Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003991.1 Hibiscus syriacus cultivar Beakdansim tig00008692_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: 269984
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:2342 original size:19 final size:18
Alignment explanation
Indices: 2318--2353 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
2308 TTATTATATC
2318 AAATTGTATTTTACATAAT
1 AAATTGTATTTTA-ATAAT
2337 AAATTGTATTTTAATAA
1 AAATTGTATTTTAATAA
2354 ATTGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (18 bp):
AAATTGTATTTTAATAAT
Found at i:13144 original size:2 final size:2
Alignment explanation
Indices: 13139--13189 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
13129 ATGAAAAAAC
*
13139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC 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
13181 AT AT AT AT A
1 AT AT AT AT A
13190 CGTTAATAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:19239 original size:262 final size:257
Alignment explanation
Indices: 18784--19391 Score: 810
Period size: 262 Copynumber: 2.4 Consensus size: 257
18774 TTTATTTATA
*
18784 TATTGAATAAAAATATTTTTTATTATTTCGGGTCGGGTCG--AGTTTCTAATTCATATATT---T
1 TATTGAATAAAAATATTTTTTATTATTTCGGGTCGGGTCGTTGGTTTCTAATTCATATATTCGGT
* * *
18844 -GGGTCGGGTGAAATTTTATTTTGGTCGGGTCGGGACGGTTTTTTTAAGTGTGATATTCGGGTCG
66 CGGGTCGGGTGAAACTTTATTTTGGTCAGATCGGGACGGTTTTTTTAAGTGTGATATTCGGGTC-
**
18908 GGTCGAGTTCGGGTTTAGGGTGAAAAATACTCGACCCGAAAATATATATAATTTTACCTTATATA
130 GG-CGAGTTCAAGTTTAGGGTGAAAAATACTCGACCCGAAAATATATATAATTTTACCTTATATA
* *
18973 TTTAGGAATAATCACAATAATACCCATCTATATATA-ATTTTTTTTCAATTAAGTTACCGTTTT
194 TTTAGGAATAATCACAATAATACCCATCTATATATATATATTTTTTCAATTAAGTAACCGTTTT
19036 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGTTGGATTTCTAATTCATATATTC
1 TATTGAATAAAAATA-TTTTTTATTATTTCGGGTCGGGTC-GTTGG-TTTCTAATTCATATATTC
* *
19101 GGGTCGGGTCGGGTGAAACTTTATTTTGTTCAGATCGGGTCGGGTTTTTTTAAGTGTGATATTCG
63 -GGTCGGGTCGGGTGAAACTTTATTTTGGTCAGATCGGGAC-GGTTTTTTTAAGTGTGATATTCG
19166 GGTC-G-G-GTTCAAGTTTAGGGTGAAAAATA-TCGACCCGACCCAAAAATATATATAATTTTAC
126 GGTCGGCGAGTTCAAGTTTAGGGTGAAAAATACTCGACCCG-----AAAATATATATAATTTTAC
* * * *
19227 CTTATATATTTAGGAATAATTACAATAATACCCCTCTCTCTATATATATTTTTTCAATTAAGTAA
186 CTTATATATTTAGGAATAATCACAATAATACCCATCTATATATATATATTTTTTCAATTAAGTAA
**
19292 TTGTTTT
251 CCGTTTT
* * *
19299 TATTGAATAAAAATAAATTTTTTATTATTTCGGGTCGAGT--TGGGTTTCTAATTTATATATTCA
1 TATTGAATAAAAAT--ATTTTTTATTATTTCGGGTCGGGTCGTTGGTTTCTAATTCATATATTC-
*
19362 GGTCGGGTCGTGTGAAACTTTATTTTGGTC
63 GGTCGGGTCGGGTGAAACTTTATTTTGGTC
19392 GGGTCGGGTC
Statistics
Matches: 315, Mismatches: 22, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
252 15 0.05
253 24 0.08
254 1 0.00
256 1 0.00
257 25 0.08
258 21 0.07
259 1 0.00
260 45 0.14
261 5 0.02
262 90 0.29
263 64 0.20
264 22 0.07
265 1 0.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (257 bp):
TATTGAATAAAAATATTTTTTATTATTTCGGGTCGGGTCGTTGGTTTCTAATTCATATATTCGGT
CGGGTCGGGTGAAACTTTATTTTGGTCAGATCGGGACGGTTTTTTTAAGTGTGATATTCGGGTCG
GCGAGTTCAAGTTTAGGGTGAAAAATACTCGACCCGAAAATATATATAATTTTACCTTATATATT
TAGGAATAATCACAATAATACCCATCTATATATATATATTTTTTCAATTAAGTAACCGTTTT
Found at i:19787 original size:18 final size:18
Alignment explanation
Indices: 19749--19854 Score: 169
Period size: 18 Copynumber: 5.9 Consensus size: 18
19739 ATATGAAATT
*
19749 AGATTCTAATTCC-TGAC
1 AGATTCTAATTCCTTCAC
*
19766 AGATTCCAATTCCTTCAC
1 AGATTCTAATTCCTTCAC
*
19784 AGATTCTAATTCTTTCAC
1 AGATTCTAATTCCTTCAC
*
19802 AGATTCTAATTCTTTCAC
1 AGATTCTAATTCCTTCAC
19820 AGATTCTAATTCCTTCAC
1 AGATTCTAATTCCTTCAC
19838 AGATTCTAATTCCTTCA
1 AGATTCTAATTCCTTCA
19855 AAAACATTCT
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
17 12 0.14
18 71 0.86
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (18 bp):
AGATTCTAATTCCTTCAC
Found at i:30327 original size:138 final size:138
Alignment explanation
Indices: 30079--30354 Score: 498
Period size: 138 Copynumber: 2.0 Consensus size: 138
30069 AAAGCAGCAA
** *
30079 AGGAAGTTATCAAGTCACTTACTGCCCAAGTAAGATGGATTTGTGTTTGTACTCGATGGATATTG
1 AGGAAGTTATCAAGTCACTTACTGCCCAAGTAAGATGGAGCTGTGTTTGTACTCAATGGATATTG
*
30144 TTTGTTACGAGTGATAATTGCTTTGAATTTTGAACTATAATTTTTTTCCTCTGTTGTTTACTTAG
66 TTTGTTACGAGTGATAATTGCTTTGAATTTTGAACTATAACTTTTTTCCTCTGTTGTTTACTTAG
30209 CTTATCAT
131 CTTATCAT
30217 AGGAAGTTATCAAGTCACTTACTGCCCAAGTAAGATGGAGCTGTGTTTGTACTCAATGGATATTG
1 AGGAAGTTATCAAGTCACTTACTGCCCAAGTAAGATGGAGCTGTGTTTGTACTCAATGGATATTG
* *
30282 TTTGTTACGAGTGATCATTGCTTTGAATTTTGAACTATAACTTTTTTCCTCTGTTGTTTACTTGG
66 TTTGTTACGAGTGATAATTGCTTTGAATTTTGAACTATAACTTTTTTCCTCTGTTGTTTACTTAG
30347 CTTATCAT
131 CTTATCAT
30355 GTTATTTCCC
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 132 1.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.42
Consensus pattern (138 bp):
AGGAAGTTATCAAGTCACTTACTGCCCAAGTAAGATGGAGCTGTGTTTGTACTCAATGGATATTG
TTTGTTACGAGTGATAATTGCTTTGAATTTTGAACTATAACTTTTTTCCTCTGTTGTTTACTTAG
CTTATCAT
Found at i:41001 original size:45 final size:46
Alignment explanation
Indices: 40952--41042 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 46
40942 TTTCACGTCC
40952 AGTTTTTTCAATTA-TTCTCTCTTAAAAGATCACCTTCACCATCAT
1 AGTTTTTTCAATTATTTCTCTCTTAAAAGATCACCTTCACCATCAT
*
40997 AGTTTTTTCAATTATTTTTTCTCTTAAAAGATCACCTTCACCATCA
1 AGTTTTTTCAATTA-TTTCTCTCTTAAAAGATCACCTTCACCATCA
41043 ACGTCGCCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
45 14 0.33
47 29 0.67
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (46 bp):
AGTTTTTTCAATTATTTCTCTCTTAAAAGATCACCTTCACCATCAT
Found at i:46773 original size:10 final size:10
Alignment explanation
Indices: 46758--46782 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46748 TATAATAGCA
46758 TAATAATCAC
1 TAATAATCAC
46768 TAATAATCAC
1 TAATAATCAC
46778 TAATA
1 TAATA
46783 GAGTTTCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (10 bp):
TAATAATCAC
Found at i:54043 original size:21 final size:21
Alignment explanation
Indices: 54018--54073 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
54008 TACATATATC
* *
54018 ATCATCTATTTTCTTAGCATT
1 ATCATCTATATTATTAGCATT
* *
54039 ATCATATATATTATTATCATT
1 ATCATCTATATTATTAGCATT
54060 ATC-TCTATCATTAT
1 ATCATCTAT-ATTAT
54074 CATCAAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.52
Consensus pattern (21 bp):
ATCATCTATATTATTAGCATT
Found at i:54078 original size:21 final size:21
Alignment explanation
Indices: 54035--54078 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
54025 ATTTTCTTAG
*
54035 CATTATCATATATATTATTAT
1 CATTATCATATATATTATCAT
*
54056 CATTATC-TCTATCATTATCAT
1 CATTATCATATAT-ATTATCAT
54077 CA
1 CA
54079 AATTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (21 bp):
CATTATCATATATATTATCAT
Found at i:54560 original size:149 final size:149
Alignment explanation
Indices: 54290--54742 Score: 888
Period size: 149 Copynumber: 3.0 Consensus size: 149
54280 CCGAAGTGCA
*
54290 CGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
*
54355 CATATACATATACTAGGGATCAAGTATGTGCCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
54420 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
54439 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
54504 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
54569 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
54588 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
54653 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
54718 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
54737 CGTAGA
1 CGTAGA
54743 CCCTCGACTC
Statistics
Matches: 302, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 302 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:56195 original size:64 final size:62
Alignment explanation
Indices: 56090--56246 Score: 165
Period size: 64 Copynumber: 2.5 Consensus size: 62
56080 TAATGAAGGT
* * * **
56090 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATG-TTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATT-TTA-AAAG
* *
56154 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATGTTTCTATTTTAAAAG
*
56217 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
56247 ACACCTTCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
63 4 0.05
64 68 0.85
65 8 0.10
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (62 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATTTTAAAAG
Found at i:59279 original size:18 final size:18
Alignment explanation
Indices: 59256--59294 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59246 ATTTTCTTAG
59256 CATTATCATATAT-ATTAT
1 CATTATC-TATATCATTAT
*
59274 CATTATCTCTATCATTAT
1 CATTATCTATATCATTAT
59292 CAT
1 CAT
59295 CAAATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (18 bp):
CATTATCTATATCATTAT
Found at i:59778 original size:149 final size:149
Alignment explanation
Indices: 59508--59962 Score: 847
Period size: 149 Copynumber: 3.0 Consensus size: 149
59498 CCGAAGTGCA
*
59508 CGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
* *
59573 CATATACATATACTAAGGATCAAGTATGTGCCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
59638 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
59657 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
*
59722 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACATAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
59787 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
59806 CGTAGAATTGTACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
59871 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAG-A-ATA
59936 TATATATATCCCGAAGGACCG
129 TATATATATCCCGAAGGACCG
59957 CGTAGA
1 CGTAGA
59963 CCCTCGACTC
Statistics
Matches: 298, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
149 267 0.90
150 1 0.00
151 30 0.10
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:61420 original size:64 final size:62
Alignment explanation
Indices: 61307--61463 Score: 147
Period size: 64 Copynumber: 2.5 Consensus size: 62
61297 TAATGAAGGT
* * * * * **
61307 ATGCATCGATGCACTACTGATGTATCGGTGCATAAAATGCATTCGATG-TTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCAATGTTTCTATT-TTA-AAAG
* *
61371 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCAATGTTTCTATTTTAAAAG
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCAATGTTTCTATTTTAAAAG
*
61434 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
61464 ACACCTTCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
63 4 0.05
64 66 0.85
65 8 0.10
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (62 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCAATGTTTCTATTTTAAAAG
Found at i:64484 original size:21 final size:21
Alignment explanation
Indices: 64459--64514 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
64449 TACATATATC
* *
64459 ATCATCTATTTTCTTAGCATT
1 ATCATCTATATTATTAGCATT
* *
64480 ATCATATATATTATTATCATT
1 ATCATCTATATTATTAGCATT
64501 ATC-TCTATCATTAT
1 ATCATCTAT-ATTAT
64515 CATCAAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.52
Consensus pattern (21 bp):
ATCATCTATATTATTAGCATT
Found at i:64519 original size:21 final size:21
Alignment explanation
Indices: 64476--64519 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
64466 ATTTTCTTAG
*
64476 CATTATCATATATATTATTAT
1 CATTATCATATATATTATCAT
*
64497 CATTATC-TCTATCATTATCAT
1 CATTATCATATAT-ATTATCAT
64518 CA
1 CA
64520 AATTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (21 bp):
CATTATCATATATATTATCAT
Found at i:65104 original size:149 final size:149
Alignment explanation
Indices: 64731--65181 Score: 852
Period size: 149 Copynumber: 3.0 Consensus size: 149
64721 CCGAAGTGCA
*
64731 CGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
* *
64796 CATATACATATACTAAGGATCAAGTATGTGCCTTACAAGACTTCACACATGTTCCACAG-A-ATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
64859 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
64878 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
64943 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
65008 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
65027 CGTAGAATTGTACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
65092 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
65157 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
65176 CGTAGA
1 CGTAGA
65182 CCCTCGACTC
Statistics
Matches: 298, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
147 121 0.41
148 1 0.00
149 176 0.59
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:66632 original size:64 final size:62
Alignment explanation
Indices: 66527--66683 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 62
66517 TAATGAAGGT
* * **
66527 ATGCATCGATGCACTACTGATGCATCGATGCATAAAATGCATTCGATG-TTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATT-TTA-AAAG
* *
66591 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATGTTTCTATTTTAAAAG
*
66654 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
66684 ACACCTTCAA
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
63 4 0.05
64 69 0.85
65 8 0.10
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (62 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATTTTAAAAG
Found at i:68143 original size:35 final size:35
Alignment explanation
Indices: 68069--68158 Score: 85
Period size: 35 Copynumber: 2.5 Consensus size: 35
68059 CGTACAAATT
* **
68069 TAAACACTTAAAAATCT-GAATTACATAATTTAGAAA
1 TAAA-ACTTAAAAAT-TAAAATTACATAATCCAGAAA
**
68105 TAAAGTTTAAAAATTAAAATTACATAATCCA-AATA
1 TAAAACTTAAAAATTAAAATTACATAATCCAGAA-A
*
68140 TAAAACTTAAATATTAAAA
1 TAAAACTTAAAAATTAAAA
68159 GTATATATGC
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
34 3 0.07
35 37 0.84
36 4 0.09
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (35 bp):
TAAAACTTAAAAATTAAAATTACATAATCCAGAAA
Found at i:72723 original size:17 final size:17
Alignment explanation
Indices: 72701--72733 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
72691 ATATATATAA
72701 TAAACTAAACCTAATAT
1 TAAACTAAACCTAATAT
72718 TAAACTAAACCTAATA
1 TAAACTAAACCTAATA
72734 GTCGTATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAACTAAACCTAATAT
Found at i:72777 original size:15 final size:15
Alignment explanation
Indices: 72745--72783 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
72735 TCGTATATCA
72745 TACTCCTCTCACCCTC
1 TACT-CTCTCACCCTC
72761 TACTCTCTC-CCCATC
1 TACTCTCTCACCC-TC
72776 TACTCTCT
1 TACTCTCT
72784 TCCTCACGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 15 0.68
16 4 0.18
ACGTcount: A:0.13, C:0.51, G:0.00, T:0.36
Consensus pattern (15 bp):
TACTCTCTCACCCTC
Found at i:94735 original size:31 final size:31
Alignment explanation
Indices: 94689--94760 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
94679 CGTCGAGGAC
*
94689 CATATTACAAGCGGACTAAATGTTGAGGGAT
1 CATATTACAAACGGACTAAATGTTGAGGGAT
* *
94720 CATATTGCAAACGGACTAAATGTTGGGGGAT
1 CATATTACAAACGGACTAAATGTTGAGGGAT
**
94751 TGTATTACAA
1 CATATTACAA
94761 GTTTTAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (31 bp):
CATATTACAAACGGACTAAATGTTGAGGGAT
Found at i:101093 original size:22 final size:23
Alignment explanation
Indices: 101067--101118 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
101057 GATTCGAGGG
101067 TTTCATAGGTCCTTCGGGACAAA
1 TTTCATAGGTCCTTCGGGACAAA
*
101090 -TTCACAGGTCCTTCGGGACAAA
1 TTTCATAGGTCCTTCGGGACAAA
101112 TTTCATA
1 TTTCATA
101119 TGCCACTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (23 bp):
TTTCATAGGTCCTTCGGGACAAA
Found at i:101955 original size:25 final size:23
Alignment explanation
Indices: 101914--101962 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
101904 TTGGTATGGT
*
101914 AATGAGTATGTTGTTTTGCTAATAG
1 AATGAGTATGTTATTTT--TAATAG
101939 AATGA-TATGTTTATTTTTAATAG
1 AATGAGTATG-TTATTTTTAATAG
101962 A
1 A
101963 TGTCCGGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.32
24 4 0.18
25 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (23 bp):
AATGAGTATGTTATTTTTAATAG
Found at i:111861 original size:21 final size:21
Alignment explanation
Indices: 111803--111864 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
111793 TTGGTGCAGA
111803 GGGAATCGATACTCCCCTTGAAG
1 GGGAATCGATAC-CCCC-TGAAG
* * *
111826 GGGAACCGATTCCCCCTGTAG
1 GGGAATCGATACCCCCTGAAG
*
111847 GGGAATTGATACCCCCTG
1 GGGAATCGATACCCCCTG
111865 GAGGTTATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 19 0.58
22 4 0.12
23 10 0.30
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (21 bp):
GGGAATCGATACCCCCTGAAG
Found at i:115749 original size:31 final size:31
Alignment explanation
Indices: 115711--115819 Score: 146
Period size: 31 Copynumber: 3.5 Consensus size: 31
115701 TAGTTACGTC
*
115711 AGGGACCATATTGCAAACGGACTAAATGTCG
1 AGGGACCATATTGCAAACGGACTAAATGTTG
*
115742 AGGGACCATATTGCAAACAGACTAAATGTTG
1 AGGGACCATATTGCAAACGGACTAAATGTTG
* * *
115773 AGGGACCATATTACAAATGAACTAAATGTTG
1 AGGGACCATATTGCAAACGGACTAAATGTTG
* **
115804 GGGGACTGTATTGCAA
1 AGGGACCATATTGCAA
115820 GTTTTAAAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AGGGACCATATTGCAAACGGACTAAATGTTG
Found at i:116221 original size:24 final size:24
Alignment explanation
Indices: 116193--116247 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 24
116183 AACCAAACGA
116193 AGTTTGAAAATTCTGGCAAACTAC
1 AGTTTGAAAATTCTGGCAAACTAC
116217 AGTTTGAAAATTCTGGCAAACTAC
1 AGTTTGAAAATTCTGGCAAACTAC
116241 AGCTTTG
1 AG-TTTG
116248 CAGGCCCGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 26 0.87
25 4 0.13
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (24 bp):
AGTTTGAAAATTCTGGCAAACTAC
Found at i:116266 original size:3 final size:3
Alignment explanation
Indices: 116258--116330 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
116248 CAGGCCCGAT
116258 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
116306 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
116331 ACTTTTTCAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:120683 original size:22 final size:23
Alignment explanation
Indices: 120666--120732 Score: 113
Period size: 22 Copynumber: 3.0 Consensus size: 23
120656 CTCGTATAAA
120666 TGCA-CGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
120688 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
120710 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
120732 T
1 T
120733 ATGTCCATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
22 37 0.84
23 7 0.16
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:120991 original size:30 final size:30
Alignment explanation
Indices: 120946--121004 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
120936 ATCGCGTAGT
* *
120946 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
120976 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
121005 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:121494 original size:66 final size:67
Alignment explanation
Indices: 121346--121519 Score: 217
Period size: 67 Copynumber: 2.6 Consensus size: 67
121336 TTTTTCTCAT
* * *
121346 GGGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACG
1 GGGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACG
121411 ATGA
64 ATGA
* * * *
121415 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
121479 GA
66 GA
* *
121481 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
121520 AACCCAGAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
65 6 0.06
66 19 0.20
67 57 0.61
69 12 0.13
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:127599 original size:22 final size:22
Alignment explanation
Indices: 127557--127624 Score: 118
Period size: 22 Copynumber: 3.0 Consensus size: 22
127547 CTCGTATAAA
127557 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
*
127580 TGCACCGAAGTGTCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
127602 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
127624 T
1 T
127625 ATGTCCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:127883 original size:30 final size:30
Alignment explanation
Indices: 127838--127896 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
127828 ATCGCGTAGT
* *
127838 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
127868 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
127897 CTCATATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:128385 original size:66 final size:67
Alignment explanation
Indices: 128238--128410 Score: 217
Period size: 67 Copynumber: 2.6 Consensus size: 67
128228 TTTTTCTCAT
* * *
128238 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
128303 TGA
65 TGA
* * *
128306 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCACT-T-CGT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCA-TATACGA
128369 TGA
65 TGA
* *
128372 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
128411 AACCCAGAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
65 6 0.06
66 18 0.19
67 57 0.61
68 13 0.14
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:130977 original size:53 final size:53
Alignment explanation
Indices: 130850--131213 Score: 499
Period size: 53 Copynumber: 6.9 Consensus size: 53
130840 TCTTCAAATG
* * ***
130850 ACGGGTTCTCTCCCTCTTG-TTCAGGGATTAAGGAACTCGAACAATCTTCTAAAA
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCTGCCA
130904 ATCGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCA
1 A-CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCA
*
130958 ACGGGTTCGCTTCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCA
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCA
* * *
131011 ACGGGTTCGCTTCCTCTTGCTTCAGAGAGTAAAACTCGAACAATCTTCTGCCA
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCA
* *
131064 ACGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCA
** * *
131117 AC--AATC-CTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCA
* *
131167 AC-AG-TC-CTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAATCTTCTG
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
131214 GTGTGATTCT
Statistics
Matches: 290, Mismatches: 17, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
50 88 0.30
51 2 0.01
53 152 0.52
54 21 0.07
55 18 0.06
56 9 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (53 bp):
ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCA
Found at i:131593 original size:42 final size:42
Alignment explanation
Indices: 131547--131803 Score: 206
Period size: 42 Copynumber: 6.2 Consensus size: 42
131537 TTACAAATTA
131547 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
* * * * *
131589 CCCGAAGGACTTCATAATCATGCTTGAAAGACTTACTGATAG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
*** * * * * * **
131631 ---GTTTG-TTTCA-CTACTC-TTC-CGTGAAGGCTTA-TAAATTT
1 CCCGAAGGATTTAATC-A-TCATGCTCG-AAAGACTTACT-GATGG
*
131669 CCCGAATGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
* * * * * *
131711 CCCAAAAGACTTCATCATCATTCACGAAAGACTTACTGATGG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
* *
131753 CCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
131795 CCCGAAGGA
1 CCCGAAGGA
131804 CTTACTAAGT
Statistics
Matches: 163, Mismatches: 40, Indels: 24
0.72 0.18 0.11
Matches are distributed among these distances:
37 2 0.01
38 16 0.10
39 4 0.02
41 5 0.03
42 132 0.81
43 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (42 bp):
CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
Found at i:131709 original size:122 final size:122
Alignment explanation
Indices: 131464--131752 Score: 438
Period size: 122 Copynumber: 2.4 Consensus size: 122
131454 AAGGCTTAAA
* *
131464 ATGGCCCGAAAGACTT-ATCATCTTGCTCGAAAGACTTACTGATGGATTTGCTTCACTACTCTTT
1 ATGGCCCGAAAGACTTCATCATCATGCTCGAAAGACTTACTGATGGATTTGCTTCACTACTCTTC
*
131528 GGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
66 CGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
* * * *
131585 ATGGCCCGAAGGACTTCATAATCATGCTTGAAAGACTTACTGATAGG-TTTGTTTCACTACTCTT
1 ATGGCCCGAAAGACTTCATCATCATGCTCGAAAGACTTACTGAT-GGATTTGCTTCACTACTCTT
* * *
131649 CCGTGAAGGCTTATAAATTTCCCGAATGATTTAATCATCATGCTCGAAAGACTTACTG
65 CCGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
* * *
131707 ATGGCCCAAAAGACTTCATCATCATTCACGAAAGACTTACTGATGG
1 ATGGCCCGAAAGACTTCATCATCATGCTCGAAAGACTTACTGATGG
131753 CCCGAAGGAT
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
121 17 0.11
122 131 0.87
123 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (122 bp):
ATGGCCCGAAAGACTTCATCATCATGCTCGAAAGACTTACTGATGGATTTGCTTCACTACTCTTC
CGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
Found at i:132018 original size:42 final size:41
Alignment explanation
Indices: 131923--132023 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
131913 AGGTCTTATG
* * *
131923 GATGGCCCGAATGACTTATCATCTTGCTCTAACAGCTTACA
1 GATGGCCCGAAGGACTTATCATCATGCTCGAACAGCTTACA
* * * * *
131964 AATGACCTGAAGGATTTCATCATCATGCTCGAA-AGACTTACT
1 GATGGCCCGAAGGACTT-ATCATCATGCTCGAACAG-CTTACA
132006 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
132024 AATTGTTTAC
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
41 15 0.33
42 31 0.67
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTCGAACAGCTTACA
Found at i:135274 original size:103 final size:103
Alignment explanation
Indices: 135049--135266 Score: 319
Period size: 103 Copynumber: 2.1 Consensus size: 103
135039 GTCGAGGGTC
* * *
135049 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATATGTGAAGCCTGGTGAGACACATAC
* * *
135114 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTATTAAGGAATGA
* * * * *
135152 TATGCGGTCATTCGGGACATATATGTATTCTTTGGAACATATGTGAAGCCTGGTGAGATATATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATATGTGAAGCCTGGTGAGACACATAC
*
135217 TTGATCCCTAGTATATGTATATGATTATTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTATTAAGGAATGA
*
135255 TATGTGATCCTT
1 TATGTGGTCCTT
135267 ATGGACATTA
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATATGTGAAGCCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTATTAAGGAATGA
Found at i:135365 original size:23 final size:23
Alignment explanation
Indices: 135282--135357 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
135272 CATTATTATA
*
135282 TGGCACTACGATGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
135305 CGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
135328 TGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
135351 TGGCACT
1 TGGCACT
135358 TTGGTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:135373 original size:23 final size:23
Alignment explanation
Indices: 135273--135373 Score: 94
Period size: 23 Copynumber: 4.3 Consensus size: 23
135263 CCTTATGGAC
* *
135273 ATTATTATATGGCACTACGATGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * *
135297 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* *
135320 ATTCTACGTGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* **
135343 ATTCTATGTGGCACTTTGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
135366 TTTATATG
1 ATTATATG
135374 AGCTGTGGTG
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
23 63 0.95
24 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:138315 original size:30 final size:30
Alignment explanation
Indices: 138244--138303 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
138234 ACAATTTAAG
138244 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
138274 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
138304 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:138925 original size:34 final size:32
Alignment explanation
Indices: 138882--138951 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
138872 TTTTATAAAG
*
138882 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
138916 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
138948 GGGA
1 GGGA
138952 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:139835 original size:19 final size:20
Alignment explanation
Indices: 139811--139858 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
139801 AACGATTTTC
*
139811 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
139830 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
139850 TTTTGAAAA
1 TTTTGAAAA
139859 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:141171 original size:30 final size:30
Alignment explanation
Indices: 141135--141194 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
141125 ATAATTTAAG
141135 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
141165 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
141195 ATTCAAAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:141292 original size:21 final size:21
Alignment explanation
Indices: 141266--141344 Score: 149
Period size: 21 Copynumber: 3.8 Consensus size: 21
141256 AGGGTGTCAA
141266 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
141287 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
141308 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
*
141329 AGTGCATCTATGCATC
1 AGTGCATCCATGCATC
141345 TGCACTAATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.20, C:0.35, G:0.19, T:0.25
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:141294 original size:13 final size:13
Alignment explanation
Indices: 141276--141336 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
141266 AGTGCATCCA
141276 TGCATCCCTGCAG
1 TGCATCCCTGCAG
141289 TGCAT--C--CA-
1 TGCATCCCTGCAG
141297 TGCATCCCTGCAG
1 TGCATCCCTGCAG
141310 TGCAT--C--CA-
1 TGCATCCCTGCAG
141318 TGCATCCCTGCAG
1 TGCATCCCTGCAG
141331 TGCATC
1 TGCATC
141337 TATGCATCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 20
0.66 0.00 0.34
Matches are distributed among these distances:
8 10 0.26
9 4 0.11
10 2 0.05
11 2 0.05
12 4 0.11
13 16 0.42
ACGTcount: A:0.18, C:0.38, G:0.20, T:0.25
Consensus pattern (13 bp):
TGCATCCCTGCAG
Found at i:144058 original size:16 final size:16
Alignment explanation
Indices: 144037--144074 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
144027 TTCTTGTTCT
144037 TAGCTCTAACGGCTTC
1 TAGCTCTAACGGCTTC
144053 TAGCTCTAACGGCTTC
1 TAGCTCTAACGGCTTC
144069 TAGCTC
1 TAGCTC
144075 AGCGTCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (16 bp):
TAGCTCTAACGGCTTC
Found at i:145741 original size:21 final size:21
Alignment explanation
Indices: 145690--145741 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
145680 TACGAAGTGA
145690 TCTTCATGTCTTTGTGAAGAG
1 TCTTCATGTCTTTGTGAAGAG
* *
145711 TCTGCATGTCTTTGTGAAGGG
1 TCTTCATGTCTTTGTGAAGAG
*
145732 TCTTCTTGTC
1 TCTTCATGTC
145742 CTTGGTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.44
Consensus pattern (21 bp):
TCTTCATGTCTTTGTGAAGAG
Found at i:147203 original size:172 final size:172
Alignment explanation
Indices: 146902--147224 Score: 630
Period size: 172 Copynumber: 1.9 Consensus size: 172
146892 CCTGACTCTC
146902 TAAAAAAAGTCCCCAGTGGAGTCGCCAAGCTGTCGAAACGATTTTTTCCCTAAAGGTGAGAAAAG
1 TAAAAAAAGTCCCCAGTGGAGTCGCCAAGCTGTCGAAACGATTTTTTCCCTAAAGGTGAGAAAAG
146967 TGATATTTTGAAAACCACATTAATTCTAAATTATCTCTTTTTAATTTAAAAATAAATGTGATTTA
66 TGATATTTTGAAAACCACATTAATTCTAAATTATCTCTTTTTAATTTAAAAATAAATGTGATTT-
147032 AAAGATCTATCGTTTCGAAAATTTGAATTTCCTTTACGATCGA
130 AAAGATCTATCGTTTCGAAAATTTGAATTTCCTTTACGATCGA
147075 TAAAAAAAGTCCCC-GTGGAGTCGCCAAGCTGTCGAAACGATTTTTTCCCTAAAGGTGAGAAAAG
1 TAAAAAAAGTCCCCAGTGGAGTCGCCAAGCTGTCGAAACGATTTTTTCCCTAAAGGTGAGAAAAG
147139 TGATATTTTGAAAACCACATTAATTCTAAATTATCTCTTTTTAATTTAAAAATAAATGTGATTTA
66 TGATATTTTGAAAACCACATTAATTCTAAATTATCTCTTTTTAATTTAAAAATAAATGTGATTTA
147204 AAGATCTATCGTTTCGAAAAT
131 AAGATCTATCGTTTCGAAAAT
147225 CGTTTCGAAA
Statistics
Matches: 150, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
171 22 0.15
172 114 0.76
173 14 0.09
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (172 bp):
TAAAAAAAGTCCCCAGTGGAGTCGCCAAGCTGTCGAAACGATTTTTTCCCTAAAGGTGAGAAAAG
TGATATTTTGAAAACCACATTAATTCTAAATTATCTCTTTTTAATTTAAAAATAAATGTGATTTA
AAGATCTATCGTTTCGAAAATTTGAATTTCCTTTACGATCGA
Found at i:147228 original size:12 final size:12
Alignment explanation
Indices: 147211--147235 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
147201 TTAAAGATCT
147211 ATCGTTTCGAAA
1 ATCGTTTCGAAA
147223 ATCGTTTCGAAA
1 ATCGTTTCGAAA
147235 A
1 A
147236 ATTTTGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ATCGTTTCGAAA
Found at i:155745 original size:22 final size:21
Alignment explanation
Indices: 155694--155746 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
155684 TGTACTCCTT
155694 TTCCTATAATTGATACATTAA
1 TTCCTATAATTGATACATTAA
* * **
155715 TGTCATATAATTTATATTTCTAA
1 T-TCCTATAATTGATACAT-TAA
155738 TTCCTATAA
1 TTCCTATAA
155747 CATCCTCACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (21 bp):
TTCCTATAATTGATACATTAA
Found at i:197802 original size:3 final size:3
Alignment explanation
Indices: 197796--197919 Score: 185
Period size: 3 Copynumber: 41.0 Consensus size: 3
197786 TTCATCTAAA
** *
197796 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
197844 ATT AGT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
*
197890 ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
197920 TAATAAATAA
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
3 105 0.97
4 3 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:207436 original size:92 final size:92
Alignment explanation
Indices: 207279--207836 Score: 938
Period size: 92 Copynumber: 6.1 Consensus size: 92
207269 AATAAGGAGA
* *
207279 CTCATAGTATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
1 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
207344 AGTTATTGAATTTGGAAGAGGAATGTG
66 AGTTATTGAATTTGGAAGAGGAATGTG
* *
207371 CTCATAGTATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
1 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
207436 AGTTATTGAATTTGGAAGAGGAATGTG
66 AGTTATTGAATTTGGAAGAGGAATGTG
207463 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
1 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
207528 AGTTATTGAATTTGGAAGAGGAATGTG
66 AGTTATTGAATTTGGAAGAGGAATGTG
207555 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
1 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
207620 AGTTATTGAATTTGGAAGAGGAATGTG
66 AGTTATTGAATTTGGAAGAGGAATGTG
207647 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
1 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
* * * *
207712 AATCATTGAATTTTGAAGA-CAATGTG
66 AGTTATTGAATTTGGAAGAGGAATGTG
* * * * *
207738 CTCATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGATTTGGTATGAACCCCAAAACC
1 CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
* * ** * *
207803 AATCATTGAATTTAAAAGATGAATTTG
66 AGTTATTGAATTTGGAAGAGGAATGTG
207830 CTCATAG
1 CTCATAG
207837 TAGAAATAAG
Statistics
Matches: 450, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
91 83 0.18
92 367 0.82
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (92 bp):
CTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACC
AGTTATTGAATTTGGAAGAGGAATGTG
Found at i:210027 original size:64 final size:64
Alignment explanation
Indices: 209917--210039 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 64
209907 TCAATAATTA
*** *
209917 CGAACATCTAAACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTG
1 CGAACATCTAAACAGAAACCACAGGAAAGGATGAATGCACTATCAAATGTTTTACGAACATCTG
* *
209981 CGAACATCTGAACAGAAGCCACAGGAAAGGATGAATGCACTATCAAATGTTTTACGAAC
1 CGAACATCTAAACAGAAACCACAGGAAAGGATGAATGCACTATCAAATGTTTTACGAAC
210040 CTGCTATTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (64 bp):
CGAACATCTAAACAGAAACCACAGGAAAGGATGAATGCACTATCAAATGTTTTACGAACATCTG
Found at i:210430 original size:22 final size:22
Alignment explanation
Indices: 210402--210456 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
210392 ATCTACATTC
*
210402 TTCAAAGATGATAGGTTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
210424 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
210446 TTCAAAAATGA
1 TTCAAAGATGA
210457 AAGCTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:211258 original size:76 final size:76
Alignment explanation
Indices: 211132--211922 Score: 1483
Period size: 76 Copynumber: 10.4 Consensus size: 76
211122 CTATTTCCCA
211132 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
211197 AGCCTTCGGGT
66 AGCCTTCGGGT
211208 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTTGATGTTTTTA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGC-TTTTTGATGTTTTTA
211273 AAGCCTTCGGGT
65 AAGCCTTCGGGT
*
211285 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
211350 AGCCTTCGGGT
66 AGCCTTCGGGT
*
211361 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
211426 AGCCTTCGGGT
66 AGCCTTCGGGT
211437 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
211502 AGCCTTCGGGT
66 AGCCTTCGGGT
*
211513 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
211578 AGCCTTCGGGT
66 AGCCTTCGGGT
211589 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
211654 AGCCTTCGGGT
66 AGCCTTCGGGT
211665 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
211730 AGCCTTCGGGT
66 AGCCTTCGGGT
* * * *
211741 CATCTATAAGTCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
211806 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
211817 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
211882 AGCCTTCGGGT
66 AGCCTTCGGGT
*
211893 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
211923 TCAACATTTC
Statistics
Matches: 703, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
76 628 0.89
77 75 0.11
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
AGCCTTCGGGT
Found at i:212060 original size:3 final size:3
Alignment explanation
Indices: 212054--212194 Score: 201
Period size: 3 Copynumber: 47.0 Consensus size: 3
212044 TTCATCTAAA
** *
212054 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
212102 ATT AGT ATT ATT ATT ATT AGT AGT ATT ATT ATT ATT ATA ATA ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
212150 ATT ATT ATT ATT ATT ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
212195 TAATAAATAA
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 124 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:227405 original size:30 final size:30
Alignment explanation
Indices: 227364--227424 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
227354 ACGTCCTCAG
* *
227364 CATCTTCTATCTCAATCTCTCCCCCGTCAA
1 CATCCTCTATCTCAATCTCTCCCCCATCAA
*
227394 CATCCTCTATCTCAATCTCTCTCCCATCAA
1 CATCCTCTATCTCAATCTCTCCCCCATCAA
227424 C
1 C
227425 CTTATCCGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.21, C:0.44, G:0.02, T:0.33
Consensus pattern (30 bp):
CATCCTCTATCTCAATCTCTCCCCCATCAA
Found at i:229234 original size:10 final size:10
Alignment explanation
Indices: 229216--229248 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
229206 ATTTAAATGA
229216 AAATAAAATCG
1 AAAT-AAATCG
229227 AAATAAATCG
1 AAATAAATCG
229237 AAATAAATCG
1 AAATAAATCG
229247 AA
1 AA
229249 TATGGAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (10 bp):
AAATAAATCG
Found at i:253353 original size:60 final size:59
Alignment explanation
Indices: 253285--253397 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 59
253275 CTATAAGATA
* * * * *
253285 TTGCTTTGTTGATTCCCCTGATTATTAAAAGTTACAAAATGGTCTCTCGACTATAGGAAG
1 TTGCTTTGTTGAATCCCCTGACTATTAAAAGATAC-AAATGATCTCCCGACTATAGGAAG
* *
253345 TTGCTTTGTTGAATCCCTTGACTGTTAAAAGATACAAATGATCTCCCGACTAT
1 TTGCTTTGTTGAATCCCCTGACTATTAAAAGATACAAATGATCTCCCGACTAT
253398 TCATTATGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 16 0.35
60 30 0.65
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (59 bp):
TTGCTTTGTTGAATCCCCTGACTATTAAAAGATACAAATGATCTCCCGACTATAGGAAG
Found at i:253660 original size:15 final size:15
Alignment explanation
Indices: 253640--253674 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
253630 CAAAGTACTC
253640 TATAAAATAATTCCT
1 TATAAAATAATTCCT
253655 TATAAAATAATTCCT
1 TATAAAATAATTCCT
253670 TATAA
1 TATAA
253675 TTGGGGGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (15 bp):
TATAAAATAATTCCT
Found at i:258637 original size:35 final size:37
Alignment explanation
Indices: 258552--258637 Score: 86
Period size: 40 Copynumber: 2.3 Consensus size: 37
258542 CTCACTACTT
* * * * *
258552 TAATTTTTATTTTATTTTATCATTTCTATATTTTACA
1 TAATTTTAATTTTATTTGATAATTGCAATATTTTACA
258589 TAATTTAAATAATTTTATTTGATAATTGCAAT-TTTTA-A
1 TAATTT---TAATTTTATTTGATAATTGCAATATTTTACA
258627 TAATTTTAATT
1 TAATTTTAATT
258638 ATTTATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
35 5 0.12
37 6 0.15
38 7 0.17
39 5 0.12
40 18 0.44
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (37 bp):
TAATTTTAATTTTATTTGATAATTGCAATATTTTACA
Found at i:263641 original size:31 final size:31
Alignment explanation
Indices: 263599--263683 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
263589 TTTTGTTTTT
263599 CATGTTCGTTCATTAAAGAATATAGCTTGTA
1 CATGTTCGTTCATTAAAGAATATAGCTTGTA
* * *
263630 CATGTTTGTTCATTAAGGAATATAGCTTGTT
1 CATGTTCGTTCATTAAAGAATATAGCTTGTA
* *
263661 CATGTTCGTCCATTTAAATAATA
1 CATGTTCGTTCA-TTAAAGAATA
263684 AATGAACACG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 38 0.83
32 8 0.17
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (31 bp):
CATGTTCGTTCATTAAAGAATATAGCTTGTA
Found at i:265376 original size:17 final size:18
Alignment explanation
Indices: 265342--265378 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
265332 AATGTTAAAG
265342 AAAAACATAATAATAATA
1 AAAAACATAATAATAATA
265360 AAAAACA-AATCAA-AATA
1 AAAAACATAAT-AATAATA
265377 AA
1 AA
265379 TACGAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAACATAATAATAATA
Found at i:265430 original size:17 final size:15
Alignment explanation
Indices: 265396--265448 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 15
265386 GAAAAGAGGG
265396 AAAATAAATAAATAA
1 AAAATAAATAAATAA
*
265411 AAAATAAATAAGTTTAA
1 AAAATAAATAA--ATAA
265428 AAAATAAATAAA-AA
1 AAAATAAATAAATAA
*
265442 AGAATAA
1 AAAATAA
265449 GGAGAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 8 0.24
15 11 0.33
17 14 0.42
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (15 bp):
AAAATAAATAAATAA
Found at i:265456 original size:27 final size:28
Alignment explanation
Indices: 265401--265470 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
265391 GAGGGAAAAT
***
265401 AAATAAATAAAAAATAAATAAGTTTAAA
1 AAATAAATAAAAAATAAATAAGGAGAAA
*
265429 AAATAAATAAAAAA-GAATAAGGAGAAA
1 AAATAAATAAAAAATAAATAAGGAGAAA
265456 AATGATAAATAAAAA
1 AA--ATAAATAAAAA
265471 TTGGATTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 11 0.31
28 14 0.39
29 11 0.31
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.19
Consensus pattern (28 bp):
AAATAAATAAAAAATAAATAAGGAGAAA
Found at i:265574 original size:14 final size:15
Alignment explanation
Indices: 265548--265579 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
265538 AAATAAAGTT
265548 TGAAATCAATAATAA
1 TGAAATCAATAATAA
265563 TGAAAT-AATAATAA
1 TGAAATCAATAATAA
265577 TGA
1 TGA
265580 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.28
Consensus pattern (15 bp):
TGAAATCAATAATAA
Found at i:266805 original size:3 final size:3
Alignment explanation
Indices: 266799--266861 Score: 57
Period size: 3 Copynumber: 22.7 Consensus size: 3
266789 AAAAGAAAAA
* *
266799 AAT AAT AAGT AAT AA- AA- AAA AAA AAT AA- AA- AAT AA- AAT AAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
266840 AAT AAT AAT AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
266862 AAAAACATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
2 12 0.22
3 39 0.72
4 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:266819 original size:20 final size:19
Alignment explanation
Indices: 266794--266861 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
266784 ACGAAAAAAG
266794 AAAAAAATAATAAGTAAT-A
1 AAAAAAATAATAA-TAATAA
266813 AAAAAAA-AA-AATAA-AA
1 AAAAAAATAATAATAATAA
*
266829 AATAAAATAATAATAATAA
1 AAAAAAATAATAATAATAA
*
266848 TAATAAAATAATAA
1 -AAAAAAATAATAA
266862 AAAAACATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
16 10 0.23
17 4 0.09
18 7 0.16
19 9 0.21
20 13 0.30
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (19 bp):
AAAAAAATAATAATAATAA
Found at i:266822 original size:7 final size:7
Alignment explanation
Indices: 266795--266863 Score: 59
Period size: 8 Copynumber: 8.9 Consensus size: 7
266785 CGAAAAAAGA
266795 AAAAAAT
1 AAAAAAT
266802 AATAAGTAAT
1 AA-AA--AAT
266812 AAAAAA-
1 AAAAAAT
266818 AAAAAAT
1 AAAAAAT
266825 AAAAAAT
1 AAAAAAT
266832 AAAATAAT
1 AAAA-AAT
266840 AATAATAAT
1 AA-AA-AAT
266849 AATAAAAT
1 AA-AAAAT
266857 AATAAAA
1 AA-AAAA
266864 AAACATTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.11
7 15 0.27
8 17 0.30
9 13 0.23
10 5 0.09
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.20
Consensus pattern (7 bp):
AAAAAAT
Found at i:266830 original size:11 final size:11
Alignment explanation
Indices: 266814--266866 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
266804 TAAGTAATAA
266814 AAAAAAAAAAT
1 AAAAAAAAAAT
266825 AAAAAATAAAAT
1 AAAAAA-AAAAT
* *
266837 AATAATAATAAT
1 AA-AAAAAAAAT
* *
266849 AATAAAATAAT
1 AAAAAAAAAAT
266860 AAAAAAA
1 AAAAAAA
266867 CATTTTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 19 0.54
12 13 0.37
13 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:266861 original size:35 final size:35
Alignment explanation
Indices: 266797--266865 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
266787 AAAAAAGAAA
266797 AAAATAATAAGTAATAAAAAAAAAAAATAAAAAAT
1 AAAATAATAAGTAATAAAAAAAAAAAATAAAAAAT
* *
266832 AAAATAATAA-TAATAATAATAAAATAATAAAAAA
1 AAAATAATAAGTAATAA-AAAAAAAAAATAAAAAA
266866 ACATTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 6 0.19
35 25 0.81
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.20
Consensus pattern (35 bp):
AAAATAATAAGTAATAAAAAAAAAAAATAAAAAAT
Found at i:266900 original size:37 final size:36
Alignment explanation
Indices: 266875--266978 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 36
266865 AACATTTTTT
266875 AAACTATATAACATATATGTTTAAAAAATAATTTTCA
1 AAACTATATAACATATAT-TTTAAAAAATAATTTTCA
* * * *
266912 AAACTATATAATATATATTTTCAAAAATTATTTTAAA
1 AAACTATATAACATATATTTTAAAAAATAATTTT-CA
* *
266949 AAATTATATATTATATATATTTTTAAAAAA
1 AAACTATATA--ACATATA-TTTTAAAAAA
266979 CGTTTTAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
36 14 0.25
37 27 0.47
39 7 0.12
40 9 0.16
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (36 bp):
AAACTATATAACATATATTTTAAAAAATAATTTTCA
Found at i:266926 original size:35 final size:37
Alignment explanation
Indices: 266875--267005 Score: 106
Period size: 37 Copynumber: 3.5 Consensus size: 37
266865 AACATTTTTT
* *
266875 AAACTATATAACATATATGTTTAAAAAATAATTTT-CA
1 AAACTATATAATATATA-GTTTAAAAAATAATTTTAAA
* * *
266912 AAACTATATAATATATATTTTCAAAAATTATTTTAAA
1 AAACTATATAATATATAGTTTAAAAAATAATTTTAAA
* * **
266949 AAATTATATATTATATATATTTTTAAAAAA-CGTTTTAAA
1 AAACTATATA--ATATATA-GTTTAAAAAATAATTTTAAA
266988 AATA-TATATATATATATA
1 AA-ACTATATA-ATATATA
267006 TATATGTATA
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
36 14 0.17
37 26 0.32
38 8 0.10
39 22 0.28
40 10 0.12
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (37 bp):
AAACTATATAATATATAGTTTAAAAAATAATTTTAAA
Found at i:266964 original size:44 final size:44
Alignment explanation
Indices: 266916--267148 Score: 181
Period size: 44 Copynumber: 5.1 Consensus size: 44
266906 TTTTCAAAAC
266916 TATATAATATATATTTTCAAAAATTATTTTAAAAAAT-TATATAT-
1 TATATAATATATATTTTC-AAAA-TATTTTAAAAAATATATATATA
** **
266960 TATAT-ATAT-T-TTTAAAAAACGTTTTAAAAATATATATATATATA
1 TATATAATATATATTTTCAAAATATTTT-AAAA-A-ATATATATATA
* * *
267004 TATATATGTATATATATGTTTTTAAAATGTTTTAAAAACTATATAGTATA
1 TATATA---ATATATA--TTTTCAAAATATTTTAAAAAATATATA-TATA
* * *
267054 TATATATATATATGTTTTCAAAATGTTTTAAAAACTATATA-ATA
1 TATATA-ATATATATTTTCAAAATATTTTAAAAAATATATATATA
* * *
267098 TATATGTATATATATTTTCAAAATATTTTAAAAACTCTATAATATA
1 TATAT-AATATATATTTTCAAAATATTTTAAAAAATATAT-ATATA
267144 TATAT
1 TATAT
267149 GTTTTCAAAA
Statistics
Matches: 158, Mismatches: 14, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
39 4 0.03
40 8 0.05
41 4 0.03
42 3 0.02
43 11 0.07
44 48 0.30
45 1 0.01
46 34 0.22
48 11 0.07
49 7 0.04
50 11 0.07
51 4 0.03
52 12 0.08
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (44 bp):
TATATAATATATATTTTCAAAATATTTTAAAAAATATATATATA
Found at i:266970 original size:39 final size:41
Alignment explanation
Indices: 266916--267010 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 41
266906 TTTTCAAAAC
* **
266916 TATATAATATATATTTTCAAAAATTATTTTAAAAA-AT-TA
1 TATATTATATATATTTTCAAAAAACATTTTAAAAATATATA
* *
266955 TATATTATATATATTTTTAAAAAACGTTTTAAAAATATATA
1 TATATTATATATATTTTCAAAAAACATTTTAAAAATATATA
266996 TATATATATATATAT
1 TATAT-TATATATAT
267011 GTATATATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 30 0.62
40 2 0.04
41 7 0.15
42 9 0.19
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (41 bp):
TATATTATATATATTTTCAAAAAACATTTTAAAAATATATA
Found at i:266994 original size:2 final size:2
Alignment explanation
Indices: 266989--267020 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
266979 CGTTTTAAAA
*
266989 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
267021 GTTTTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:267010 original size:46 final size:46
Alignment explanation
Indices: 266953--267148 Score: 211
Period size: 46 Copynumber: 4.2 Consensus size: 46
266943 TTTAAAAAAT
* *
266953 TATATAT-TATATATATTTTTAAAAAACGTTTTAAAAATATATATATA
1 TATATATATATATATATTTTTAAAAAATGTTTTAAAAA-CTATATA-A
** *
267000 TATATATATATGTATATATATGTTTTTAAAATGTTTTAAAAACTATATAG
1 TATATATATA--TATATAT-T-TTTAAAAAATGTTTTAAAAACTATATAA
*
267050 TATATATATATATATATGTTTT-CAAAATGTTTTAAAAACTATATAA
1 TATATATATATATATAT-TTTTAAAAAATGTTTTAAAAACTATATAA
* * * *
267096 TATATATGTATATATA-TTTT-CAAAATATTTTAAAAACTCTATAA
1 TATATATATATATATATTTTTAAAAAATGTTTTAAAAACTATATAA
267140 TATATATAT
1 TATATATAT
267149 GTTTTCAAAA
Statistics
Matches: 132, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
44 34 0.26
46 37 0.28
47 10 0.08
48 10 0.08
50 17 0.13
51 7 0.05
52 17 0.13
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (46 bp):
TATATATATATATATATTTTTAAAAAATGTTTTAAAAACTATATAA
Found at i:267055 original size:36 final size:35
Alignment explanation
Indices: 267054--267319 Score: 253
Period size: 36 Copynumber: 7.4 Consensus size: 35
267044 ATATAGTATA
*
267054 TATATATATATATGTTTTCAAAATGTTTTAAAAAC
1 TATATATATATATATTTTCAAAATGTTTTAAAAAC
*
267089 TATATAATATATATGTATATATATTTTCAAAATATTTTAAAAAC
1 -------TATATA--TATATATATTTTCAAAATGTTTTAAAAAC
* *
267133 TCTATA-ATATATA---T----ATGTTTTCAAAAC
1 TATATATATATATATTTTCAAAATGTTTTAAAAAC
267160 TATATATTATATATATTTTCAAAATGTTTTAAAAAC
1 TATATA-TATATATATTTTCAAAATGTTTTAAAAAC
* *
267196 TATATATTATACATATTTTCAAAATGTTTTAAAAAT
1 TATATA-TATATATATTTTCAAAATGTTTTAAAAAC
267232 TATATAATATATATACGTTTTCAAAAATGTTTTAAAAAC
1 TATAT-ATATATATA--TTTTC-AAAATGTTTTAAAAAC
* *
267271 TATATATCATATATATTTTCAAAATGTTTTCAAAAT
1 TATATAT-ATATATATTTTCAAAATGTTTTAAAAAC
267307 TATATA-ATATATA
1 TATATATATATATA
267320 ATATATATTA
Statistics
Matches: 195, Mismatches: 13, Indels: 40
0.79 0.05 0.16
Matches are distributed among these distances:
27 16 0.08
29 7 0.04
31 1 0.01
32 1 0.01
34 14 0.07
36 78 0.40
37 11 0.06
38 7 0.04
39 27 0.14
42 6 0.03
44 27 0.14
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (35 bp):
TATATATATATATATTTTCAAAATGTTTTAAAAAC
Found at i:267148 original size:25 final size:25
Alignment explanation
Indices: 267120--267183 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 25
267110 TATTTTCAAA
* *
267120 ATATTTTAAAAACTCTATAATATAT
1 ATATTTTCAAAACTATATAATATAT
*
267145 ATATGTTTTCAAAACTATATATTATAT
1 ATA--TTTTCAAAACTATATAATATAT
267172 ATATTTTCAAAA
1 ATATTTTCAAAA
267184 TGTTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.35
27 22 0.65
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (25 bp):
ATATTTTCAAAACTATATAATATAT
Found at i:267149 original size:46 final size:46
Alignment explanation
Indices: 266953--267150 Score: 222
Period size: 44 Copynumber: 4.2 Consensus size: 46
266943 TTTAAAAAAT
* * *
266953 TATATAT-TATATATATTTTTAAAAAACGTTTTAAAAATATATATATATATA
1 TATATATGTATATATA-TTTT-CAAAATGTTTT-AAAA-A-CTATATA-ATA
* *
267004 TATATATGTATATATATGTTTTTAAAATGTTTTAAAAACTATATAGTA
1 TATATATGTATATATA--TTTTCAAAATGTTTTAAAAACTATATAATA
* *
267052 TATATATATATATATGTTTTCAAAATGTTTTAAAAACTATAT-A-A
1 TATATATGTATATATATTTTCAAAATGTTTTAAAAACTATATAATA
* *
267096 TATATATGTATATATATTTTCAAAATATTTTAAAAACTCTATAATA
1 TATATATGTATATATATTTTCAAAATGTTTTAAAAACTATATAATA
267142 TATATATGT
1 TATATATGT
267151 TTTCAAAACT
Statistics
Matches: 130, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
44 39 0.30
45 1 0.01
46 35 0.27
48 16 0.12
49 6 0.05
50 1 0.01
51 11 0.08
52 17 0.13
53 4 0.03
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (46 bp):
TATATATGTATATATATTTTCAAAATGTTTTAAAAACTATATAATA
Found at i:267171 original size:63 final size:62
Alignment explanation
Indices: 267096--267219 Score: 187
Period size: 63 Copynumber: 2.0 Consensus size: 62
267086 AACTATATAA
* * *
267096 TATATATGTATATATATTTTCAAAATATTTTAAAAACTCTATAATATATATATGTTTTCAAAAC
1 TATATATGTATATATATTTTCAAAATATTTTAAAAACTATAT-AT-TATACATATTTTCAAAAC
*
267160 TATATAT-TATATATATTTTCAAAATGTTTTAAAAACTATATATTATACATATTTTCAAAA
1 TATATATGTATATATATTTTCAAAATATTTTAAAAACTATATATTATACATATTTTCAAAA
267220 TGTTTTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
61 15 0.27
62 2 0.04
63 32 0.57
64 7 0.12
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (62 bp):
TATATATGTATATATATTTTCAAAATATTTTAAAAACTATATATTATACATATTTTCAAAAC
Found at i:267275 original size:75 final size:72
Alignment explanation
Indices: 267147--267319 Score: 274
Period size: 75 Copynumber: 2.4 Consensus size: 72
267137 TAATATATAT
* * *
267147 ATGTTTTCAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATATTATACATAT
1 ATGTTTTCAAAATTATATAATATATATATTTTCAAAATGTTTTAAAAACTATATATCATACATAT
267212 TTTCAAA
66 TTTCAAA
* *
267219 ATGTTTTAAAAATTATATAATATATATACGTTTTCAAAAATGTTTTAAAAACTATATATCATATA
1 ATGTTTTCAAAATTATATAATATATATA--TTTTC-AAAATGTTTTAAAAACTATATATCATACA
267284 TATTTTCAAA
63 TATTTTCAAA
267294 ATGTTTTCAAAATTATATAATATATA
1 ATGTTTTCAAAATTATATAATATATA
267320 ATATATATTA
Statistics
Matches: 92, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
72 25 0.27
74 5 0.05
75 62 0.67
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (72 bp):
ATGTTTTCAAAATTATATAATATATATATTTTCAAAATGTTTTAAAAACTATATATCATACATAT
TTTCAAA
Found at i:267343 original size:75 final size:75
Alignment explanation
Indices: 267189--267343 Score: 195
Period size: 75 Copynumber: 2.1 Consensus size: 75
267179 CAAAATGTTT
* * *
267189 TAAAAACTATATATTATACATATTTTCAAAATGTTTTAAAAATTATATAATATATATACGTTTTC
1 TAAAAACTATATATCATACATATTTTCAAAATGTTTTAAAAATTATATAATATATATACATATTC
****
267254 AAAAATGTTT
66 AAAAATAAAA
* * *
267264 TAAAAACTATATATCATATATATTTTCAAAATGTTTTCAAAATTATATAATATATAATATATATT
1 TAAAAACTATATATCATACATATTTTCAAAATGTTTTAAAAATTATATAATATAT-ATACATATT
*
267329 -ATAAATAAAA
65 CAAAAATAAAA
267339 TAAAA
1 TAAAA
267344 TAAAAAAGAC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
75 62 0.91
76 6 0.09
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (75 bp):
TAAAAACTATATATCATACATATTTTCAAAATGTTTTAAAAATTATATAATATATATACATATTC
AAAAATAAAA
Found at i:268123 original size:84 final size:84
Alignment explanation
Indices: 268007--268413 Score: 507
Period size: 84 Copynumber: 4.9 Consensus size: 84
267997 GGTCTTTGGC
* * * * * * *
268007 AGATAACCCTTCTCAACTTAAGCTATGTTGCAAATGATATGCCTTAGAGTTGAGCGGAGTCAAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
268072 TCGAAGGTCTTTGGTTGGA-
66 TCGAAGGTCTTTGGTT-GAT
* * * *
268091 AGATAACCCTTCCCGACTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTGAGTGTAATCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
* *
268156 TCGAAGGTCTTTGGATGAC
66 TCGAAGGTCTTTGGTTGAT
* * *
268175 AGATAGCCCTTCTCGACTTAAGCTT-TGCTGCAAATGATGTGCCTTGGAGCTGAGCGGAGTCGAA
1 AGATAACCCTTCTCGACTTAAG-TTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
*
268239 CTCGAAGGTATTTGGTTGAT
65 CTCGAAGGTCTTTGGTTGAT
* * * * *
268259 AGATAACCCTTCTTGACATAAGTTATGCTGCAAATGAGATGCCTTGGAGCTGAGTGTAATCGAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
268324 TCGAAGGTCTTTGG-TGAT
66 TCGAAGGTCTTTGGTTGAT
* * * * * * *
268342 AGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGTCTTTGAGCTG-GCGTAGTCAAAC
1 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
268406 TCGAAGGT
66 TCGAAGGT
268414 ATTTTATTGG
Statistics
Matches: 278, Mismatches: 42, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
82 17 0.06
83 52 0.19
84 207 0.74
85 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (84 bp):
AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGGTTGAT
Found at i:268243 original size:168 final size:167
Alignment explanation
Indices: 267981--268417 Score: 607
Period size: 168 Copynumber: 2.6 Consensus size: 167
267971 TGAGTTATGC
* * * *
267981 TGTAATCGAACTCGAGGGTCTTT-G-G-CAGATAACCCTTCTCAACTTAAGCTATGTTGCAAATG
1 TGTAATCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGACTTAAGCTTTGCTGCAAATG
* * *
268043 ATATGCCTTAGAGTTGAGCGGAGTCAAACTCGAAGGTCTTTGGTTGGA-AGATAACCCTTCCCGA
66 ATGTGCCTTAGAGCTGAGCGGAGTCAAACTCGAAGGTATTTGGTT-GATAGATAACCCTTCCCGA
* *
268107 CTTAAGTTATGCTGCAAATGATATGCCTTGAAGCTGAG
130 CATAAGTTATGCTGCAAATGAGATGCCTTGAAGCTGAG
*
268145 TGTAATCGAACTCGAAGGTCTTTGGATGACAGATAGCCCTTCTCGACTTAAGCTTTGCTGCAAAT
1 TGTAATCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTCGACTTAAGCTTTGCTGCAAAT
* * **
268210 GATGTGCCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTATTTGGTTGATAGATAACCCTTCTTGA
65 GATGTGCCTTAGAGCTGAGCGGAGTCAAACTCGAAGGTATTTGGTTGATAGATAACCCTTCCCGA
*
268275 CATAAGTTATGCTGCAAATGAGATGCCTTGGAGCTGAG
130 CATAAGTTATGCTGCAAATGAGATGCCTTGAAGCTGAG
* * * *
268313 TGTAATCGAACTCGAAGGTCTTTGGTGATAGATAACCCTTCTAGCCTTGAG-TTATGCTGCAAAT
1 TGTAATCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGACTTAAGCTT-TGCTGCAAAT
* * *
268377 GATGTGTCTTTGAGCTG-GCGTAGTCAAACTCGAAGGTATTT
65 GATGTGCCTTAGAGCTGAGCGGAGTCAAACTCGAAGGTATTT
268418 TATTGGCAGA
Statistics
Matches: 243, Mismatches: 24, Indels: 10
0.88 0.09 0.04
Matches are distributed among these distances:
164 22 0.09
165 1 0.00
166 24 0.10
167 49 0.20
168 147 0.60
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (167 bp):
TGTAATCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGACTTAAGCTTTGCTGCAAATG
ATGTGCCTTAGAGCTGAGCGGAGTCAAACTCGAAGGTATTTGGTTGATAGATAACCCTTCCCGAC
ATAAGTTATGCTGCAAATGAGATGCCTTGAAGCTGAG
Done.