Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3669133
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 19
Found at i:10309 original size:16 final size:16
Alignment explanation
Indices: 10290--10324 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10280 AAAAAAAAGG
10290 AAATGAAAAA-AATGAA
1 AAATGAAAAAGAA-GAA
10306 AAATGAAAAAGAAGAA
1 AAATGAAAAAGAAGAA
10322 AAA
1 AAA
10325 ATAAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (16 bp):
AAATGAAAAAGAAGAA
Found at i:10323 original size:15 final size:14
Alignment explanation
Indices: 10281--10323 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
10271 ACTTAAAAAA
*
10281 AAAAAAAGGAAATG
1 AAAAAAAGAAAATG
10295 AAAAAAATGAAAAATG
1 AAAAAAA-G-AAAATG
10311 AAAAAGAAGAAAA
1 AAAAA-AAGAAAA
10324 AATAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.28
15 5 0.20
16 11 0.44
17 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (14 bp):
AAAAAAAGAAAATG
Found at i:11496 original size:141 final size:141
Alignment explanation
Indices: 11278--11548 Score: 411
Period size: 141 Copynumber: 1.9 Consensus size: 141
11268 AACATCAACT
11278 GACCAGATCTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
1 GACCAGATCTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
* ** *
11343 GGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCATC
66 GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
11408 TACCCTTAGAC
131 TACCCTTAGAC
* * *
11419 GACCAGA-CTTCCTCATCACGTAGGAGCCGTGTCAACCTTA-GATAATCAGCCGTCCTCATCACG
1 GACCAGATC-TCCTCATCACGTAGGAG-AGTGTCAACATTAGGATAACCAGCCGTCCTCATCACG
* * * *
11482 TAGGAACCGAGTTATCACCCTTCTTAAAGATGACCAGAACTCTTCATCGCGTATGAGCCGTGTCA
64 TAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCA
11547 TC
129 TC
11549 CCTTGACCAG
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
140 1 0.01
141 105 0.90
142 11 0.09
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (141 bp):
GACCAGATCTCCTCATCACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
TACCCTTAGAC
Found at i:11798 original size:3 final size:3
Alignment explanation
Indices: 11792--11828 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
11782 TTTATTTTTT
11792 TTA TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
11829 ATTTTACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:25761 original size:2 final size:2
Alignment explanation
Indices: 25756--25793 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
25746 TACCACACAC
25756 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25794 TAATATTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26174 original size:16 final size:16
Alignment explanation
Indices: 26127--26176 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
26117 AAAATAATTT
26127 GAATTGAAAGTAACCC
1 GAATTGAAAGTAACCC
* *
26143 GAACT-AAATTTAACCC
1 GAATTGAAA-GTAACCC
*
26159 GAATTGAAAGTCACCC
1 GAATTGAAAGTAACCC
26175 GA
1 GA
26177 TCCAAAAGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 3 0.11
16 21 0.78
17 3 0.11
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (16 bp):
GAATTGAAAGTAACCC
Found at i:26189 original size:32 final size:32
Alignment explanation
Indices: 26127--26197 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
26117 AAAATAATTT
* **
26127 GAATTGAAAGTAACCCGAACTAAATTTAACCC
1 GAATTGAAAGTAACCCGAACCAAAAGTAACCC
* *
26159 GAATTGAAAGTCACCCGATCCAAAAGTAACCC
1 GAATTGAAAGTAACCCGAACCAAAAGTAACCC
*
26191 AAATTGA
1 GAATTGA
26198 TATTAATCCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.20
Consensus pattern (32 bp):
GAATTGAAAGTAACCCGAACCAAAAGTAACCC
Found at i:26747 original size:2 final size:2
Alignment explanation
Indices: 26742--26802 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
26732 AACAAAACCC
26742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26784 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
26803 GTTTAGCATC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:28676 original size:3 final size:3
Alignment explanation
Indices: 28670--28714 Score: 72
Period size: 3 Copynumber: 14.3 Consensus size: 3
28660 AATAATAATA
28670 ATT ATT ATT ATT ATT ATT ATAT ATAT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT A
28715 AAAAAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.83
4 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:36197 original size:7 final size:6
Alignment explanation
Indices: 36184--36298 Score: 67
Period size: 6 Copynumber: 18.7 Consensus size: 6
36174 CTCATCCAGC
* *
36184 AAAGAA AGAAGAAA AAAGAA AAAAAA AACAAAGA AAAGAA AAAGAA AAAG-A
1 AAAGAA A-AAG-AA AAAGAA AAAGAA AA-AGA-A AAAGAA AAAGAA AAAGAA
* * *
36235 AAAGAA AAAAAA AAGATGAA AAAG-G AAA-AA TAAGAAA AAAGAA AAA-AA
1 AAAGAA AAAGAA AA-A-GAA AAAGAA AAAGAA AAAG-AA AAAGAA AAAGAA
***
36283 GGGGAA AAAGAA AAAG
1 AAAGAA AAAGAA AAAG
36299 GGGAGAAATT
Statistics
Matches: 84, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
5 12 0.14
6 44 0.52
7 18 0.21
8 10 0.12
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:36233 original size:17 final size:17
Alignment explanation
Indices: 36184--36298 Score: 91
Period size: 17 Copynumber: 6.9 Consensus size: 17
36174 CTCATCCAGC
36184 AAAGAAAGAAGAAAAAAGA
1 AAAGAAA-AAG-AAAAAGA
*
36203 AAA-AAAAA-ACAAAGA
1 AAAGAAAAAGAAAAAGA
36218 AAAGAAAAAGAAAAAGA
1 AAAGAAAAAGAAAAAGA
36235 AAAGAAAAA-AAAAAG-
1 AAAGAAAAAGAAAAAGA
* *
36250 -ATGAAAAAGGAAAA-A
1 AAAGAAAAAGAAAAAGA
*
36265 TAAGAAAAAAGAAAAA-A
1 AAAG-AAAAAGAAAAAGA
**
36282 AGGGGAAAAAGAAAAAG
1 A-AAGAAAAAGAAAAAG
36299 GGGAGAAATT
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
14 7 0.09
15 13 0.16
16 13 0.16
17 39 0.49
18 4 0.05
19 3 0.04
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAGAAAAAGA
Found at i:36241 original size:37 final size:36
Alignment explanation
Indices: 36188--36282 Score: 120
Period size: 37 Copynumber: 2.6 Consensus size: 36
36178 TCCAGCAAAG
36188 AAAGAAGAAAAAAGAAAAAAAAAACA-AAGAAAAGAA
1 AAAGAAGAAAAAAGAAAAAAAAAACAGAA-AAAAGAA
* * *
36224 AAAGAAAAAGAAAAGAAAAAAAAAAGATGAAAAAGGAA
1 AAAGAAGAA-AAAAGAAAAAAAAAACA-GAAAAAAGAA
*
36262 AAATAAGAAAAAAGAAAAAAA
1 AAAGAAGAAAAAAGAAAAAAA
36283 GGGGAAAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
36 8 0.16
37 28 0.55
38 13 0.25
39 2 0.04
ACGTcount: A:0.82, C:0.01, G:0.15, T:0.02
Consensus pattern (36 bp):
AAAGAAGAAAAAAGAAAAAAAAAACAGAAAAAAGAA
Found at i:36249 original size:22 final size:22
Alignment explanation
Indices: 36192--36281 Score: 78
Period size: 22 Copynumber: 3.9 Consensus size: 22
36182 GCAAAGAAAG
36192 AAGAAAAAAGAAAA-AAAAAACA
1 AAGAAAAAA-AAAAGAAAAAACA
*
36214 AAGAAAAGAAAAAGAAAAAGA-A
1 AAGAAAAAAAAAAGAAAAA-ACA
*
36236 AAGAAAAAAAAAAGATGAAAAAGGA
1 AAGAAAAAAAAAAGA--AAAAA-CA
36261 AA-AATAAGAAAAAAGAAAAAA
1 AAGAA-AA-AAAAAAGAAAAAA
36282 AGGGGAAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.07
22 28 0.48
23 2 0.03
24 11 0.19
25 5 0.09
26 8 0.14
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.02
Consensus pattern (22 bp):
AAGAAAAAAAAAAGAAAAAACA
Found at i:36263 original size:6 final size:5
Alignment explanation
Indices: 36184--36246 Score: 53
Period size: 5 Copynumber: 12.6 Consensus size: 5
36174 CTCATCCAGC
*
36184 AAAG- AAAGA AGAA-A AAAGA AAA-A AAAAA CAAAGA AAAGAA AAAGAA
1 AAAGA AAAGA A-AAGA AAAGA AAAGA AAAGA -AAAGA AAAG-A AAAG-A
36230 AAAGA AAAGA AAA-A AAA
1 AAAGA AAAGA AAAGA AAA
36247 AAGATGAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
4 14 0.27
5 21 0.40
6 17 0.33
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:36282 original size:26 final size:24
Alignment explanation
Indices: 36184--36297 Score: 83
Period size: 26 Copynumber: 4.7 Consensus size: 24
36174 CTCATCCAGC
*
36184 AAAG-AAAGAAGAAAAAAG-AAAA
1 AAAGAAAAAAAGAAAAAAGAAAAA
*
36206 AAA-AAACAAAGAAAAGAA-AAAGAA
1 AAAGAAAAAAAGAAAA-AAGAAA-AA
* *
36230 AAAGAAAAGAAAAAAAAAAGATGAAA
1 AAAGAAAA-AAAGAAAAAAGA-AAAA
*
36256 AAGGAAAAATAAGAAAAAAGAAAAA
1 AAAGAAAAA-AAGAAAAAAGAAAAA
* **
36281 AAGGGGAAAAAGAAAAA
1 AAAGAAAAAAAGAAAAA
36298 GGGGAGAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
22 12 0.16
23 4 0.05
24 13 0.18
25 16 0.22
26 27 0.37
27 1 0.01
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.02
Consensus pattern (24 bp):
AAAGAAAAAAAGAAAAAAGAAAAA
Found at i:36290 original size:34 final size:34
Alignment explanation
Indices: 36184--36297 Score: 97
Period size: 36 Copynumber: 3.3 Consensus size: 34
36174 CTCATCCAGC
* * *
36184 AAAGAAAGAAGAA-AAAAGAAAAAAAAAACAAAGAA
1 AAAGAAA-AATAAGAAAAGAAAAAAAAAA-GAGGAA
* * *
36219 AAGAAAAAGAAAAAGAAAAGAAAAAAAAAAGATGAA
1 AA-AGAAA-AATAAGAAAAGAAAAAAAAAAGAGGAA
* *
36255 AAAGGAAAAATAAGAAAA-AAGAAAAAAAGGGGAA
1 AAA-GAAAAATAAGAAAAGAAAAAAAAAAGAGGAA
36289 AAAGAAAAA
1 AAAGAAAAA
36298 GGGGAGAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
33 6 0.09
34 16 0.24
35 12 0.18
36 18 0.27
37 15 0.22
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.02
Consensus pattern (34 bp):
AAAGAAAAATAAGAAAAGAAAAAAAAAAGAGGAA
Found at i:38575 original size:114 final size:113
Alignment explanation
Indices: 38420--38758 Score: 554
Period size: 114 Copynumber: 3.0 Consensus size: 113
38410 AAGTGCCATG
*
38420 TGCTCATAGTAGAAATAAGAAGACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 TGCTCATAGTAGAAATAAGGAGACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
38485 GGTTTGATATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
66 GGTTTGATATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
* *
38533 TGCTCGTAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGGAG-ACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
38598 TGGTTT-AGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
65 TGGTTTGA-TATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
*
38647 TGCTCATAGTAGAAATAAAGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGGAGA-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * *
38712 TGGTTCGGTAGGAACCCCAGAACCAATCATTAGAATTGAAAGATGAA
65 TGGTTTGATATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
38759 CTGCATGATC
Statistics
Matches: 210, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
113 21 0.10
114 189 0.90
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (113 bp):
TGCTCATAGTAGAAATAAGGAGACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GGTTTGATATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATT
Found at i:40934 original size:40 final size:40
Alignment explanation
Indices: 40876--40955 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
40866 TGAGCAGAAG
*
40876 CCACATAAAAGGAAGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAAAAAAGGAAGAATGTGTTGTCAAGTGTTTTACATC
*
40916 CCACAAAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAAAAAAGGAAGAATGTGTTGTCAAGTGTTTTACATC
40956 TGAGCTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (40 bp):
CCACAAAAAAGGAAGAATGTGTTGTCAAGTGTTTTACATC
Found at i:40992 original size:90 final size:91
Alignment explanation
Indices: 40822--41001 Score: 229
Period size: 90 Copynumber: 2.0 Consensus size: 91
40812 TGAGCAGAAG
* * *
40822 CCACATAAAAGGATGAATGTATTGTCAAATGCTTTACGAACATCTGAGCAGAAGCCACATAAAAG
1 CCACAAAAAAGGATGAATGTATTGTCAAATGCTTTA--AACATCTGAGCAGAAACCACACAAAAG
40887 GAAGAATGTGTTGTCAAGTGTTTTACATC
64 GAAGAATGTGTTGTCAA-TGTTTTACATC
* * * * * * *
40916 CCACAAAAAAGGATGAATGTGTTGTCAAGTG-TTT-TACATCTGAGCTGAAACCACACGAGATGA
1 CCACAAAAAAGGATGAATGTATTGTCAAATGCTTTAAACATCTGAGCAGAAACCACACAAAAGGA
40979 AGAATGTGTTGTCAATGTTTTAC
66 AGAATGTGTTGTCAATGTTTTAC
41002 GAACATCTGA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
89 8 0.11
90 37 0.49
93 3 0.04
94 28 0.37
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (91 bp):
CCACAAAAAAGGATGAATGTATTGTCAAATGCTTTAAACATCTGAGCAGAAACCACACAAAAGGA
AGAATGTGTTGTCAATGTTTTACATC
Found at i:41023 original size:53 final size:53
Alignment explanation
Indices: 40923--41059 Score: 147
Period size: 53 Copynumber: 2.6 Consensus size: 53
40913 ATCCCACAAA
* *
40923 AAAGGATGAATGTGTTGTCAAGTGTTTT----ACATCTGAGCTGAAACCACACG
1 AAAGGAAGAATGTGTTGTCAA-TGTTTTACGAACATCTGAGCAGAAACCACACG
* * * *
40973 AGATGAAGAATGTGTTGTCAATGTTTTACGAACATCTGAGCAGAAGCCACAGG
1 AAAGGAAGAATGTGTTGTCAATGTTTTACGAACATCTGAGCAGAAACCACACG
* * *
41026 AAAGGATGAATGCGCTGTCAAATGTTTTACGAAC
1 AAAGGAAGAATGTGTTGTC-AATGTTTTACGAAC
41060 CTGCTATTCT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
49 6 0.08
50 18 0.25
53 33 0.46
54 14 0.20
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (53 bp):
AAAGGAAGAATGTGTTGTCAATGTTTTACGAACATCTGAGCAGAAACCACACG
Found at i:42008 original size:113 final size:113
Alignment explanation
Indices: 41812--42590 Score: 1039
Period size: 113 Copynumber: 7.0 Consensus size: 113
41802 GCAAAGATTC
* * *
41812 AATCCGTCACTTGATGGGTCAGCTTTTCCAGAAAAAG-TCAT-ATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
41875 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
66 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
*
41923 AATCCATCATTTGATGGATCAGATTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
41988 AGGAAGAAGAAATCCATAAT--G-AGAA-TTGTTCAACCTTTTGCTCA
66 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
* *
42032 AATCCATCATTT--T-GATCAGCTTTTCCAGAAAAAAGTTCATACTGAGAAGAAATCATCTGAAG
1 AATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTGAAG
42094 AAGGAAGAGAGAAA-T-ATAATGAGAAG-ATTTGTTCAACC-TTTGCTCA
65 AAGGAAGA-AGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
*
42140 AATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATTTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * **
42205 AGGAAGAAGAAATTCATAATGAGAAGAAATTGTTCAACCTTTTGTTTG
66 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
* * * *
42253 AATTCATCACTTGATAGATCAGCTTTTCCAGAAAAAATTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * * **
42318 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAGCCTTTTGTTTG
66 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
* * ** *
42366 AATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAA
1 AATCCATCATTTGATGGATCAGCTTTTCCA--GAAAAAGTTCATAATGAGAAGAACTCATCTGAA
* * **
42431 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTG
64 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-GCTCA
* * * * * *
42481 AATTCATCACTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * * *
42546 AAGAAGAAGAAGTTCATAATGAGAA-AAGCTTGTTCGACCTTTTGC
66 AGGAAGAAGAAATTCATAATGAGAAGAA-TTTGTTCAACCTTTTGC
42591 ATAACTCTAT
Statistics
Matches: 605, Mismatches: 43, Indels: 38
0.88 0.06 0.06
Matches are distributed among these distances:
106 19 0.03
107 40 0.07
108 27 0.04
109 48 0.08
110 44 0.07
111 60 0.10
112 17 0.03
113 244 0.40
114 10 0.02
115 96 0.16
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
Found at i:42589 original size:228 final size:225
Alignment explanation
Indices: 41818--42590 Score: 1081
Period size: 228 Copynumber: 3.5 Consensus size: 225
41808 ATTCAATCCG
*
41818 TCACTTGATGGGTCAGCTTTTCCAGAAAAAG-TCAT-ATGAGAAGAACTCATCTGAAGAAGGAAG
1 TCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
*
41881 AAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAG-
66 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGC
*
41945 ATTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATCCATAAT--
131 A-TTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGA
** *
42008 G-AGAATTGTTCAACCTTTTGCTCAAATCCA
195 GAAGAATTGTTCAACCTTTTGCTTGAATTCA
* * *
42038 TCA-TT--TTGATCAGCTTTTCCAGAAAAAAGTTCATACTGAGAAGAAATCATCTGAAGAAGGAA
1 TCACTTGATGGATCAGCTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
42100 GAGAGAA-AT-ATAATGAGAAG-ATTTGTTCAACC-TTTGCTCAAATCCATCATTTGATGGATCA
65 GA-AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCA
* *
42161 GCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGAAATTCATAATG
129 GCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
*
42226 AGAAGAAATTGTTCAACCTTTTGTTTGAATTCA
194 AGAAG-AATTGTTCAACCTTTTGCTTGAATTCA
* *
42259 TCACTTGATAGATCAGCTTTTCCAGAAAAAATTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 TCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* * ** *
42324 AAGAAGTTCATAATGAGAAGAATTTGTTCAGCCTTTTGTTTGAATTCATCATTTGATGGATCAGC
66 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGC
** * *
42389 ATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
131 ATTTCCA--GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
42454 AGAAGAACTTGTTCAA-CTTTTCGCTTGAATTCA
194 AGAAGAA-TTGTTCAACCTTTT-GCTTGAATTCA
* * * * *
42487 TCACTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG
1 TCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* *
42552 AAGAAGTTCATAATGAGAA-AAGCTTGTTCGACCTTTTGC
66 AAGAAGTTCATAATGAGAAGAA-TTTGTTCAACCTTTTGC
42591 ATAACTCTAT
Statistics
Matches: 492, Mismatches: 40, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
217 104 0.21
218 18 0.04
219 18 0.04
220 33 0.07
221 30 0.06
222 6 0.01
223 39 0.08
224 27 0.05
225 11 0.02
226 31 0.06
227 9 0.02
228 166 0.34
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (225 bp):
TCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGC
ATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
AAGAATTGTTCAACCTTTTGCTTGAATTCA
Found at i:42656 original size:17 final size:17
Alignment explanation
Indices: 42634--42692 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
42624 CAACATTTCC
42634 AGAAGAAGTTCACAATG
1 AGAAGAAGTTCACAATG
*
42651 AGAAGAA-CTCATCTGAA-G
1 AGAAGAAGTTCA-C--AATG
42669 AAGAAGAAGTTCACAATG
1 -AGAAGAAGTTCACAATG
42687 AGAAGA
1 AGAAGA
42693 GCTTGTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 3 0.09
17 16 0.47
18 2 0.06
19 10 0.29
20 3 0.09
ACGTcount: A:0.49, C:0.12, G:0.24, T:0.15
Consensus pattern (17 bp):
AGAAGAAGTTCACAATG
Found at i:42937 original size:3 final size:3
Alignment explanation
Indices: 42931--42982 Score: 86
Period size: 3 Copynumber: 17.0 Consensus size: 3
42921 ACCCATTTTT
*
42931 TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
42977 TTA TTA
1 TTA TTA
42983 AAAAAATAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:44021 original size:220 final size:216
Alignment explanation
Indices: 43626--44060 Score: 834
Period size: 220 Copynumber: 2.0 Consensus size: 216
43616 CATTTGGTGT
43626 AAAATGATATTTTCCCCACCGGATGCTGTGGCCGGCGGTGGGGATACGGCGTCAGACGGCTGCCA
1 AAAATGATATTTTCCCCACCGGATGCTGTGGCCGGCGGTGGGGATACGGCGTCAGACGGCTGCCA
43691 GCGATGACCGGCTTCCCTCAGCTAGAGAGAAGCGAGAGAGAATTCTCTTCTCTCTCAGTTAGAGA
66 GCGATGACCGGCTTCCCTCAGCTAGAGAGAAGCGAGAGAGAATTCTCTTCTCTCTCAGTTAGAGA
43756 GAGAAGAGAAAGAAGAGAAATGAAACGCTGGCCCTTCGGGCCAGCTGGAAGGGGATTATATACCC
131 GAGAAGAGAAAGAAGAGAAATGAAACGCTGGCCCTTCGGGCCAGCTGGAAGGGGATTATATACCC
43821 CTTCCCAAACGACGCCGTTTA
196 CTTCCCAAACGACGCCGTTTA
43842 AAAATGATATTTTCCGGCCACCGGATGCTGTGGCCGGCGGTGGGGATTACGGCGTCAGACGGCTG
1 AAAATGATATTTTCC--CCACCGGATGCTGTGGCCGGCGGTGGGGA-TACGGCGTCAGACGGCTG
43907 CCAGCCGATGACCGGCTTCCCTCAGCTAGAGAGAAGCGAGAGAGAATTCTCTTCTCTCTCAGTTA
63 CCAG-CGATGACCGGCTTCCCTCAGCTAGAGAGAAGCGAGAGAGAATTCTCTTCTCTCTCAGTTA
43972 GAGAGAGAAGAGAAAGAAGAGAAATGAAACGCTGGCCCTTCGGGCCAGCTGGAAGGGGATTATAT
127 GAGAGAGAAGAGAAAGAAGAGAAATGAAACGCTGGCCCTTCGGGCCAGCTGGAAGGGGATTATAT
44037 ACCCCTTCCCAAACGACGCCGTTT
192 ACCCCTTCCCAAACGACGCCGTTT
44061 TGGGGAGGGG
Statistics
Matches: 215, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
216 15 0.07
218 29 0.13
219 22 0.10
220 149 0.69
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (216 bp):
AAAATGATATTTTCCCCACCGGATGCTGTGGCCGGCGGTGGGGATACGGCGTCAGACGGCTGCCA
GCGATGACCGGCTTCCCTCAGCTAGAGAGAAGCGAGAGAGAATTCTCTTCTCTCTCAGTTAGAGA
GAGAAGAGAAAGAAGAGAAATGAAACGCTGGCCCTTCGGGCCAGCTGGAAGGGGATTATATACCC
CTTCCCAAACGACGCCGTTTA
Found at i:46256 original size:18 final size:18
Alignment explanation
Indices: 46229--46263 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46219 TTAAAAAATA
*
46229 GAGAATTTTATTAAAGTC
1 GAGAACTTTATTAAAGTC
46247 GAGAACTTTATTAAAGT
1 GAGAACTTTATTAAAGT
46264 AACTTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (18 bp):
GAGAACTTTATTAAAGTC
Found at i:47245 original size:2 final size:2
Alignment explanation
Indices: 47238--47306 Score: 124
Period size: 2 Copynumber: 35.5 Consensus size: 2
47228 ATAGGTTTTA
47238 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47279 AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47307 AAGGGAGACA
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 63 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:49881 original size:6 final size:6
Alignment explanation
Indices: 49870--49909 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
49860 AGTATAAGAA
* *
49870 TATATG TATATG TATATG CATATG TATATT TATATG TATA
1 TATATG TATATG TATATG TATATG TATATG TATATG TATA
49910 CCTTTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:51412 original size:20 final size:20
Alignment explanation
Indices: 51376--51438 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
51366 TGTTGAGGGC
51376 GAACTTAAAATT-AAGGGGAT
1 GAAC-TAAAATTCAAGGGGAT
* *
51396 GAACTAAAATTCTAGGGGGT
1 GAACTAAAATTCAAGGGGAT
51416 GAACTAAAATTCCAAGGGG-T
1 GAACTAAAATT-CAAGGGGAT
51436 GAA
1 GAA
51439 ACTAGGGACG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 7 0.18
20 25 0.66
21 6 0.16
ACGTcount: A:0.41, C:0.10, G:0.27, T:0.22
Consensus pattern (20 bp):
GAACTAAAATTCAAGGGGAT
Found at i:52641 original size:19 final size:20
Alignment explanation
Indices: 52619--52670 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
52609 TAGGATAAAG
52619 ATAAAAAG-AAAATAGATAA
1 ATAAAAAGTAAAATAGATAA
* *
52638 ATAAATGAGTAAAATATATAA
1 ATAAA-AAGTAAAATAGATAA
52659 A-AAAAAGTAAAA
1 ATAAAAAGTAAAA
52671 GCATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 5 0.18
21 11 0.39
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (20 bp):
ATAAAAAGTAAAATAGATAA
Found at i:52770 original size:2 final size:2
Alignment explanation
Indices: 52746--52785 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
52736 AAAATAGGAA
* *
52746 AT AT AT AA AT AT AA AT AT GAT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT A
52786 ATAACACTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (2 bp):
AT
Found at i:52770 original size:21 final size:21
Alignment explanation
Indices: 52737--52784 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
52727 TATACATGTA
*
52737 AAATAGGAAATATATAAATAT
1 AAATATGAAATATATAAATAT
* *
52758 AAATATGATATATATATATAT
1 AAATATGAAATATATAAATAT
*
52779 ATATAT
1 AAATAT
52785 AATAACACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (21 bp):
AAATATGAAATATATAAATAT
Found at i:54316 original size:106 final size:106
Alignment explanation
Indices: 54025--54869 Score: 1120
Period size: 106 Copynumber: 8.0 Consensus size: 106
54015 GCATTGTTCT
* * * **
54025 GAGTCCAATATCCTCCG-TCATGAAGTTGAAATTAGCTCTGGAACCT-GGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCT-GAAATTGGGAAATTGTTTGTTGAC
* * * *
54088 AACCAGTC-GTTCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* **
54131 GAGTCCAATATCCTTCGCTGTGAAATTGAAATTGAATCTG-AA-T--GAAA-T-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * * * *
54190 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGCCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * * * *
54232 G-GTTCAAGATCCTTCGCTGAGAAGTTAAAATTGGCTCTAAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
54296 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
54337 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGTAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
54402 CCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * * *
54443 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
54508 CCAGCGGTCCCTTCGTCGTGAAGTTTAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
54549 GAGTCCAATATCCTTCTCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTGTTGACA
*
54613 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
54655 GAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
54720 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
54761 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * * *
54825 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
54866 GAGT
1 GAGT
54870 GGCATGATAT
Statistics
Matches: 651, Mismatches: 76, Indels: 25
0.87 0.10 0.03
Matches are distributed among these distances:
99 1 0.00
100 72 0.11
101 5 0.01
102 5 0.01
103 1 0.00
104 4 0.01
105 56 0.09
106 501 0.77
107 6 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:56361 original size:28 final size:26
Alignment explanation
Indices: 56326--56410 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 26
56316 TTTTTGTCCC
56326 TTTTTCTTTTTGATTTTTGTTCTTTCTT
1 TTTTTCTTTTTG-TTTTT-TTCTTTCTT
*
56354 TTTTTC-TTTTGTTTCTTTTTTTTCTT
1 TTTTTCTTTTTGTTT-TTTTCTTTCTT
* *
56380 TTTTTTTCTTTTGCTTCTTTTCTTT-TT
1 TTTTTCT-TTTTG-TTTTTTTCTTTCTT
56407 TTTT
1 TTTT
56411 CTTGATTGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
26 16 0.33
27 13 0.27
28 18 0.37
29 2 0.04
ACGTcount: A:0.01, C:0.12, G:0.05, T:0.82
Consensus pattern (26 bp):
TTTTTCTTTTTGTTTTTTTCTTTCTT
Found at i:56374 original size:19 final size:18
Alignment explanation
Indices: 56326--56410 Score: 68
Period size: 19 Copynumber: 4.6 Consensus size: 18
56316 TTTTTGTCCC
56326 TTTTTCTTTTTGATT-TTTGT
1 TTTTTCTTTTT--TTCTTT-T
*
56346 TCTTTCTTTTTTTC-TTT
1 TTTTTCTTTTTTTCTTTT
*
56363 TGTTTCTTTTTTTTCTTTT
1 TTTTTC-TTTTTTTCTTTT
*
56382 TTTTTCTTTTGCTTCTTTT
1 TTTTTCTTTT-TTTCTTTT
56401 CTTTTT-TTTT
1 -TTTTTCTTTT
56411 CTTGATTGGA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
17 6 0.11
18 16 0.29
19 19 0.34
20 15 0.27
ACGTcount: A:0.01, C:0.12, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTTTTCTTTT
Found at i:56400 original size:24 final size:24
Alignment explanation
Indices: 56340--56413 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 24
56330 TCTTTTTGAT
56340 TTTTG-TTC-TTTCTTTTTTTCTT-
1 TTTTGCTTCTTTTCTTTTTTT-TTC
* *
56362 TTGTTTCTTTTTTTTCTTTTTTTTTC
1 TT-TTGC-TTCTTTTCTTTTTTTTTC
56388 TTTTGCTTCTTTTCTTTTTTTTTC
1 TTTTGCTTCTTTTCTTTTTTTTTC
56412 TT
1 TT
56414 GATTGGATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 2 0.05
23 2 0.05
24 19 0.44
25 7 0.16
26 13 0.30
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (24 bp):
TTTTGCTTCTTTTCTTTTTTTTTC
Found at i:56409 original size:9 final size:9
Alignment explanation
Indices: 56326--56410 Score: 68
Period size: 9 Copynumber: 9.2 Consensus size: 9
56316 TTTTTGTCCC
56326 TTTTTCTTT
1 TTTTTCTTT
56335 TTGATTT-TTGT
1 TT--TTTCTT-T
*
56346 TCTTTC-TT
1 TTTTTCTTT
56354 TTTTTCTTT
1 TTTTTCTTT
*
56363 TGTTTCTTT
1 TTTTTCTTT
56372 TTTTTCTTTT
1 TTTTTC-TTT
56382 TTTTTCTTT
1 TTTTTCTTT
**
56391 TGCTTCTTT
1 TTTTTCTTT
56400 TCTTTT-TTT
1 T-TTTTCTTT
56409 TT
1 TT
56411 CTTGATTGGA
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
8 7 0.11
9 36 0.59
10 13 0.21
11 5 0.08
ACGTcount: A:0.01, C:0.12, G:0.05, T:0.82
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:56743 original size:14 final size:14
Alignment explanation
Indices: 56724--56756 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
56714 ATGCATGATA
*
56724 GAATTATTTCGGAT
1 GAATTATTTCAGAT
56738 GAATTATTTCAGAT
1 GAATTATTTCAGAT
56752 GAATT
1 GAATT
56757 CTTCTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (14 bp):
GAATTATTTCAGAT
Found at i:61052 original size:19 final size:20
Alignment explanation
Indices: 61030--61081 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
61020 TAGGATAAAG
61030 ATAAAAAG-AAAATAGATAA
1 ATAAAAAGTAAAATAGATAA
* *
61049 ATAAATGAGTAAAATATATAA
1 ATAAA-AAGTAAAATAGATAA
61070 A-AAAAAGTAAAA
1 ATAAAAAGTAAAA
61082 GCATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 5 0.18
21 11 0.39
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (20 bp):
ATAAAAAGTAAAATAGATAA
Found at i:61171 original size:2 final size:2
Alignment explanation
Indices: 61158--61204 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
61148 AAAATAAGAA
*
61158 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61200 AT AT A
1 AT AT A
61205 ATAACACTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:63260 original size:19 final size:19
Alignment explanation
Indices: 63236--63279 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
63226 TCTACAGTTG
*
63236 TCGTTGCGATTTTTCAAAT
1 TCGTTGCGATTTTCCAAAT
63255 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
63274 TCGTTG
1 TCGTTG
63280 TGATAGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:63992 original size:19 final size:19
Alignment explanation
Indices: 63968--64033 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
63958 TTAACTATCA
63968 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
63987 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
*
64009 CAACGAATTTGGAAAATCT
1 CAACGAATTTGGAAAATCG
64028 CAACGA
1 CAACGA
64034 CAACTGTAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 18 0.51
20 2 0.06
21 2 0.06
22 13 0.37
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:64010 original size:22 final size:22
Alignment explanation
Indices: 63983--64054 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
63973 AATTTGGAAA
63983 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
64005 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
64024 ATCTCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
64046 ATCGCAACG
1 ATCGCAACG
64055 CGAAATGGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 12 0.32
20 2 0.05
21 2 0.05
22 21 0.57
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:64018 original size:41 final size:41
Alignment explanation
Indices: 63961--64054 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
63951 TTTTTTTTTA
*
63961 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
*
64002 ACTATCGCAACGAATTTGGAAAATCTCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
64043 ACTATCGCAACG
1 ACTATCGCAACG
64055 CGAAATGGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:64092 original size:21 final size:21
Alignment explanation
Indices: 64066--64119 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
64056 GAAATGGAAA
64066 ATCACAACGCGATTTTCAACT
1 ATCACAACGCGATTTTCAACT
64087 ATCACAACGCGATTTTCAACT
1 ATCACAACGCGATTTTCAACT
**
64108 ATCGTAACGCGA
1 ATCACAACGCGA
64120 AATGCAACGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (21 bp):
ATCACAACGCGATTTTCAACT
Found at i:68697 original size:23 final size:23
Alignment explanation
Indices: 68663--68772 Score: 125
Period size: 23 Copynumber: 4.9 Consensus size: 23
68653 GAGTCGAGGG
68663 TTCTACGCGGTCCTTCGGGACAA
1 TTCTACGCGGTCCTTCGGGACAA
* * * *
68686 TTCTACGTGGTCCTACGGGATAT
1 TTCTACGCGGTCCTTCGGGACAA
* * *
68709 TTATATGCGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAA
68732 TTCTACGCGGTCCTTCGGGAC-A
1 TTCTACGCGGTCCTTCGGGACAA
* *
68754 -TCTATGTGGTCCTTCGGGA
1 TTCTACGCGGTCCTTCGGGA
68773 TATTCTATGT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 17 0.23
23 56 0.77
ACGTcount: A:0.15, C:0.25, G:0.27, T:0.32
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGACAA
Found at i:68790 original size:22 final size:21
Alignment explanation
Indices: 68720--68792 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
68710 TATATGCGGT
* * *
68720 CCTTCGGGACATTTCTACGCGGT
1 CCTTCGGGACA--TCTATGTGGA
*
68743 CCTTCGGGACATCTATGTGGT
1 CCTTCGGGACATCTATGTGGA
*
68764 CCTTCGGGATATTCTATGT-GA
1 CCTTCGGGACA-TCTATGTGGA
68785 CACTTCGG
1 C-CTTCGG
68793 TGCAATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
21 20 0.45
22 13 0.30
23 11 0.25
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (21 bp):
CCTTCGGGACATCTATGTGGA
Found at i:69584 original size:28 final size:29
Alignment explanation
Indices: 69522--69589 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
69512 TACTCTGACT
*
69522 TCTGATATATGATTTATCGTATATTCTGA
1 TCTGATATATGAGTTATCGTATATTCTGA
*
69551 -CATGATATATG-GTTATCGTAT-TTTTGTA
1 TC-TGATATATGAGTTATCGTATATTCTG-A
69579 TCTGAT-TATGA
1 TCTGATATATGA
69590 AAAATGACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
27 8 0.24
28 15 0.45
29 10 0.30
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (29 bp):
TCTGATATATGAGTTATCGTATATTCTGA
Found at i:75510 original size:20 final size:20
Alignment explanation
Indices: 75485--75523 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
75475 TTTTGGTGCA
*
75485 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
75505 GAGGGAACCGATTCCCCCT
1 GAGGGAACCGATCCCCCCT
75524 GGGGTTCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:80281 original size:18 final size:18
Alignment explanation
Indices: 80255--80365 Score: 105
Period size: 18 Copynumber: 5.9 Consensus size: 18
80245 ATTGAATATT
*
80255 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
80273 TGTCCCGAAGGACCAGTA
1 TGTCCCGAAGGACCACTA
*
80291 TGTCCCAAAGGACCACTTA
1 TGTCCCGAAGGACCAC-TA
* *
80310 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
* * * *
80329 TGTTCCGAATGACCATTGTT
1 TGTCCCGAAGGACCA--CTA
80349 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
80366 GATAATCCCT
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
18 44 0.59
19 4 0.05
20 27 0.36
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:80343 original size:38 final size:38
Alignment explanation
Indices: 80255--80365 Score: 120
Period size: 38 Copynumber: 3.0 Consensus size: 38
80245 ATTGAATATT
* *
80255 TGTCTCGAAGGACCAC-TA-TGTCCCGAAGGACCAGTA
1 TGTCCCGAAGGACCACTTATTGTCCCGAAGGACCACTA
* * *
80291 TGTCCCAAAGGACCACTTATTGTTCCGAAGAACCACTA
1 TGTCCCGAAGGACCACTTATTGTCCCGAAGGACCACTA
* * *
80329 TGTTCCGAATGACCA-TTGTTTGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACTT-ATTGTCCCGAAGGACCACT
80366 GATAATCCCT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
36 14 0.23
37 4 0.07
38 43 0.70
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (38 bp):
TGTCCCGAAGGACCACTTATTGTCCCGAAGGACCACTA
Found at i:80967 original size:19 final size:20
Alignment explanation
Indices: 80945--80996 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
80935 TAGGATAAAG
80945 ATAAAAAG-AAAATAGATAA
1 ATAAAAAGTAAAATAGATAA
* *
80964 ATAAATGAGTAAAATATATAA
1 ATAAA-AAGTAAAATAGATAA
80985 A-AAAAAGTAAAA
1 ATAAAAAGTAAAA
80997 GCATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 5 0.18
21 11 0.39
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (20 bp):
ATAAAAAGTAAAATAGATAA
Found at i:81080 original size:8 final size:8
Alignment explanation
Indices: 81067--81112 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
81057 GTAAAATAAG
81067 AAATATAT
1 AAATATAT
81075 AAATATAT
1 AAATATAT
*
81083 ATATATAT
1 AAATATAT
*
81091 ATATATAT
1 AAATATAT
*
81099 ATATATAT
1 AAATATAT
81107 ATAATA
1 A-AATA
81113 ACACTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
8 32 0.91
9 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
AAATATAT
Found at i:81082 original size:2 final size:2
Alignment explanation
Indices: 81069--81109 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
81059 AAAATAAGAA
*
81069 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
81110 ATAACACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:83160 original size:19 final size:19
Alignment explanation
Indices: 83136--83179 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
83126 TCTACAGTTG
*
83136 TCGTTGCGATTTTTCAAAT
1 TCGTTGCGATTTTCCAAAT
83155 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
83174 TCGTTG
1 TCGTTG
83180 TGATAGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:83893 original size:19 final size:19
Alignment explanation
Indices: 83869--83934 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
83859 TTAACTATCA
83869 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
83888 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
*
83910 CAACGAATTTGGAAAATCT
1 CAACGAATTTGGAAAATCG
83929 CAACGA
1 CAACGA
83935 CAACTGTAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
19 18 0.51
20 2 0.06
21 2 0.06
22 13 0.37
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:83911 original size:22 final size:22
Alignment explanation
Indices: 83884--83955 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
83874 AATTTGGAAA
83884 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
83906 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
83925 ATCTCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
83947 ATCGCAACG
1 ATCGCAACG
83956 CGAAATGGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 12 0.32
20 2 0.05
21 2 0.05
22 21 0.57
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:83919 original size:41 final size:41
Alignment explanation
Indices: 83862--83955 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
83852 TTTTTTTTTA
*
83862 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
*
83903 ACTATCGCAACGAATTTGGAAAATCTCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
83944 ACTATCGCAACG
1 ACTATCGCAACG
83956 CGAAATGGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:83993 original size:21 final size:21
Alignment explanation
Indices: 83967--84020 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
83957 GAAATGGAAA
83967 ATCACAACGCGATTTTCAACT
1 ATCACAACGCGATTTTCAACT
83988 ATCACAACGCGATTTTCAACT
1 ATCACAACGCGATTTTCAACT
**
84009 ATCGTAACGCGA
1 ATCACAACGCGA
84021 AATGCAACGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (21 bp):
ATCACAACGCGATTTTCAACT
Found at i:88625 original size:23 final size:23
Alignment explanation
Indices: 88562--88679 Score: 118
Period size: 23 Copynumber: 5.3 Consensus size: 23
88552 GAGTCGAGGG
* *
88562 TTCTACGCGGTCCTTC-GGACAA
1 TTCTATGCGGTCCTTCGGGACAT
* * * *
88584 TTCTACGTGGTCCTACGGGATAT
1 TTCTATGCGGTCCTTCGGGACAT
*
88607 TTATATGCGGTCCTTCGGGACAT
1 TTCTATGCGGTCCTTCGGGACAT
*
88630 TTCTACGCGGTCCTTCGGGACA-
1 TTCTATGCGGTCCTTCGGGACAT
* *
88652 -TCTATGTGGTCCTTCGGGATA-
1 TTCTATGCGGTCCTTCGGGACAT
88673 TTCTATG
1 TTCTATG
88680 TGACACTTCG
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
21 18 0.22
22 20 0.25
23 42 0.52
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (23 bp):
TTCTATGCGGTCCTTCGGGACAT
Found at i:88688 original size:22 final size:21
Alignment explanation
Indices: 88618--88690 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
88608 TATATGCGGT
* * *
88618 CCTTCGGGACATTTCTACGCGGT
1 CCTTCGGGACA--TCTATGTGGA
*
88641 CCTTCGGGACATCTATGTGGT
1 CCTTCGGGACATCTATGTGGA
*
88662 CCTTCGGGATATTCTATGT-GA
1 CCTTCGGGACA-TCTATGTGGA
88683 CACTTCGG
1 C-CTTCGG
88691 TGCAATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
21 20 0.45
22 13 0.30
23 11 0.25
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (21 bp):
CCTTCGGGACATCTATGTGGA
Found at i:89480 original size:28 final size:29
Alignment explanation
Indices: 89418--89485 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
89408 TACTCTGACT
*
89418 TCTGATATATGATTTATCGTATATTCTGA
1 TCTGATATATGAGTTATCGTATATTCTGA
*
89447 -CATGATATATG-GTTATCGTAT-TTTTGTA
1 TC-TGATATATGAGTTATCGTATATTCTG-A
89475 TCTGAT-TATGA
1 TCTGATATATGA
89486 AAAATGACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
27 8 0.24
28 15 0.45
29 10 0.30
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (29 bp):
TCTGATATATGAGTTATCGTATATTCTGA
Found at i:91445 original size:33 final size:33
Alignment explanation
Indices: 91408--91470 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
91398 AAATGAAAAT
*
91408 GGATTTTGAA-AATCAAAATGAAATCTTGAAGAA
1 GGATTTAGAACAATCAAAATGAAAT-TTGAAGAA
**
91441 GGATTTAGAACTCTCAAAATGAAATTTGAA
1 GGATTTAGAACAATCAAAATGAAATTTGAA
91471 AGTATTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (33 bp):
GGATTTAGAACAATCAAAATGAAATTTGAAGAA
Found at i:95030 original size:20 final size:20
Alignment explanation
Indices: 95005--95043 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94995 TTTTGGTGCA
*
95005 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
95025 GAGGGAACCGATTCCCCCT
1 GAGGGAACCGATCCCCCCT
95044 GGGGTTCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:99701 original size:18 final size:18
Alignment explanation
Indices: 99664--99769 Score: 74
Period size: 18 Copynumber: 5.8 Consensus size: 18
99654 CATTGAATAT
*
99664 TGTCTCGAAGGACC--TA
1 TGTCCCGAAGGACCAGTA
99680 TGTCCCGAAGGACCAGTA
1 TGTCCCGAAGGACCAGTA
* *
99698 TGTCCCAAAGGACCACTTA
1 TGTCCCGAAGGACCA-GTA
* * *
99717 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCAGTA
* * *
99736 TGTTCCGAATGACCATTGTT
1 TGTCCCGAAGGACCA--GTA
99756 TGT-CCGAAGGACCA
1 TGTCCCGAAGGACCA
99770 CTGATAATCC
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
16 13 0.18
18 29 0.40
19 14 0.19
20 16 0.22
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (18 bp):
TGTCCCGAAGGACCAGTA
Found at i:99750 original size:38 final size:37
Alignment explanation
Indices: 99684--99771 Score: 97
Period size: 38 Copynumber: 2.4 Consensus size: 37
99674 GACCTATGTC
*
99684 CCGAAGGACCAGTATGTCCCAAAGGACCACTTA-TTGTT
1 CCGAAGGACCACTATGTCCCAAAGGACCA-TTATTTG-T
* * * * *
99722 CCGAAGAACCACTATGTTCCGAATGACCATTGTTTGT
1 CCGAAGGACCACTATGTCCCAAAGGACCATTATTTGT
99759 CCGAAGGACCACT
1 CCGAAGGACCACT
99772 GATAATCCCC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 15 0.36
38 27 0.64
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (37 bp):
CCGAAGGACCACTATGTCCCAAAGGACCATTATTTGT
Found at i:105353 original size:23 final size:23
Alignment explanation
Indices: 105327--105377 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
105317 ATTAAGTAAA
105327 ATAA-CAAATTAGGTAGCGCTTAT
1 ATAATCAAA-TAGGTAGCGCTTAT
**
105350 ATAATGTAATAGGTAGCGCTTAT
1 ATAATCAAATAGGTAGCGCTTAT
105373 ATAAT
1 ATAAT
105378 GTAATAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (23 bp):
ATAATCAAATAGGTAGCGCTTAT
Found at i:105378 original size:23 final size:23
Alignment explanation
Indices: 105336--105384 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
105326 AATAACAAAT
105336 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
105359 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
105382 TAG
1 TAG
105385 ATTAATTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:105440 original size:23 final size:23
Alignment explanation
Indices: 105414--105463 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
105404 ATCAAGCACA
* *
105414 ATAACATATTAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
105437 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
105460 ATAA
1 ATAA
105464 TAAAATAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:105460 original size:87 final size:87
Alignment explanation
Indices: 105308--105548 Score: 331
Period size: 87 Copynumber: 2.8 Consensus size: 87
105298 TAATTTAATC
* * * * * *
105308 AAAAATATTATTAAGTAAAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTAT
1 AAAAACATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTAT
**
105373 ATAATGTAAT-AGATTAATTACT
66 ATAATAAAATAAG-TTAATTACT
*
105395 ATAAACATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTAT
1 AAAAACATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTAT
105460 ATAATAAAATAAGTTAATTACT
66 ATAATAAAATAAGTTAATTACT
* * * * * *
105482 AAAAATATTATTAAGCGCAATAATATATTAGGTAGCGTTTATATAATATAATAGATAGCGCTTAT
1 AAAAACATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTAT
105547 AT
66 AT
105549 TAACATATTC
Statistics
Matches: 137, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
87 135 0.99
88 2 0.01
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (87 bp):
AAAAACATTATCAAGCACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTAT
ATAATAAAATAAGTTAATTACT
Found at i:105470 original size:23 final size:23
Alignment explanation
Indices: 105423--105470 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
105413 AATAACATAT
* **
105423 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
105446 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
105469 TA
1 TA
105471 AGTTAATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:105531 original size:23 final size:23
Alignment explanation
Indices: 105501--105557 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
105491 ATTAAGCGCA
* *
105501 ATAATATATTAGGTAGCGTTTAT
1 ATAATATATTAGATAGCGCTTAT
*
105524 ATAATATAATAGATAGCGCTTAT
1 ATAATATATTAGATAGCGCTTAT
*
105547 ATTAACATATT
1 A-TAATATATT
105558 CTATCATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (23 bp):
ATAATATATTAGATAGCGCTTAT
Found at i:105991 original size:198 final size:199
Alignment explanation
Indices: 105561--106230 Score: 895
Period size: 199 Copynumber: 3.4 Consensus size: 199
105551 ACATATTCTA
* * *
105561 TCATAAAATC-AGTATATTTATATCGGTAACATTGTAAATTTACCTATTACATTATAATTATCAG
1 TCATAAAATCGA-TATATTTCTATAGGTTACATTGTAAATTTACCTATTACATTATAATTATCAG
*
105625 TTTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCACCTCGTT
65 TTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTT
* *
105688 GGACATTCATTATGGAAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACC
129 GGACATTCATTCTGG-AAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGACC
*
105753 TATTTTT
193 TATTTTC
* * * * *
105760 TCATAAAA-CCAGTATATTTCTATAGGGTACATTGTAAATTTACATATTACATTGTAATTATCGG
1 TCATAAAATCGA-TATATTTCTATAGGTTACATTGTAAATTTACCTATTACATTATAATTATCAG
* * **
105824 TTTGGAT-TTTTTGGGATCGATACTTTTAATAAATGTATTGACACTTTATGTTTGCACCTCGTTG
65 TTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTG
* *
105888 GACATTCATTCTAGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATATAGACCTA
130 GACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGACCTA
105953 TTTTC
195 TTTTC
* ** * * **
105958 TCATAAAATCGATATTTTTCTACCGATTACATTGTAAATTTACCTATTACATTGTAATTATTGGT
1 TCATAAAATCGATATATTTCTATAGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGT
*
106023 TTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTT-T
66 TTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGG
* *** * *
106087 AGCATTCATTCTGGACAAAATGTATCGACAC-TTTTTAAATTTGTGTCGATACATTATGTAGACT
131 A-CATTCATTCTGGA-AAAAAGTATCGACACAAACTTAAA-ATGTGTCGATACATTATGTAGACC
*
106151 TATTCTC
193 TATTTTC
* * *
106158 TCATAAAATCGGTATATTTATATTGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGT
1 TCATAAAATCGATATATTTCTATAGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGT
*
106223 TTTGATGT
66 TTCGATGT
106231 AACTTATGTG
Statistics
Matches: 414, Mismatches: 49, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
197 3 0.01
198 130 0.31
199 177 0.43
200 104 0.25
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (199 bp):
TCATAAAATCGATATATTTCTATAGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGT
TTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGG
ACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTAGACCTAT
TTTC
Found at i:106356 original size:16 final size:16
Alignment explanation
Indices: 106321--106381 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 16
106311 ATTATTCTTA
106321 TTATAATAAATAATAA-
1 TTATAATAAAT-ATAAT
106337 --ATAATAAATATAAT
1 TTATAATAAATATAAT
* *
106351 TTATAAT-AATTTTAT
1 TTATAATAAATATAAT
106366 TT-TAATAAAATATAAT
1 TTATAAT-AAATATAAT
106382 AATCATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
13 4 0.11
14 13 0.36
15 8 0.22
16 11 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTATAATAAATATAAT
Found at i:106518 original size:24 final size:25
Alignment explanation
Indices: 106450--106518 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
106440 TAAATAATAT
*
106450 TAAATAA-ATTATTCTAATATT-TTAA
1 TAAATAATATTA-T-TATTATTGTTAA
106475 -AAATAATATTATTATT-TTGTTAA
1 TAAATAATATTATTATTATTGTTAA
106498 TAAATAATATTATT-TTATTGT
1 TAAATAATATTATTATTATTGT
106519 ATTTGATGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.05
23 9 0.23
24 24 0.62
25 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (25 bp):
TAAATAATATTATTATTATTGTTAA
Found at i:106602 original size:30 final size:28
Alignment explanation
Indices: 106527--106602 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 28
106517 GTATTTGATG
106527 TTTATAATTATATTGTAATTATGATTATT
1 TTTA-AATTATATTGTAATTATGATTATT
* *
106556 TTT-CATCAT-TT-T-ATTATGATTATTT
1 TTTAAATTATATTGTAATTATGATTA-TT
106581 TTTAAAATTATATTGTAATTAT
1 TTT-AAATTATATTGTAATTAT
106603 ATATATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
24 10 0.27
25 6 0.16
26 2 0.05
27 8 0.22
28 2 0.05
29 4 0.11
30 5 0.14
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTAAATTATATTGTAATTATGATTATT
Found at i:106607 original size:2 final size:2
Alignment explanation
Indices: 106600--106632 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
106590 ATATTGTAAT
106600 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
106633 TATTTTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:107219 original size:28 final size:28
Alignment explanation
Indices: 107151--107225 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
107141 ATAATAATTT
* *
107151 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATTATAATCATAA
* * *
107178 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATTATA-ATCATAA
107206 TATTTTAATAATAATAATTA
1 TATTTTAATAATAA-AATTA
107226 CATAAATAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 8 0.22
28 22 0.59
29 7 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATTATAATCATAA
Found at i:107306 original size:24 final size:24
Alignment explanation
Indices: 107255--107306 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
107245 ATTATTCTAA
107255 TATT-TTAAAAATAATATTATTAT
1 TATTGTTAAAAATAATATTATTAT
*
107278 T-TTGTTAATAAATAATATTGTT-T
1 TATTGTTAA-AAATAATATTATTAT
107301 TATTGT
1 TATTGT
107307 ATTTGATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 16 0.64
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
TATTGTTAAAAATAATATTATTAT
Found at i:107670 original size:87 final size:87
Alignment explanation
Indices: 107539--107856 Score: 510
Period size: 87 Copynumber: 3.7 Consensus size: 87
107529 ACTAATTAAA
* **
107539 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTATATAAAAGATACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTA
*
107604 TTGTGCTTAATAATGTTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
** *
107626 TAATTAACCTATTTTATTATATAAATGCTACCTATTACATTATATAAGCGGTACCTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTA
*
107691 TTGTGCTTGATAATGTTTTCAG
66 TTGTGCTTGATAATGTTTCCAG
* * *
107713 TAATTAACCTATTTTATTATATAAGTGCTACCTATTACATTATATAAGCGTTACCTAATTTGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTA
*
107778 TTGTGTTTGATAATGTTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
* *
107800 TAATTAACCTATTTTATTATATAAGCGCTACATATTACATTATATAAGCGCTACCTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTA
107857 TTACATCATA
Statistics
Matches: 215, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 215 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTA
TTGTGCTTGATAATGTTTCCAG
Found at i:107754 original size:23 final size:23
Alignment explanation
Indices: 107719--107769 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
107709 TCAGTAATTA
** *
107719 ACCTATTTTATTATATAAGTGCT
1 ACCTATTACATTATATAAGCGCT
*
107742 ACCTATTACATTATATAAGCGTT
1 ACCTATTACATTATATAAGCGCT
107765 ACCTA
1 ACCTA
107770 ATTTGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:107841 original size:23 final size:23
Alignment explanation
Indices: 107815--107867 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
107805 AACCTATTTT
107815 ATTATATAAGCGCTACATATTAC
1 ATTATATAAGCGCTACATATTAC
*
107838 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACATATTAC
*
107861 ATCATAT
1 ATTATAT
107868 TTTTACATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACATATTAC
Found at i:111121 original size:13 final size:14
Alignment explanation
Indices: 111098--111135 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
111088 CCGATTCGAA
111098 TATATTAATAC-TT
1 TATATTAATACATT
111111 TA-ATATAATACATT
1 TATAT-TAATACATT
111125 TATATTAATAC
1 TATATTAATAC
111136 GCTAGAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.09
13 8 0.36
14 10 0.45
15 2 0.09
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
TATATTAATACATT
Found at i:118893 original size:23 final size:25
Alignment explanation
Indices: 118848--118897 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
118838 GAGTAAATTT
118848 AAATTATCATTTCTTTTTGTTATAAAA
1 AAATTATCATTTC--TTTGTTATAAAA
118875 AAATTATCATTTC-TT-TTATAAAA
1 AAATTATCATTTCTTTGTTATAAAA
118898 CACCGTAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.35
24 2 0.09
27 13 0.57
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (25 bp):
AAATTATCATTTCTTTGTTATAAAA
Found at i:137033 original size:69 final size:69
Alignment explanation
Indices: 136922--137062 Score: 282
Period size: 69 Copynumber: 2.0 Consensus size: 69
136912 ATGAGCTGAT
136922 TCAATAAAGAATGCTTTTCTTATTCATTTATGTTAGTTCTTTTGCTCCAATTACTGTATTGCTTA
1 TCAATAAAGAATGCTTTTCTTATTCATTTATGTTAGTTCTTTTGCTCCAATTACTGTATTGCTTA
136987 ATAG
66 ATAG
136991 TCAATAAAGAATGCTTTTCTTATTCATTTATGTTAGTTCTTTTGCTCCAATTACTGTATTGCTTA
1 TCAATAAAGAATGCTTTTCTTATTCATTTATGTTAGTTCTTTTGCTCCAATTACTGTATTGCTTA
137056 ATAG
66 ATAG
137060 TCA
1 TCA
137063 CTTCCGACAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (69 bp):
TCAATAAAGAATGCTTTTCTTATTCATTTATGTTAGTTCTTTTGCTCCAATTACTGTATTGCTTA
ATAG
Found at i:144574 original size:16 final size:16
Alignment explanation
Indices: 144553--144600 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
144543 TTATCAAATA
144553 AAATATTAAATTATAT
1 AAATATTAAATTATAT
*
144569 AAATATATATATT-TAT
1 AAATAT-TAAATTATAT
144585 -AATA-TAAATTATAT
1 AAATATTAAATTATAT
144599 AA
1 AA
144601 TTAATAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 5 0.19
14 3 0.11
15 5 0.19
16 9 0.33
17 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATATTAAATTATAT
Found at i:144607 original size:21 final size:21
Alignment explanation
Indices: 144534--144607 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
144524 GTTTTATGGA
144534 ATATATTAAT--TATCAAATA-
1 ATATATTAATAATAT-AAATAT
* *
144553 AAATATTAAATTATATAAATAT
1 ATATATT-AATAATATAAATAT
*
144575 ATATATTTATAATATAAAT-T
1 ATATATTAATAATATAAATAT
144595 ATATAATTAATAA
1 ATAT-ATTAATAA
144608 AGTCATATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
19 6 0.13
20 8 0.18
21 22 0.49
22 9 0.20
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATATTAATAATATAAATAT
Found at i:147207 original size:24 final size:23
Alignment explanation
Indices: 147170--147259 Score: 69
Period size: 22 Copynumber: 4.0 Consensus size: 23
147160 ATATCCCCAA
* *
147170 CAGTGTTAAGGCACTTTAGTATAT
1 CAGTGCTAATGCACTTTAGTAT-T
*
147194 CAGTGCTAATGCACTTTCGTATT
1 CAGTGCTAATGCACTTTAGTATT
* *
147217 -ACTACTAATGCACTTTCA-TATT
1 CAGTGCTAATGCACTTT-AGTATT
* * *
147239 -AGTGATTAGGCACTTTAGTAT
1 CAGTGCTAATGCACTTTAGTAT
147260 CAATGGTAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.02
22 32 0.60
23 1 0.02
24 19 0.36
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (23 bp):
CAGTGCTAATGCACTTTAGTATT
Found at i:148510 original size:30 final size:30
Alignment explanation
Indices: 148458--148515 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
148448 TTTATTATTA
* * *
148458 AAAAAATATAATAGTTAGCACCTGAAAGTT
1 AAAAAATATAACAGATAGCACCTAAAAGTT
148488 AAAAAATATAACA-ATAGACACCTAAAAG
1 AAAAAATATAACAGATAG-CACCTAAAAG
148516 CAATATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.21
Consensus pattern (30 bp):
AAAAAATATAACAGATAGCACCTAAAAGTT
Found at i:148571 original size:8 final size:8
Alignment explanation
Indices: 148558--148582 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
148548 CGGTGCATGT
148558 ACTGGTTC
1 ACTGGTTC
148566 ACTGGTTC
1 ACTGGTTC
148574 ACTGGTTC
1 ACTGGTTC
148582 A
1 A
148583 ACCGGGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (8 bp):
ACTGGTTC
Found at i:149401 original size:30 final size:30
Alignment explanation
Indices: 149365--149426 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
149355 AGAGAACCGG
*
149365 CGGTTCACACCGATTTTGCCGGTTTTCAGC
1 CGGTTCACACCGATTTTGCCGGTTCTCAGC
* *
149395 CGGTTCACCCCGATTTTGCTGGTTCTCAGC
1 CGGTTCACACCGATTTTGCCGGTTCTCAGC
149425 CG
1 CG
149427 ATTCTACCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.11, C:0.32, G:0.24, T:0.32
Consensus pattern (30 bp):
CGGTTCACACCGATTTTGCCGGTTCTCAGC
Found at i:153484 original size:27 final size:27
Alignment explanation
Indices: 153130--153473 Score: 553
Period size: 27 Copynumber: 12.7 Consensus size: 27
153120 CAAATCACCA
* * *
153130 TCACCCATTCGACGTCGTAGATCGCCA
1 TCACCCATCCGACGTCGTAGGTCGCCG
* *
153157 TCACCCATCCGACGACGTAGATCGCCG
1 TCACCCATCCGACGTCGTAGGTCGCCG
*
153184 TCACCCATCCGACGTCGTAGGTCACCG
1 TCACCCATCCGACGTCGTAGGTCGCCG
153211 TCACCCATCCGACGTCGTAGGTCGCCG
1 TCACCCATCCGACGTCGTAGGTCGCCG
153238 TCACCCATCCGACGTCGTAGGTCGCCG
1 TCACCCATCCGACGTCGTAGGTCGCCG
*
153265 TCACCCATCCGACGTCTTAGGTCGCCG
1 TCACCCATCCGACGTCGTAGGTCGCCG
153292 TCACCCATCCGACGTCGTAGGTCGCCG
1 TCACCCATCCGACGTCGTAGGTCGCCG
153319 TCACCCATCCGACGTCGTAGGTCGCCG
1 TCACCCATCCGACGTCGTAGGTCGCCG
153346 TCACCCATCCGACGTCGTAGGTCGCCG
1 TCACCCATCCGACGTCGTAGGTCGCCG
153373 TCACCCATCCGACGTCGTAGGTCGCCG
1 TCACCCATCCGACGTCGTAGGTCGCCG
**
153400 TCACCCATCCGACGTCACAGGTCGCCG
1 TCACCCATCCGACGTCGTAGGTCGCCG
* * * *
153427 TCACCCATCCGACGTCGCAGATCACCA
1 TCACCCATCCGACGTCGTAGGTCGCCG
* *
153454 TCTCCTATCCGACGTCGTAG
1 TCACCCATCCGACGTCGTAG
153474 ATCTCCATCT
Statistics
Matches: 299, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 299 1.00
ACGTcount: A:0.17, C:0.41, G:0.23, T:0.19
Consensus pattern (27 bp):
TCACCCATCCGACGTCGTAGGTCGCCG
Found at i:156196 original size:18 final size:18
Alignment explanation
Indices: 156148--156198 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
156138 TGTCAAATAT
*
156148 TTTTATTAAATTATAATTA
1 TTTTATTAAATT-TTATTA
*
156167 -TTTAAT-AA-TTTATTA
1 TTTTATTAAATTTTATTA
156182 TTTTATTAAATTTTATT
1 TTTTATTAAATTTTATT
156199 GTACTACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
15 5 0.19
16 6 0.23
17 4 0.15
18 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATTAAATTTTATTA
Found at i:158046 original size:21 final size:21
Alignment explanation
Indices: 158020--158071 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
158010 CAATCGAGTC
*
158020 AGATGCCATCGTAACTTGTTT
1 AGATGCCACCGTAACTTGTTT
*
158041 ATATGCCACCGTAACTTGTTT
1 AGATGCCACCGTAACTTGTTT
158062 AGATGCCACC
1 AGATGCCACC
158072 ACAACAGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (21 bp):
AGATGCCACCGTAACTTGTTT
Found at i:158341 original size:3 final size:3
Alignment explanation
Indices: 158333--158368 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
158323 TAGTTGCTCC
* *
158333 TGA TGA TGA TGA TGA AGA TAA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
158369 GAGTGGGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:160266 original size:224 final size:225
Alignment explanation
Indices: 159868--160303 Score: 829
Period size: 224 Copynumber: 1.9 Consensus size: 225
159858 TTCCCTCGTG
159868 ACAACATGTAAGCGTAAGTTTCTGAGGAAAAAAGTCCAAGAATCTGTATCTTCTCATTCAACAAG
1 ACAACATGTAAGCGTAAGTTTCTGAGGAAAAAAGTCCAAGAATCTGTATCTTCTCATTCAACAAG
159933 GGAAAAACAACTAGAATAATGTTGCGATTACCATATTGGATAACTATCAATAGTAAAACTTGCTT
66 GGAAAAACAACTAGAATAATGTTGCGATTACCATATTGGATAACTATCAATAGTAAAACTTGCTT
*
159998 GTATTTTCCATACAATAATGTCCCATCAATTTGGACCACGAGCTTGCAGTATTTCACAACATTAA
131 GTATTTTCCATACAATAATGTCCCATCAATTTGGACCACGAGCTTACAGTATTTCACAACATTAA
160063 TGCACTGTGGGTAAGTCACAACATTATTTC
196 TGCACTGTGGGTAAGTCACAACATTATTTC
*
160093 ACAACAT-TAAGCGTAAGTTTCTGAGGAAAAAAGTCCAAGAATCTGTATCTTCTCCTTCAACAAG
1 ACAACATGTAAGCGTAAGTTTCTGAGGAAAAAAGTCCAAGAATCTGTATCTTCTCATTCAACAAG
* *
160157 GGAAAAACTACTATAATAATGTTGCGATTACCATATTGGATAACTATCAATAGTAAAACTTGCTT
66 GGAAAAACAACTAGAATAATGTTGCGATTACCATATTGGATAACTATCAATAGTAAAACTTGCTT
160222 GTATTTTCCATACAATAATGTCCCATCAATTTGGACCACGAGCTTACAGTATTTCACAACATTAA
131 GTATTTTCCATACAATAATGTCCCATCAATTTGGACCACGAGCTTACAGTATTTCACAACATTAA
160287 TGCACTGTGGGTAAGTC
196 TGCACTGTGGGTAAGTC
160304 CAAAATATCC
Statistics
Matches: 207, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
224 200 0.97
225 7 0.03
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (225 bp):
ACAACATGTAAGCGTAAGTTTCTGAGGAAAAAAGTCCAAGAATCTGTATCTTCTCATTCAACAAG
GGAAAAACAACTAGAATAATGTTGCGATTACCATATTGGATAACTATCAATAGTAAAACTTGCTT
GTATTTTCCATACAATAATGTCCCATCAATTTGGACCACGAGCTTACAGTATTTCACAACATTAA
TGCACTGTGGGTAAGTCACAACATTATTTC
Found at i:162637 original size:2 final size:2
Alignment explanation
Indices: 162632--162696 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
162622 CAATATGATA
162632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
162674 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
162697 AACAACACAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:164104 original size:226 final size:225
Alignment explanation
Indices: 163698--164157 Score: 595
Period size: 226 Copynumber: 2.0 Consensus size: 225
163688 TAACATAACT
*
163698 AGTTAATTATTGAAAACATTATCAACCATAATAACATAACATGTAACCCTTATGTAACATAATAG
1 AGTTAATTATTGAAAACATTATCAACCATAATAACATAACAAGTAACCCTTATGTAACATAATAG
* * * * * * *
163763 CTAGTGCCTTTTAAAGCTTATGGGACCTTAGAAATCTGATGATAACAAAATATGTTAATTACTTT
66 CTAGCGACTTTTAAAGCTGATGGGACCTTAGAAATATGAGGATAACAAAATACGTTAATTACTTA
* ** * * *
163828 ATTTGTTATTAATATTATCATGATATTAGGTAGTGCATAAAATGTTATCAAAGTTTAAGTTGACG
131 ATTTGTTATCAATATTATCAACATATTAGGTAGCGCATAAAATATTATCAAAGTTTAAGCTGACG
*
163893 -GAGCCTTAGAAATATGACGATAACAAAATA
196 TGA-CCTTAGAAATACGACGATAACAAAATA
* * * * **
163923 AGTTAATTATTGAAAACATTATCATCCATAATAACATAACAAGT-AGCGTTGATTTAATGTAATA
1 AGTTAATTATTGAAAACATTATCAACCATAATAACATAACAAGTAACCCTT-ATGTAACATAATA
* * * *
163987 GGTAGCGTATTTTTAAAGCTGATAGGG-TCTTAGAAATATGAGGATAATAAAAT-CGATTAATTA
65 GCTAGCG-ACTTTTAAAGCTGAT-GGGACCTTAGAAATATGAGGATAACAAAATACG-TTAATTA
*
164050 CTTAATTTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATATTATCAAAGTTTAAGCT
127 CTTAATTTGTTATCAATATTATCAACATATTAGGTAGCGCATAAAATATTATCAAAGTTTAAGCT
*
164115 GACGTGACCTTAGAAATCCGACGATAACAAAATA
192 GACGTGACCTTAGAAATACGACGATAACAAAATA
*
164149 TGTTAATTA
1 AGTTAATTA
164158 CTTATTTTGT
Statistics
Matches: 202, Mismatches: 28, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
224 4 0.02
225 58 0.29
226 135 0.67
227 5 0.02
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (225 bp):
AGTTAATTATTGAAAACATTATCAACCATAATAACATAACAAGTAACCCTTATGTAACATAATAG
CTAGCGACTTTTAAAGCTGATGGGACCTTAGAAATATGAGGATAACAAAATACGTTAATTACTTA
ATTTGTTATCAATATTATCAACATATTAGGTAGCGCATAAAATATTATCAAAGTTTAAGCTGACG
TGACCTTAGAAATACGACGATAACAAAATA
Found at i:164191 original size:108 final size:108
Alignment explanation
Indices: 164043--164301 Score: 313
Period size: 108 Copynumber: 2.4 Consensus size: 108
164033 ATAAAATCGA
* * * *
164043 TTAATTACTTAATTTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATATTATCAAAGT
1 TTAATTACTTATTTTGTTATAAATATTATCAACATATTAGGTAACGCCTAAAATATTACCAAAGT
* * *
164108 TTAAGCTGACGTGA-CCTTAGAAATCCGACGATAACAAAATATG
66 TTAAGCTGACG-GAGCCTTAGAAATCCCACGACAACAAAATAAG
* ** *
164151 TTAATTACTTATTTTGTTATTAATATTATCAATGTATTAGGTAACGCCTAAAATGTTACCAAAGT
1 TTAATTACTTATTTTGTTATAAATATTATCAACATATTAGGTAACGCCTAAAATATTACCAAAGT
* * * *
164216 TTAAGTTGATGGAGTCTTCGAAATCCCACGACAACAAAATAAG
66 TTAAGCTGACGGAGCCTTAGAAATCCCACGACAACAAAATAAG
* * * * *
164259 TTAATTTCTTATTTTCTTATAAATAAATATTAACATACTAGGT
1 TTAATTACTTATTTTGTTATAAAT-ATTATCAACATATTAGGT
164302 TTCACCCAAT
Statistics
Matches: 127, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
107 2 0.02
108 112 0.88
109 13 0.10
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (108 bp):
TTAATTACTTATTTTGTTATAAATATTATCAACATATTAGGTAACGCCTAAAATATTACCAAAGT
TTAAGCTGACGGAGCCTTAGAAATCCCACGACAACAAAATAAG
Found at i:164516 original size:17 final size:17
Alignment explanation
Indices: 164491--164526 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
164481 TTAGAGTAAA
*
164491 TATGTATACATTATTAT
1 TATGGATACATTATTAT
164508 TATGGATACATTATTAT
1 TATGGATACATTATTAT
164525 TA
1 TA
164527 ACCTTTAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (17 bp):
TATGGATACATTATTAT
Found at i:164834 original size:23 final size:23
Alignment explanation
Indices: 164787--164835 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
164777 AAACTGATAG
** *
164787 TTTAACGTAATAGGTAGTGCTTA
1 TTTAACGTAATAGGTAGCACCTA
164810 TTTAACGTAATAGGTAGCACCTA
1 TTTAACGTAATAGGTAGCACCTA
164833 TTT
1 TTT
164836 TATTTTACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (23 bp):
TTTAACGTAATAGGTAGCACCTA
Found at i:164894 original size:74 final size:75
Alignment explanation
Indices: 164809--164975 Score: 212
Period size: 74 Copynumber: 2.2 Consensus size: 75
164799 GGTAGTGCTT
* *
164809 ATTTAACGTAATAGGTAGCACCTATTTTATTTTACCATTTACATTATTATTAATATTTAAACAAA
1 ATTTAACGTAATAGGTAGCACCTATTTTATTTTACCATTTACATTATTAGTAACATTTAAACAAA
164874 -CCATA-ACTA
66 TCCATAGA-TA
* * * *** *
164883 GTTTAACGTAATAAGTAGCGCCTATTTTATTTTATTGTTTACATTATTAGTAACCTTTAAACAAA
1 ATTTAACGTAATAGGTAGCACCTATTTTATTTTACCATTTACATTATTAGTAACATTTAAACAAA
**
164948 TCGGTAGATA
66 TCCATAGATA
164958 ATTTAACGTAATAGGTAG
1 ATTTAACGTAATAGGTAG
164976 TATGTTGAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
74 56 0.72
75 21 0.27
76 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (75 bp):
ATTTAACGTAATAGGTAGCACCTATTTTATTTTACCATTTACATTATTAGTAACATTTAAACAAA
TCCATAGATA
Found at i:165345 original size:65 final size:63
Alignment explanation
Indices: 165276--165435 Score: 198
Period size: 65 Copynumber: 2.5 Consensus size: 63
165266 AATTAAATTG
* *
165276 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATGCACTGAGGA-T-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCATCAATGCACT-AGGACTATTT-TG
165339 AA
63 -A
* **
165341 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCAATGCACTCTGACTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCATCAATGCACTAGGACTATTTTGA
* *
165405 AATATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
165436 TAAGGGTCCA
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
63 1 0.01
64 31 0.36
65 48 0.56
66 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCATCAATGCACTAGGACTATTTTGA
Found at i:166299 original size:75 final size:75
Alignment explanation
Indices: 166143--166305 Score: 193
Period size: 75 Copynumber: 2.2 Consensus size: 75
166133 AACATAGTAC
* * * * * * *
166143 CTATTTTATTTTGTCATTTACATTATTATTAACATTTAAACAAATCGGTAGGTATTTTAACGTAA
1 CTATTTTATTTTATCATTTACATTATTAGTAACATTCAAACAAACCGGTAGATAGTTTAACATAA
166208 TAGATAACGT
66 TAGATAACGT
* * * *
166218 CCATTTTATTTTATCGTTTACATTATTAGTAACCTTCAAACAAACCGGTAGATAGTTTAATATAA
1 CTATTTTATTTTATCATTTACATTATTAGTAACATTCAAACAAACCGGTAGATAGTTTAACATAA
* *
166283 TAGGTAGCG-
66 TAGATAACGT
166292 CTTATTTTATTTTA
1 C-TATTTTATTTTA
166306 ACCGGTTAAG
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
74 1 0.01
75 72 0.99
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (75 bp):
CTATTTTATTTTATCATTTACATTATTAGTAACATTCAAACAAACCGGTAGATAGTTTAACATAA
TAGATAACGT
Found at i:167714 original size:42 final size:42
Alignment explanation
Indices: 167650--167745 Score: 183
Period size: 42 Copynumber: 2.3 Consensus size: 42
167640 TTTGGTGTTT
167650 TGGGTGATTTTATAGTGGGGTCGGGTTTGCCGGTCATCATTGG
1 TGGG-GATTTTATAGTGGGGTCGGGTTTGCCGGTCATCATTGG
167693 TGGGGATTTTATAGTGGGGTCGGGTTTGCCGGTCATCATTGG
1 TGGGGATTTTATAGTGGGGTCGGGTTTGCCGGTCATCATTGG
167735 TGGGGATTTTA
1 TGGGGATTTTA
167746 ATACAGTTAC
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 49 0.92
43 4 0.08
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (42 bp):
TGGGGATTTTATAGTGGGGTCGGGTTTGCCGGTCATCATTGG
Found at i:170210 original size:18 final size:17
Alignment explanation
Indices: 170179--170212 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
170169 AAAAAATAGA
*
170179 AAAATCAAATTTTGAAT
1 AAAATCAAACTTTGAAT
170196 AAAATCAAAACTTTGAA
1 AAAATC-AAACTTTGAA
170213 AACCTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAATCAAACTTTGAAT
Found at i:176643 original size:2 final size:2
Alignment explanation
Indices: 176636--176671 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
176626 TATTTCCAAG
176636 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
176672 TATTTCAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:180075 original size:20 final size:20
Alignment explanation
Indices: 180038--180089 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
180028 TACTCTAGTC
180038 AGTATCGATACTATGGTATGGG
1 AGTATCGATA--ATGGTATGGG
* *
180060 AGTATTGATAATGGTATTGG
1 AGTATCGATAATGGTATGGG
180080 AGTATCGATA
1 AGTATCGATA
180090 CTACCCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 18 0.67
22 9 0.33
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.35
Consensus pattern (20 bp):
AGTATCGATAATGGTATGGG
Found at i:182238 original size:12 final size:12
Alignment explanation
Indices: 182223--182248 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
182213 TTTCATTGTA
182223 TTTTTATAGTCT
1 TTTTTATAGTCT
182235 TTTTTATAGTCT
1 TTTTTATAGTCT
182247 TT
1 TT
182249 ATTCTTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTTATAGTCT
Found at i:183592 original size:31 final size:31
Alignment explanation
Indices: 183538--183615 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
183528 ATAACTAATT
* *
183538 ATAAAAAATGAGGGATAATGTATAATTAACC
1 ATAAAAAATGAGGGACAAGGTATAATTAACC
*
183569 ATAAAAAATGAGGGGCAAGGTATAATTAACC
1 ATAAAAAATGAGGGACAAGGTATAATTAACC
183600 AT-AAAAAT-AGGGACAA
1 ATAAAAAATGAGGGACAA
183616 ATCAAAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 7 0.16
30 6 0.14
31 30 0.70
ACGTcount: A:0.53, C:0.08, G:0.19, T:0.21
Consensus pattern (31 bp):
ATAAAAAATGAGGGACAAGGTATAATTAACC
Found at i:192490 original size:2 final size:2
Alignment explanation
Indices: 192483--192525 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
192473 TATGACCTTT
192483 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
192525 T
1 T
192526 TTCCAGACTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:197572 original size:21 final size:21
Alignment explanation
Indices: 197548--197619 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 21
197538 GGGGTATCAA
197548 TTCCCCTGT-GTGGGGAATCGG
1 TTCCCCTGTAG-GGGGAATCGG
*
197569 TTCCCCTTTAAAGGGGGAATCGG
1 TTCCCCTGT--AGGGGGAATCGG
197592 TTCCCCT-TCAAAGGGGGAATCGG
1 TTCCCCTGT---AGGGGGAATCGG
197615 TTCCC
1 TTCCC
197620 TCATGGGGGT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
21 8 0.17
22 1 0.02
23 36 0.78
24 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (21 bp):
TTCCCCTGTAGGGGGAATCGG
Found at i:197588 original size:23 final size:23
Alignment explanation
Indices: 197559--197619 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
197549 TCCCCTGTGT
*
197559 GGGGAATCGGTTCCCCTTTAAAG
1 GGGGAATCGGTTCCCCTTCAAAG
197582 GGGGAATCGGTTCCCCTTCAAAG
1 GGGGAATCGGTTCCCCTTCAAAG
197605 GGGGAATCGGTTCCC
1 GGGGAATCGGTTCCC
197620 TCATGGGGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.23
Consensus pattern (23 bp):
GGGGAATCGGTTCCCCTTCAAAG
Found at i:197633 original size:20 final size:21
Alignment explanation
Indices: 197559--197641 Score: 87
Period size: 23 Copynumber: 3.8 Consensus size: 21
197549 TCCCCTGTGT
*
197559 GGGGAATCGGTTCCCCTTTAAAG
1 GGGGAATCGGTT-CCC-TCAAAG
197582 GGGGAATCGGTTCCCCTTCAAAG
1 GGGGAATCGGTT-CCC-TCAAAG
*
197605 GGGGAATCGGTTCCCTC-ATG
1 GGGGAATCGGTTCCCTCAAAG
* *
197625 GGGGTATCGATTCCCTC
1 GGGGAATCGGTTCCCTC
197642 TGCACCAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
20 17 0.30
21 2 0.04
22 3 0.05
23 34 0.61
ACGTcount: A:0.18, C:0.25, G:0.31, T:0.25
Consensus pattern (21 bp):
GGGGAATCGGTTCCCTCAAAG
Found at i:201405 original size:22 final size:21
Alignment explanation
Indices: 201363--201402 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
201353 GAGTTTATTT
*
201363 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
201384 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
201403 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:206476 original size:20 final size:20
Alignment explanation
Indices: 206453--206504 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
206443 TAAATGGGTG
206453 GTATCGATACCAAGAGGTTA
1 GTATCGATACCAAGAGGTTA
206473 GTATCGATACCAAGAGGTTA
1 GTATCGATACCAAGAGGTTA
*
206493 GTATCAATACCA
1 GTATCGATACCA
206505 TAGTATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (20 bp):
GTATCGATACCAAGAGGTTA
Found at i:206826 original size:21 final size:20
Alignment explanation
Indices: 206780--206862 Score: 89
Period size: 20 Copynumber: 4.0 Consensus size: 20
206770 TATCTAGCTC
206780 AAAGGATCGATCCCTT-AGCA
1 AAAGGATCGATCCCTTGA-CA
*
206800 AAAGGATCGATCCCTTCGACC
1 AAAGGATCGATCCCTT-GACA
*
206821 AAAGGATTGATCCCCTTGA-A
1 AAAGGATCGAT-CCCTTGACA
*
206841 AAAGGATCAATCCCTTGGACA
1 AAAGGATCGATCCCTT-GACA
206862 A
1 A
206863 CAGTGAGTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
19 5 0.09
20 27 0.51
21 15 0.28
22 6 0.11
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAAGGATCGATCCCTTGACA
Found at i:206844 original size:41 final size:41
Alignment explanation
Indices: 206779--206856 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
206769 TTATCTAGCT
* *
206779 CAAAGGATCGATCCCTTAGCAAAAGGATCGATCCCTTCGAC
1 CAAAGGATCGATCCCTTAGAAAAAGGATCAATCCCTTCGAC
*
206820 CAAAGGATTGATCCCCTT-GAAAAAGGATCAATCCCTT
1 CAAAGGATCGAT-CCCTTAGAAAAAGGATCAATCCCTT
206857 GGACAACAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 28 0.85
42 5 0.15
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (41 bp):
CAAAGGATCGATCCCTTAGAAAAAGGATCAATCCCTTCGAC
Found at i:206936 original size:20 final size:21
Alignment explanation
Indices: 206911--206949 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
206901 TCCCTCAAGG
206911 AAAAA-GATCGATCCCTTTCC
1 AAAAAGGATCGATCCCTTTCC
*
206931 AAAAAGGATTGATCCCTTT
1 AAAAAGGATCGATCCCTTT
206950 GGTATAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (21 bp):
AAAAAGGATCGATCCCTTTCC
Found at i:213505 original size:20 final size:20
Alignment explanation
Indices: 213468--213521 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
213458 TTCCCTAGTC
213468 AGTATTGATACTATGGTATGGG
1 AGTATTGATA--ATGGTATGGG
*
213490 AGTATTGATAATGGTATTGG
1 AGTATTGATAATGGTATGGG
*
213510 AGTATCGATAAT
1 AGTATTGATAAT
213522 ACCCTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 20 0.67
22 10 0.33
ACGTcount: A:0.31, C:0.04, G:0.28, T:0.37
Consensus pattern (20 bp):
AGTATTGATAATGGTATGGG
Done.