at i:6382347 original size:37 final size:37
Alignment explanation
Indices: 6382290--6382463 Score: 280
Period size: 37 Copynumber: 4.8 Consensus size: 37
6382280 TTTGAGTACT
6382290 TCTGATCAAG--ACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6382325 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6382362 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6382399 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
6382436 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
6382464 TAGCTTCAGC
Statistics
Matches: 132, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 10 0.08
37 122 0.92
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:6382535 original size:45 final size:46
Alignment explanation
Indices: 6382426--6382549 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
6382416 GTGATAAGTG
* *
6382426 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
6382472 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
6382517 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
6382550 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:6390008 original size:37 final size:37
Alignment explanation
Indices: 6389965--6390140 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
6389955 TTTGAGTACT
6389965 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6390002 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6390039 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
6390076 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
6390113 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
6390141 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:6390212 original size:45 final size:46
Alignment explanation
Indices: 6390103--6390226 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
6390093 GTGATAAGTG
* *
6390103 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
6390149 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
6390194 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
6390227 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:6392292 original size:30 final size:31
Alignment explanation
Indices: 6392245--6392306 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
6392235 TTAAAAGAAT
*
6392245 AATACAATATTATTAAGAAAAATATACCAAA
1 AATACAATATTATTAAGAAAAATAAACCAAA
*
6392276 AATA-AATA-TATATAAGATAAATAAACCAAA
1 AATACAATATTAT-TAAGAAAAATAAACCAAA
6392306 A
1 A
6392307 CAACACCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 3 0.11
30 21 0.75
31 4 0.14
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (31 bp):
AATACAATATTATTAAGAAAAATAAACCAAA
Found at i:6394779 original size:22 final size:22
Alignment explanation
Indices: 6394732--6394780 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
6394722 AAAATGTAAT
*
6394732 TTTTA-AAGAATTAAATTAAAA
1 TTTTATAAGAATTAAATCAAAA
*
6394753 TTTTATAAGGATTAAATCAAAA
1 TTTTATAAGAATTAAATCAAAA
6394775 TTTTAT
1 TTTTAT
6394781 CATTTTTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (22 bp):
TTTTATAAGAATTAAATCAAAA
Found at i:6396915 original size:3 final size:3
Alignment explanation
Indices: 6396909--6396942 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6396899 GCCACCACCA
6396909 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
6396943 TGTTCATAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:6402946 original size:17 final size:17
Alignment explanation
Indices: 6402924--6402956 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6402914 AAATATTTTC
6402924 CTAAATT-TTATTTTTAT
1 CTAAATTATT-TTTTTAT
6402941 CTAAATTATTTTTTTA
1 CTAAATTATTTTTTTA
6402957 GTATTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
CTAAATTATTTTTTTAT
Found at i:6407382 original size:26 final size:26
Alignment explanation
Indices: 6407353--6407434 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
6407343 TGGTACAAAT
*
6407353 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
6407379 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
6407405 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
6407431 TGAT
1 TGAT
6407435 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:6413417 original size:30 final size:30
Alignment explanation
Indices: 6413381--6413438 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
6413371 AGTCATTATT
6413381 TGTGACAAAGGATAGGTATATGGTAGATAA
1 TGTGACAAAGGATAGGTATATGGTAGATAA
6413411 TGTGACAAAGGATAGGTATATGGTAGAT
1 TGTGACAAAGGATAGGTATATGGTAGAT
6413439 TTTGGCAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.03, G:0.31, T:0.28
Consensus pattern (30 bp):
TGTGACAAAGGATAGGTATATGGTAGATAA
Found at i:6415644 original size:24 final size:25
Alignment explanation
Indices: 6415617--6415665 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
6415607 CTTTTTTTAT
*
6415617 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
6415641 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
6415666 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:6415658 original size:25 final size:23
Alignment explanation
Indices: 6415629--6415693 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
6415619 AATAAAAAAC
*
6415629 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
6415654 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
6415675 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
6415694 AAAAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:6415692 original size:19 final size:20
Alignment explanation
Indices: 6415655--6415693 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6415645 TCAAATACAT
6415655 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
6415675 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
6415694 AAAAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:6422852 original size:3 final size:3
Alignment explanation
Indices: 6422844--6422888 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
6422834 ATCAATAAAC
6422844 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6422889 CAAGGGTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Done.