Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008937.1 Hibiscus syriacus cultivar Beakdansim tig00112255_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: 635368
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 4
Found at i:5184 original size:21 final size:21
Alignment explanation
Indices: 5139--5184 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
5129 TTTGAAAAGG
*
5139 TTTAGGGTTTAGAATTTAGAG
1 TTTAGGGTTTAGAATTTAGAA
*
5160 TTTAGGGTTTA-AGATTTATAA
1 TTTAGGGTTTAGA-ATTTAGAA
5181 TTTA
1 TTTA
5185 TGTGATAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (21 bp):
TTTAGGGTTTAGAATTTAGAA
Found at i:10459 original size:42 final size:42
Alignment explanation
Indices: 10412--10510 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
10402 ATTTTTTTTG
*
10412 GGAACCGGAACCTGTTGC-ACCGGATCTTAAAAAATGGGAATC-
1 GGAACCGGAACCTGTT-CAACCGGATCCTAAAAAATGGG-ATCT
* * *
10454 GGAACCGGAACCTGTTCAATCGGTTCCTAAAAATTGGGATCT
1 GGAACCGGAACCTGTTCAACCGGATCCTAAAAAATGGGATCT
*
10496 GGAATCGGAACCTGT
1 GGAACCGGAACCTGT
10511 AGGTACCGGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 4 0.08
42 46 0.92
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.22
Consensus pattern (42 bp):
GGAACCGGAACCTGTTCAACCGGATCCTAAAAAATGGGATCT
Found at i:13102 original size:36 final size:36
Alignment explanation
Indices: 13061--13163 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
13051 AGTTGAGTAT
*
13061 TATCAGCTTTGGTACATTCTTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
13097 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
13133 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
13164 CCAGCACCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:17270 original size:81 final size:81
Alignment explanation
Indices: 17184--17414 Score: 243
Period size: 82 Copynumber: 2.8 Consensus size: 81
17174 AATAGGGATT
* *
17184 ATCTATAGTGGCTTTTTGTCGACAAACGCCGCAACTGAATAGTACTTTAGCGTTG-TTTTATACA
1 ATCTATAGTGGCTTTTTGTCAACAAACGCCGCAAC-GAATAGTACTTTAGCGGTGTTTTTATACA
17248 AATGCCACAATAGGTCC
65 AATGCCACAATAGGTCC
* * * * * * ** *
17265 ATCTATAGTGTCGTTTTGTAAACAAATGCCGTAAAAAGAGGAGTAC-TTAGCGGCGTTTTTATAC
1 ATCTATAGTGGCTTTTTGTCAACAAACGCCG--CAACGAATAGTACTTTAGCGGTGTTTTTATAC
* *
17329 AAACGCCGCAATAGGTCC
64 AAATGCCACAATAGGTCC
* * * *
17347 ATCTATAGTGGAATTTTT-TCAATAAACGCCTCAACAAATTAGTACTTTAGCGGTGTTTTTATAC
1 ATCTATAGTGG-CTTTTTGTCAACAAACGCCGCAACGAA-TAGTACTTTAGCGGTGTTTTTATAC
17411 AAAT
64 AAAT
17415 ATCGTAATAA
Statistics
Matches: 117, Mismatches: 27, Indels: 11
0.75 0.17 0.07
Matches are distributed among these distances:
80 3 0.03
81 38 0.32
82 70 0.60
83 6 0.05
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (81 bp):
ATCTATAGTGGCTTTTTGTCAACAAACGCCGCAACGAATAGTACTTTAGCGGTGTTTTTATACAA
ATGCCACAATAGGTCC
Found at i:17397 original size:82 final size:80
Alignment explanation
Indices: 17146--17414 Score: 228
Period size: 82 Copynumber: 3.3 Consensus size: 80
17136 AAATGGTAAT
* * *
17146 TTTAGCGGCGTTTCTTCA-A-AAATGCCGCAATAGGGAT-TATCTATAGTGGCTTTTTGTCGACA
1 TTTAGCGGCGTTT-TT-ATACAAATGCCGCAATA-GG-TCCATCTATAGTGGATTTTT-TCAACA
* *
17208 AACGCCGCAACTGAATAGTAC
61 AACGCCTCAAC-AAATAGTAC
** * * * *
17229 TTTAGCGTTG-TTTTATACAAATGCCACAATAGGTCCATCTATAGTGTCG-TTTTGTAAACAAAT
1 TTTAGCGGCGTTTTTATACAAATGCCGCAATAGGTCCATCTATAGTG--GATTTTTTCAACAAAC
* *
17292 GCCGT-AAAAAGAGGAGTAC
64 GCC-TCAACAA-A-TAGTAC
* *
17311 -TTAGCGGCGTTTTTATACAAACGCCGCAATAGGTCCATCTATAGTGGAATTTTTTCAATAAACG
1 TTTAGCGGCGTTTTTATACAAATGCCGCAATAGGTCCATCTATAGTGG-ATTTTTTCAACAAACG
17375 CCTCAACAAATTAGTAC
65 CCTCAACAAA-TAGTAC
*
17392 TTTAGCGGTGTTTTTATACAAAT
1 TTTAGCGGCGTTTTTATACAAAT
17415 ATCGTAATAA
Statistics
Matches: 148, Mismatches: 25, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
80 4 0.03
81 41 0.28
82 94 0.64
83 9 0.06
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (80 bp):
TTTAGCGGCGTTTTTATACAAATGCCGCAATAGGTCCATCTATAGTGGATTTTTTCAACAAACGC
CTCAACAAATAGTAC
Found at i:19561 original size:20 final size:20
Alignment explanation
Indices: 19536--19574 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19526 ATCTTTCGGC
19536 AGAGCATTTATCAATTACTT
1 AGAGCATTTATCAATTACTT
*
19556 AGAGCATTTATCCATTACT
1 AGAGCATTTATCAATTACT
19575 AATAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (20 bp):
AGAGCATTTATCAATTACTT
Found at i:23889 original size:32 final size:31
Alignment explanation
Indices: 23853--23929 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
23843 CGGGGCCGTG
*
23853 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
23885 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
23916 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
23930 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:23912 original size:63 final size:63
Alignment explanation
Indices: 23806--23929 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
23796 CCCTAAGGGA
* * ** *
23806 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
23869 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
23930 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.96
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:24839 original size:17 final size:17
Alignment explanation
Indices: 24803--24860 Score: 80
Period size: 17 Copynumber: 3.3 Consensus size: 17
24793 GAAAGTCAAC
*
24803 GGTCAACGGTCAACGGTCG
1 GGTCAACGGTC--GGGTCG
*
24822 GGTCGACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
24839 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
24856 GGTCA
1 GGTCA
24861 GACCGGTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 26 0.72
19 10 0.28
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:24874 original size:9 final size:9
Alignment explanation
Indices: 24856--24954 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
24846 GGTCGGGTCG
*
24856 GGTCAGACC
1 GGTCAAACC
24865 GGTCAAACC
1 GGTCAAACC
* *
24874 GATTCAGACC
1 G-GTCAAACC
24884 GGTCAAACC
1 GGTCAAACC
*
24893 GGTTCGAACC
1 GG-TCAAACC
*
24903 GGTTGAAACC
1 GG-TCAAACC
24913 GGTCAAACC
1 GGTCAAACC
24922 GGTCAGAACC
1 GGTCA-AACC
*
24932 GGTTGAAAACC
1 GG-T-CAAACC
24943 GGTCAAACC
1 GGTCAAACC
24952 GGT
1 GGT
24955 TTCCAGCAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
9 36 0.49
10 30 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:24880 original size:19 final size:19
Alignment explanation
Indices: 24858--24955 Score: 101
Period size: 19 Copynumber: 5.1 Consensus size: 19
24848 TCGGGTCGGG
*
24858 TCAGACCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGGT
24877 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
24896 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
24915 TCAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
* *
24935 TGAAAACCGGTCAAACCGGT
1 T-CAGACCGGTCAAACCGGT
24955 T
1 T
24956 TCCAGCAGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.04
19 38 0.56
20 17 0.25
21 10 0.15
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:24913 original size:29 final size:31
Alignment explanation
Indices: 24881--24955 Score: 129
Period size: 29 Copynumber: 2.5 Consensus size: 31
24871 ACCGATTCAG
24881 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
24910 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
24940 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
24956 TCCAGCAGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.56
30 16 0.37
31 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.16
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:31222 original size:32 final size:31
Alignment explanation
Indices: 31186--31262 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
31176 CGGGGCCGTG
*
31186 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
31218 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
31249 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
31263 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:31245 original size:63 final size:63
Alignment explanation
Indices: 31139--31262 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
31129 CCCTAAGGGA
* * ** *
31139 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
31202 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
31263 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.96
ACGTcount: A:0.26, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:32174 original size:7 final size:7
Alignment explanation
Indices: 32131--32161 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
32121 GTCAAAGAAA
32131 GTCAACG
1 GTCAACG
32138 GTCAACG
1 GTCAACG
32145 GTCAACG
1 GTCAACG
32152 GTCAACG
1 GTCAACG
32159 GTC
1 GTC
32162 GGGTCGACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:32180 original size:17 final size:17
Alignment explanation
Indices: 32144--32203 Score: 84
Period size: 17 Copynumber: 3.4 Consensus size: 17
32134 AACGGTCAAC
*
32144 GGTCAACGGTCAACGGTCG
1 GGTCAACGGTC--GGGTCG
*
32163 GGTCGACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
32180 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
32197 GGTCAAC
1 GGTCAAC
32204 CCGGTCAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 28 0.74
19 10 0.26
ACGTcount: A:0.15, C:0.25, G:0.43, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:32214 original size:10 final size:9
Alignment explanation
Indices: 32197--32314 Score: 110
Period size: 9 Copynumber: 12.3 Consensus size: 9
32187 GGTCGGGTCG
*
32197 GGTCAACCC
1 GGTCAAACC
32206 GGTCAAACC
1 GGTCAAACC
* *
32215 GATTCAGACC
1 G-GTCAAACC
32225 GGTCAAACC
1 GGTCAAACC
*
32234 GGTTCGAACC
1 GG-TCAAACC
32244 GGTCAAACC
1 GGTCAAACC
*
32253 GGTTCGAACC
1 GG-TCAAACC
*
32263 GGTTGAAACC
1 GG-TCAAACC
32273 GGTCAAACC
1 GGTCAAACC
32282 GGTCAGAACC
1 GGTCA-AACC
*
32292 GGTTGAAAACC
1 GG-T-CAAACC
32303 GGTCAAACC
1 GGTCAAACC
32312 GGT
1 GGT
32315 TTCCAGCAGC
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
9 44 0.49
10 38 0.42
11 7 0.08
12 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.26, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:32226 original size:19 final size:19
Alignment explanation
Indices: 32204--32315 Score: 113
Period size: 19 Copynumber: 5.8 Consensus size: 19
32194 TCGGGTCAAC
*
32204 CCGGTCAAACCGATTCAGA
1 CCGGTCAAACCGGTTCAGA
32223 CCGGTCAAACCGGTTC-GAA
1 CCGGTCAAACCGGTTCAG-A
32242 CCGGTCAAACCGGTTC-GAA
1 CCGGTCAAACCGGTTCAG-A
* *
32261 CCGGTTGAAACCGG-TCAAA
1 CCGG-TCAAACCGGTTCAGA
* *
32280 CCGGTCAGAACCGGTTGAAAA
1 CCGGTCA-AACCGGTT-CAGA
32301 CCGGTCAAACCGGTT
1 CCGGTCAAACCGGTT
32316 TCCAGCAGCC
Statistics
Matches: 82, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
18 3 0.04
19 52 0.63
20 17 0.21
21 10 0.12
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (19 bp):
CCGGTCAAACCGGTTCAGA
Found at i:32244 original size:29 final size:30
Alignment explanation
Indices: 32223--32314 Score: 68
Period size: 29 Copynumber: 3.2 Consensus size: 30
32213 CCGATTCAGA
*
32223 CCGGTCAAACCGGTTC-GAACCGG-TCAAA
1 CCGGTCAAACCGGTTCAGAACCGGTTGAAA
* * *
32251 CCGGTTCGAACCGGTTGA-AACCGG-TCAAA
1 CCGG-TCAAACCGGTTCAGAACCGGTTGAAA
* * *
32280 CCGGTCAGAACCGGTTGAAAACCGG-TCAAA
1 CCGGTCA-AACCGGTTCAGAACCGGTTGAAA
32310 CCGGT
1 CCGGT
32315 TTCCAGCAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
28 6 0.11
29 35 0.61
30 16 0.28
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.15
Consensus pattern (30 bp):
CCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:34987 original size:21 final size:21
Alignment explanation
Indices: 34954--34993 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34944 ATTTACTATA
* *
34954 ATGGATTTGAAGTTGGTTGTT
1 ATGGAATTAAAGTTGGTTGTT
*
34975 ATGGAATTAAAGTTTGTTG
1 ATGGAATTAAAGTTGGTTG
34994 CTATAGATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (21 bp):
ATGGAATTAAAGTTGGTTGTT
Found at i:35270 original size:86 final size:86
Alignment explanation
Indices: 35156--35322 Score: 221
Period size: 86 Copynumber: 1.9 Consensus size: 86
35146 ACAAAAAAAA
* * *
35156 CCACTAATGTTTCAGATTATTTGCGGCGTTTAT-ACAAAAAAACT-CCATTATAAAATTGTCAAT
1 CCACTAAAGTTTCAGATAATTTGCGGCGTTTATGAC-AAAAAA-TGCCACTATAAAATTGTCAAT
*
35219 AGCGGCGTTTTACTATAAAAACG
64 AACGGCGTTTTACTATAAAAACG
* * * * *
35242 CCACTAAAGTTTTAGATAATTTGTGGCGTTTATGACTAAAAATGCCACTATAGAATTGTTAATAA
1 CCACTAAAGTTTCAGATAATTTGCGGCGTTTATGACAAAAAATGCCACTATAAAATTGTCAATAA
35307 CGGCGTTTTACTATAA
66 CGGCGTTTTACTATAA
35323 GAACACCGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.01
86 67 0.96
87 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (86 bp):
CCACTAAAGTTTCAGATAATTTGCGGCGTTTATGACAAAAAATGCCACTATAAAATTGTCAATAA
CGGCGTTTTACTATAAAAACG
Found at i:35820 original size:2 final size:2
Alignment explanation
Indices: 35813--35838 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35803 CATTATTGGA
35813 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
35839 GATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36199 original size:9 final size:9
Alignment explanation
Indices: 36164--36206 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
36154 GTCTTAAAAA
36164 TTTTAT-TT
1 TTTTATATT
36172 TTTTATATAT
1 TTTTATAT-T
*
36182 TTTAGATATT
1 TTT-TATATT
36192 TTTTATATT
1 TTTTATATT
36201 TTTTAT
1 TTTTAT
36207 TAAAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 6 0.20
9 12 0.40
10 8 0.27
11 4 0.13
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTATATT
Found at i:36724 original size:24 final size:22
Alignment explanation
Indices: 36697--36744 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
36687 CGAATTACCA
*
36697 TTAACCGAATTAATTAAACTTTTT
1 TTAACCG--TTAATCAAACTTTTT
*
36721 TTAACCGTTAATCGAACTTTTT
1 TTAACCGTTAATCAAACTTTTT
36743 TT
1 TT
36745 CGAAAATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
24 7 0.32
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (22 bp):
TTAACCGTTAATCAAACTTTTT
Found at i:37092 original size:186 final size:185
Alignment explanation
Indices: 36836--37212 Score: 580
Period size: 186 Copynumber: 2.0 Consensus size: 185
36826 ATAAAAATTA
*
36836 AATA-TTTTTAATTAAAAAATCAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAA
1 AATATTTTTTAATTAAAAAATCAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAA
* *
36900 TTTTATATAAAATTTTTATTTAATTAATATTGATTTAAGTTTAAAAGTTATTAAATCTTAAATTA
66 TTTTATATAAAATTTTTAATTAATTAATATTAATTTAAGTTTAAAAGTTATTAAATCTTAAATTA
* *
36965 TTAATTAG-ATTTTAAATGGTTTGGGTTAAGCCCATATATTATATATAATATATAT
131 TTAATT-GTATTTTAAATGATTTGGGCTAAGCCCATATATTATATATAATATATAT
37020 AATATTTTTTAATTCAAAAAAAT-AGTTTACAATTAATTTAAATAATATATAATTATAAAATAAA
1 AATATTTTTTAATT--AAAAAATCAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAA
* * **
37084 AATTTTATATAAATTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTATTGGATCTTAAAT
64 AATTTTATATAAAATTTTTAATTAATTAATATTAATTTAAGTTTAAAAGTTATTAAATCTTAAAT
* * * * *
37149 TATTAATTGTGTTTTAAATGATTTGGGCTGAGTCCATATGTTATATATAATATATTT
129 TATTAATTGTATTTTAAATGATTTGGGCTAAGCCCATATATTATATATAATATATAT
37206 AATATTT
1 AATATTT
37213 AAAATTTAAT
Statistics
Matches: 175, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
184 4 0.02
185 10 0.06
186 154 0.88
187 7 0.04
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (185 bp):
AATATTTTTTAATTAAAAAATCAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAA
TTTTATATAAAATTTTTAATTAATTAATATTAATTTAAGTTTAAAAGTTATTAAATCTTAAATTA
TTAATTGTATTTTAAATGATTTGGGCTAAGCCCATATATTATATATAATATATAT
Found at i:49894 original size:3 final size:3
Alignment explanation
Indices: 49888--49918 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
49878 AAAAATATAT
49888 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
49919 AAAGAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:49952 original size:18 final size:20
Alignment explanation
Indices: 49918--49959 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
49908 AATAATAATA
49918 AAAAGAAAAACAAATAA-AG
1 AAAAGAAAAACAAATAAGAG
*
49937 AAAAGGAAAA-AAATAAGAG
1 AAAAGAAAAACAAATAAGAG
49956 AAAA
1 AAAA
49960 TAACCCGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (20 bp):
AAAAGAAAAACAAATAAGAG
Found at i:50185 original size:20 final size:20
Alignment explanation
Indices: 50160--50251 Score: 121
Period size: 20 Copynumber: 4.6 Consensus size: 20
50150 TTTTCCGACT
50160 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
* **
50180 ATCGCAATGCGATTATGGCA
1 ATCGCAATGCGAATATGTAA
* *
50200 ATCGCAACGCAAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
50220 ATCACAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
50240 ATCGTAATGCGA
1 ATCGCAATGCGA
50252 TTCTGACTAT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:50300 original size:20 final size:20
Alignment explanation
Indices: 50248--50306 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
50238 AAATCGTAAT
* * *
50248 GCGATTCTGACTATCACAAC
1 GCGATTCTGACTGTCGCAAA
50268 GCGATTCTGACTGTCGCAAA
1 GCGATTCTGACTGTCGCAAA
50288 GCGATTCTGACTGTCGCAA
1 GCGATTCTGACTGTCGCAA
50307 CACTGAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (20 bp):
GCGATTCTGACTGTCGCAAA
Found at i:51160 original size:24 final size:24
Alignment explanation
Indices: 51128--51181 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
51118 GTATTCGAAA
51128 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
51152 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
51176 TTTGAT
1 TTTGAT
51182 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:53451 original size:18 final size:18
Alignment explanation
Indices: 53428--53462 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
53418 AGAAAAAGGC
*
53428 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
53446 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
53463 CAACCGGCTT
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:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:53781 original size:139 final size:139
Alignment explanation
Indices: 53525--53790 Score: 471
Period size: 139 Copynumber: 1.9 Consensus size: 139
53515 CATTGTATTG
53525 TGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTACTATGA
1 TGTGTAAACTTTTAACATTTTCAG-TAGGCATGTATTAGTAACTTGAGTTTGAACATTACTATGA
*
53590 TCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTATTAT
65 TATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTATTAT
53655 GTGTATTTTA
130 GTGTATTTTA
*
53665 TGTGTAAACTTTTAACATTTTCCA-TAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTATGA
1 TGTGTAAACTTTTAACATTTT-CAGTAGGCATGTATTAGTAACTTGAGTTTGAACATTACTATGA
* *
53729 TATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGTAATGCGAATTTGACTAT
65 TATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
53791 CGCAATGCGA
Statistics
Matches: 121, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
139 98 0.81
140 21 0.17
141 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (139 bp):
TGTGTAAACTTTTAACATTTTCAGTAGGCATGTATTAGTAACTTGAGTTTGAACATTACTATGAT
ATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTATTATG
TGTATTTTA
Found at i:53786 original size:20 final size:20
Alignment explanation
Indices: 53761--53815 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
53751 TTACACATTC
53761 ATTTGAATATCGTAATGCGA
1 ATTTGAATATCGTAATGCGA
* *
53781 ATTTGACTATCGCAATGCGA
1 ATTTGAATATCGTAATGCGA
*
53801 ATTTGATTATCGTAA
1 ATTTGAATATCGTAA
53816 CTCAAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTTGAATATCGTAATGCGA
Found at i:53855 original size:20 final size:20
Alignment explanation
Indices: 53826--54017 Score: 176
Period size: 20 Copynumber: 10.2 Consensus size: 20
53816 CTCAAAAATG
53826 GCAACGCGAATTTGACTATC
1 GCAACGCGAATTTGACTATC
* *
53846 GCAACACGAATATGACTATC
1 GCAACGCGAATTTGACTATC
*
53866 GCAACGC-AA----A-AATC
1 GCAACGCGAATTTGACTATC
* *
53880 GCAACGCGAATTTGATTATG
1 GCAACGCGAATTTGACTATC
*
53900 GCAACAGC-TATTTGACTATC
1 GCAAC-GCGAATTTGACTATC
*
53920 GCAACGAGAA----A--ATC
1 GCAACGCGAATTTGACTATC
*
53934 GCAACGTGAATTTGACTATC
1 GCAACGCGAATTTGACTATC
*
53954 GCAACGCGAATTTGAGTATC
1 GCAACGCGAATTTGACTATC
*
53974 GCAACGCGAATTTGATTATC
1 GCAACGCGAATTTGACTATC
* *
53994 GCAACGGGTATTTGACTATC
1 GCAACGCGAATTTGACTATC
54014 GCAA
1 GCAA
54018 TGAGAAAATC
Statistics
Matches: 140, Mismatches: 18, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
14 22 0.16
15 3 0.02
16 1 0.01
18 1 0.01
19 4 0.03
20 107 0.76
21 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (20 bp):
GCAACGCGAATTTGACTATC
Found at i:53979 original size:54 final size:53
Alignment explanation
Indices: 53777--53979 Score: 255
Period size: 54 Copynumber: 3.8 Consensus size: 53
53767 ATATCGTAAT
* * * * *
53777 GCGAATTTGACTATCGCAATGCGAATTTGATTATCGTAACTCAAAAATGGCAAC
1 GCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAAC-GAAAAATCGCAAC
* *
53831 GCGAATTTGACTATCGCAACACGAATATGACTATCGCAACGCAAAAATCGCAAC
1 GCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG-AAAAATCGCAAC
* * *
53885 GCGAATTTGATTATGGCAACAGC-TATTTGACTATCGCAACGAGAAAATCGCAAC
1 GCGAATTTGACTATCGCAAC-GCGAATTTGACTATCGCAACGA-AAAATCGCAAC
* *
53939 GTGAATTTGACTATCGCAACGCGAATTTGAGTATCGCAACG
1 GCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG
53980 CGAATTTGAT
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.02
54 124 0.97
55 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (53 bp):
GCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAAAAATCGCAAC
Found at i:53987 original size:94 final size:93
Alignment explanation
Indices: 53877--54059 Score: 278
Period size: 94 Copynumber: 1.9 Consensus size: 93
53867 CAACGCAAAA
* *
53877 ATCGCAACGCGAATTTGATTATGGCAACAGCTATTTGACTATCGCAACGAGAAAATCGC-AACGT
1 ATCGCAACGCGAATTTGATTATCGCAACAGCTATTTGACTATCGCAACGAGAAAATCGCAAACAT
*
53941 GAATTTGACTATCGCAACGCGAATTTGAGT
66 --ATTAGACTATCGCAACGCGAATTTGAGT
* * *
53971 ATCGCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAATGAGAAAATCGCAAAACA
1 ATCGCAACGCGAATTTGATTATCGCAACAGCTATTTGACTATCGCAACGAGAAAATCGC-AAACA
54036 TATTAGACTATCGCAACGCGAATT
65 TATTAGACTATCGCAACGCGAATT
54060 GACTTTCGCG
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
94 77 0.95
96 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (93 bp):
ATCGCAACGCGAATTTGATTATCGCAACAGCTATTTGACTATCGCAACGAGAAAATCGCAAACAT
ATTAGACTATCGCAACGCGAATTTGAGT
Found at i:54029 original size:74 final size:74
Alignment explanation
Indices: 53826--54068 Score: 192
Period size: 74 Copynumber: 3.3 Consensus size: 74
53816 CTCAAAAATG
** * *
53826 GCAACGCGAATTTGACTATCGCAACACGAATATGACTATCGCAACGCA-AAAATCGCAACGCGAA
1 GCAACGCGAATTTGACTATCGCAACGGGAATTTGACTATCGCAATG-AGAAAATCGCAACGCGAA
* *
53890 TTTGATTATG
65 TTTGACTATC
* * * * * * ** **
53900 GCAACAGC-TATTTGACTATCGCAACGAGAAAATCG-C-AACGTGAATTTGACTATCGCAACGCG
1 GCAAC-GCGAATTTGACTATCGCAACG-GGAATTTGACTATCG-CAATGAGAAAATCGCAACGCG
*
53962 AATTTGAGTATC
63 AATTTGACTATC
* * **
53974 GCAACGCGAATTTGATTATCGCAACGGGTATTTGACTATCGCAATGAGAAAATCGCAAAAC-ATA
1 GCAACGCGAATTTGACTATCGCAACGGGAATTTGACTATCGCAATGAGAAAATCGCAACGCGA-A
*
54038 TTAGACTATC
65 TTTGACTATC
*
54048 GCAACGCGAA-TTGACTTTCGC
1 GCAACGCGAATTTGACTATCGC
54069 GTTGCGATTT
Statistics
Matches: 127, Mismatches: 34, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
73 19 0.15
74 100 0.79
75 8 0.06
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (74 bp):
GCAACGCGAATTTGACTATCGCAACGGGAATTTGACTATCGCAATGAGAAAATCGCAACGCGAAT
TTGACTATC
Found at i:54087 original size:20 final size:20
Alignment explanation
Indices: 54058--54115 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
54048 GCAACGCGAA
54058 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
54078 TTGTCTTTCGCATTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
54098 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCGTTGCGA
54116 AAGTGTACCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCGTTGCGATT
Found at i:54274 original size:14 final size:14
Alignment explanation
Indices: 54239--54275 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
54229 AATATTAAAC
*
54239 AAATCAACTTTTAT
1 AAATCAATTTTTAT
54253 AAATCAATTTTTAT
1 AAATCAATTTTTAT
54267 AAATCAATT
1 AAATCAATT
54276 AAACAAGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATCAATTTTTAT
Found at i:55768 original size:42 final size:41
Alignment explanation
Indices: 55661--55772 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
55651 TCTAGAATGT
* * *
55661 TGGGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* ** *
55703 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGA-GGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
55745 TACGGGA-GGCCTCTTGAACGATGACAGG
1 T--GGGAGGGCCTCTTGAACGATGACAGG
55773 TGAGTCGGGC
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 49 0.88
43 3 0.05
44 4 0.07
ACGTcount: A:0.22, C:0.20, G:0.38, T:0.21
Consensus pattern (41 bp):
TGGGAGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:56281 original size:18 final size:19
Alignment explanation
Indices: 56258--56309 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
56248 GAAACTTAAA
*
56258 ATCGCAACATG-AATGACT
1 ATCGCAACACGAAATGACT
*
56276 ATCGCAACGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
*
56296 ATCGCAACGCGAAA
1 ATCGCAACACGAAA
56310 AATGACTCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 9 0.30
19 3 0.10
20 18 0.60
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.15
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:56294 original size:20 final size:21
Alignment explanation
Indices: 56269--56323 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 21
56259 TCGCAACATG
56269 AATGACTATCGCAACGCG-AA
1 AATGACTATCGCAACGCGAAA
56289 AATGACTATCGCAACGCGAAA
1 AATGACTATCGCAACGCGAAA
56310 AATGAC--TCGCAACG
1 AATGACTATCGCAACG
56324 TAATTTTGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.24
20 18 0.53
21 8 0.24
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (21 bp):
AATGACTATCGCAACGCGAAA
Found at i:56440 original size:20 final size:20
Alignment explanation
Indices: 56386--56450 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
56376 GCGATTCTTT
**
56386 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
* *
56406 CATTGCGATATTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
56426 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
56446 CGTTG
1 CGTTG
56451 TGAAAGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:56624 original size:18 final size:18
Alignment explanation
Indices: 56601--56650 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
56591 TTTACTAAGC
56601 AATCTAAGTGAAATGATT
1 AATCTAAGTGAAATGATT
* *
56619 AATCTAAGTTAAATGGTT
1 AATCTAAGTGAAATGATT
56637 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
56651 TACGAGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (18 bp):
AATCTAAGTGAAATGATT
Found at i:58437 original size:40 final size:40
Alignment explanation
Indices: 58382--58486 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
58372 GAAACTTAAA
58382 ATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACT
*** ** **
58422 ATCGCAACACGAAAATGACTGTCGCAACGTGAATTTGACT
1 ATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACT
* *
58462 ATCGCAACGCGAAACT-AAAATCGCA
1 ATCGCAACACGAAAATGAAAATCGCA
58487 TTGCGATTCT
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
39 6 0.11
40 47 0.89
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (40 bp):
ATCGCAACACGAAAATGAAAATCGCAACACGAAAATGACT
Found at i:58440 original size:20 final size:20
Alignment explanation
Indices: 58382--58475 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
58372 GAAACTTAAA
**
58382 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
58402 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
58422 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* ** **
58442 GTCGCAACGTGAATTTGACT
1 ATCGCAACACGAAAATGACT
*
58462 ATCGCAACGCGAAA
1 ATCGCAACACGAAA
58476 CTAAAATCGC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:58523 original size:19 final size:19
Alignment explanation
Indices: 58499--58546 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
58489 GCGATTCTGT
58499 CGTTGCGATTTTCATTTTG
1 CGTTGCGATTTTCATTTTG
*
58518 CGTTGCAATTTTCATTTTG
1 CGTTGCGATTTTCATTTTG
58537 CGTTGCGATT
1 CGTTGCGATT
58547 ATCGGTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.50
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTTG
Found at i:59138 original size:20 final size:20
Alignment explanation
Indices: 59108--59229 Score: 154
Period size: 20 Copynumber: 6.1 Consensus size: 20
59098 GCGCTTTGAA
* *
59108 AATCGCATTGCGATAGTGAG
1 AATCGCGTTGCGATAGTCAG
* *
59128 CATCGCGTTGCGACAGTCAG
1 AATCGCGTTGCGATAGTCAG
59148 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
59168 AATCTCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* * * *
59188 AATCACATTGCGATACTCAT
1 AATCGCGTTGCGATAGTCAG
*
59208 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
59228 AA
1 AA
59230 AATCGCAACG
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:59501 original size:18 final size:18
Alignment explanation
Indices: 59478--59516 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59468 AACAAAAACA
59478 AAAACAAAATAAAT-AAAT
1 AAAACAAAA-AAATAAAAT
*
59496 AAAACAATAAAATAAAAT
1 AAAACAAAAAAATAAAAT
59514 AAA
1 AAA
59517 TGAGAAGAAA
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:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAACAAAAAAATAAAAT
Found at i:59533 original size:3 final size:3
Alignment explanation
Indices: 59527--59582 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
59517 TGAGAAGAAA
* *
59527 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59575 AAT AAT AA
1 AAT AAT AA
59583 GGAGAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:59632 original size:25 final size:24
Alignment explanation
Indices: 59587--59633 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
59577 TAATAAGGAG
*
59587 AAAAAATAAATAATTAGTAAAATA
1 AAAAAATAAATAATTAATAAAATA
59611 AAAAAATTAAA-AATATAATAAAA
1 AAAAAA-TAAATAAT-TAATAAAA
59634 ATAGGGACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (24 bp):
AAAAAATAAATAATTAATAAAATA
Found at i:61728 original size:168 final size:169
Alignment explanation
Indices: 61451--61899 Score: 501
Period size: 168 Copynumber: 2.7 Consensus size: 169
61441 CATATAACTT
* * * * * * *
61451 TTCTCGACTTAAGCTATTCTGTAAATTTGACATGCCCTTAAGCTAAATGGAATCGAACTAGAAGG
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATG-CCTTGAGCTGAATGTAATCGAACTAGAAGG
* * * * * *
61516 TA-TTTTTTGATAGATAACCCCTCTCGCCTTGAGTTATGCTGTAAATTTAATATATCCTCAAG-T
65 -ACTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAATTTAATATATCATCAAGCC
* * *
61579 TGAATGTAATTGAATTCGATGGT-TT-ATTGGTAGATAACCC
129 T-AATGTAATTGAACTCGAAGGTCTTGATTGATAGATAACCC
* * *
61619 TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTGTGAGCTGAATGTAATCAAACTCGAAGG
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCT-TGAGCTGAATGTAATCGAACTAGAAGG
* * * **
61684 ACTTTATTGACAGATAACCCTTTTCGCCTTGAGTTATACTGTAAATTTGATATGTCATTGAGCCT
65 ACTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAATTTAATATATCATCAAGCCT
*
61749 AATGTAATTGAACTCGAAGGTCTTGATTGATAGATAGCCC
130 AATGTAATTGAACTCGAAGGTCTTGATTGATAGATAACCC
* * *
61789 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCTTTTGAGCTGAATGTAATTGAACTTGAAGG
1 TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGC-CTTGAGCTGAATGTAATCGAACTAGAAGG
* * * ** * * *
61854 TCTTTGTTGGCAGATAGTCATTCTCGCCTTGAGCTATACTGCAAAT
65 ACTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAAT
61900 AGTTAAGTGA
Statistics
Matches: 236, Mismatches: 39, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
167 4 0.02
168 120 0.51
169 3 0.01
170 108 0.46
171 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (169 bp):
TTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTGAGCTGAATGTAATCGAACTAGAAGGA
CTTTATTGACAGATAACCCTTCTCGCCTTGAGTTATACTGTAAATTTAATATATCATCAAGCCTA
ATGTAATTGAACTCGAAGGTCTTGATTGATAGATAACCC
Found at i:61854 original size:85 final size:85
Alignment explanation
Indices: 61405--61899 Score: 428
Period size: 85 Copynumber: 5.8 Consensus size: 85
61395 AGGTGTCATC
* * * * * * * * ** * * *
61405 GAGCTGAAGGGAATCGAACTCGAAAGTTTTTATTGACATATAACTTTTCTCGACTTAAGCTATTC
1 GAGCTGAATGTAATTGAACTCGAAGGTCTTGATTGATAGATAACCCTTCTCGCCTTGAGCTATGC
* *
61470 TGTAAATTTGACATGCCCTT
66 TGTAAATTTGATATGCTCTT
* * * * * * ** * *
61490 AAGCTAAATGGAATCGAACTAGAAGGTATTTTTTGATAGATAACCCCTCTCGCCTTGAGTTATGC
1 GAGCTGAATGTAATTGAACTCGAAGGTCTTGATTGATAGATAACCCTTCTCGCCTTGAGCTATGC
* * *
61555 TGTAAATTTAATAT-ATCCTC
66 TGTAAATTTGATATGCT-CTT
* * * * * *
61575 AAGTTGAATGTAATTGAATTCGATGGT-TT-ATTGGTAGATAACCCTTCTCGCCTTGAGTTATGC
1 GAGCTGAATGTAATTGAACTCGAAGGTCTTGATTGATAGATAACCCTTCTCGCCTTGAGCTATGC
61638 TGTAAATTTGATATGC-CTGT
66 TGTAAATTTGATATGCTCT-T
** * * * * * *
61658 GAGCTGAATGTAATCAAACTCGAAGGACTTTATTGACAGATAACCCTTTTCGCCTTGAGTTATAC
1 GAGCTGAATGTAATTGAACTCGAAGGTCTTGATTGATAGATAACCCTTCTCGCCTTGAGCTATGC
61723 TGTAAATTTGATATG-TCATT
66 TGTAAATTTGATATGCTC-TT
*
61743 GAGCCT-AATGTAATTGAACTCGAAGGTCTTGATTGATAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAG-CTGAATGTAATTGAACTCGAAGGTCTTGATTGATAGATAACCCTTCTCGCCTTGAGCTATG
*
61807 CTGTAAATTTGATATGCTTTT
65 CTGTAAATTTGATATGCTCTT
* ** ** * *
61828 GAGCTGAATGTAATTGAACTTGAAGGTCTTTG-TTGGCAGATAGTCATTCTCGCCTTGAGCTATA
1 GAGCTGAATGTAATTGAACTCGAAGGTC-TTGATTGATAGATAACCCTTCTCGCCTTGAGCTATG
*
61892 CTGCAAAT
65 CTGTAAAT
61900 AGTTAAGTGA
Statistics
Matches: 337, Mismatches: 62, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
82 2 0.01
83 64 0.19
84 6 0.02
85 258 0.77
86 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (85 bp):
GAGCTGAATGTAATTGAACTCGAAGGTCTTGATTGATAGATAACCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCTCTT
Found at i:62252 original size:86 final size:86
Alignment explanation
Indices: 61955--62237 Score: 449
Period size: 86 Copynumber: 3.3 Consensus size: 86
61945 AATTCTTTAA
* * * *
61955 ATGACTCCCCTTCACGGGAAAGCCAAGTTGTACATTATTCAGGTGGTTCCCCTTCGCGGGTCTGA
1 ATGACTCCCCTTCACGGGAAAGCCAAGTGGTATATTCTTCAGGTGGTTCTCCTTCGCGGGTCTGA
* *
62020 AACAGGTGAGACGATATTTGG
66 ACCAGGTGAGACGATCTTTGG
* * *
62041 GTGACTCCCCTTCATGGGAAAGCCAAGTGGTATATTCTTCAGGTGGTTCTCCTTCACGGGTCTGA
1 ATGACTCCCCTTCACGGGAAAGCCAAGTGGTATATTCTTCAGGTGGTTCTCCTTCGCGGGTCTGA
62106 ACCAGGTGAGACGATCTTTGG
66 ACCAGGTGAGACGATCTTTGG
* *
62127 ATGACTCCCCTTCACGGGAAAACCAAGTGGTATATTCTTCAGGTGGTTCTTCTTCGCGGGTCTGA
1 ATGACTCCCCTTCACGGGAAAGCCAAGTGGTATATTCTTCAGGTGGTTCTCCTTCGCGGGTCTGA
*
62192 ACCAGGTGAGATGATCTTTGG
66 ACCAGGTGAGACGATCTTTGG
*
62213 ATGACTCCTCTTCACGGGAAAGCCA
1 ATGACTCCCCTTCACGGGAAAGCCA
62238 CATGGGATGT
Statistics
Matches: 180, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 180 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (86 bp):
ATGACTCCCCTTCACGGGAAAGCCAAGTGGTATATTCTTCAGGTGGTTCTCCTTCGCGGGTCTGA
ACCAGGTGAGACGATCTTTGG
Found at i:62794 original size:25 final size:25
Alignment explanation
Indices: 62760--62819 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
62750 AAAGGAATCA
62760 ATAGCTCTTTAGTGTTTTCAGAGTT
1 ATAGCTCTTTAGTGTTTTCAGAGTT
*
62785 ATAGCTCTTTAGTGTTTTTAGAGTT
1 ATAGCTCTTTAGTGTTTTCAGAGTT
62810 ATAGCTCTTT
1 ATAGCTCTTT
62820 GAAAAATATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.50
Consensus pattern (25 bp):
ATAGCTCTTTAGTGTTTTCAGAGTT
Found at i:63430 original size:99 final size:101
Alignment explanation
Indices: 63257--63469 Score: 324
Period size: 99 Copynumber: 2.1 Consensus size: 101
63247 AGGACAGCTC
* * *
63257 AATATTATAATCACCTTTATCAGGTTAGTTGAATCTTATCCATAAAGTCGGGACGTTTAACCAAT
1 AATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTCGGGACGTTTAACCAAT
* *
63322 TGCTTTAGAGGGAAATCTCAAGCTTTATTG-TATA-
66 TGCTCTAGAGGGAAAGCTCAAGCTTTATTGATATAT
63356 AATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTC-GGAGCGTTTAACCAA
1 AATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTCGGGA-CGTTTAACCAA
* *
63420 TTGCTCTAGAGGGATAGCTTAAGCTTTATTGTATATAT
65 TTGCTCTAGAGGGAAAGCTCAAGCTTTATTG-ATATAT
63458 AATATTATAATC
1 AATATTATAATC
63470 TGGGTATACG
Statistics
Matches: 103, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
98 3 0.03
99 84 0.82
101 4 0.04
102 12 0.12
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (101 bp):
AATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTCGGGACGTTTAACCAAT
TGCTCTAGAGGGAAAGCTCAAGCTTTATTGATATAT
Found at i:67502 original size:3 final size:3
Alignment explanation
Indices: 67496--67530 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
67486 TGAGAAGAAA
*
67496 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
67531 GGGGAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:68726 original size:64 final size:64
Alignment explanation
Indices: 68658--68882 Score: 238
Period size: 64 Copynumber: 3.5 Consensus size: 64
68648 TTGTTTGAAT
* ** * **
68658 GTGCACCGATGCATTGGTAGTGCATCGATGTA-CTCTTTTAA-AATAAAAACATCGAATGCAATT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATT
68721 C
64 C
* *
68722 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTAAAACATCGAATGCAATTG
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTC
* ** ** * ** *
68786 GTGTATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATACTACATCGAATACCTTTT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTC
* * *
68850 ATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCAT
68883 ACCTTCATTA
Statistics
Matches: 137, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
64 134 0.98
65 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTC
Found at i:69206 original size:12 final size:12
Alignment explanation
Indices: 69188--69223 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
69178 TATATATGTT
69188 CATGTGATATGA
1 CATGTGATATGA
*
69200 TATGTGATATGA
1 CATGTGATATGA
*
69212 CCTGTGATATGA
1 CATGTGATATGA
69224 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:69281 original size:29 final size:29
Alignment explanation
Indices: 69239--69312 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
69229 TGATATGAAG
69239 TGACATGAGCTACATGATCACAAAAGAAA
1 TGACATGAGCTACATGATCACAAAAGAAA
** *
69268 TGACATGAGCTACATGATCACAAGTGAAC
1 TGACATGAGCTACATGATCACAAAAGAAA
*
69297 GGACATGAG-TACATGA
1 TGACATGAGCTACATGA
69313 ACATATGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 7 0.17
29 34 0.83
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAAAGAAA
Found at i:69466 original size:18 final size:15
Alignment explanation
Indices: 69397--69459 Score: 108
Period size: 15 Copynumber: 4.2 Consensus size: 15
69387 GAGGGTATGA
*
69397 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
*
69412 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
69427 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
69442 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
69457 TAG
1 TAG
69460 GAGTCCTACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.14, C:0.22, G:0.33, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:75459 original size:64 final size:64
Alignment explanation
Indices: 75379--75597 Score: 253
Period size: 64 Copynumber: 3.4 Consensus size: 64
75369 GAATGTGTAC
** **
75379 CGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTCGTGCA
1 CGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTCGTGCA
75442 T
64 T
* * *
75443 CGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTAAAACATCGAATGCAATTGGTGTAT
1 CGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGCAT
* ** * ** ** *
75507 CGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAATACTACATCGAATACCTTTTATGCAC
1 CGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGCAT
*
75571 CGATGCATCAGTAGTGCATCGATGCAT
1 CGATGCATAAGTAGTGCATCGATGCAT
75598 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
64 128 0.96
65 6 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (64 bp):
CGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGCAT
Found at i:75921 original size:12 final size:12
Alignment explanation
Indices: 75903--75938 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
75893 TATATATGTT
75903 CATGTGATATGA
1 CATGTGATATGA
*
75915 TATGTGATATGA
1 CATGTGATATGA
*
75927 CCTGTGATATGA
1 CATGTGATATGA
75939 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:75996 original size:29 final size:29
Alignment explanation
Indices: 75954--76027 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
75944 TGATATGAAG
75954 TGACATGAGCTACATGATCACAAAAGAAA
1 TGACATGAGCTACATGATCACAAAAGAAA
**
75983 TGACATGAGCTACATGATCACAAGTGAAA
1 TGACATGAGCTACATGATCACAAAAGAAA
*
76012 GGACATGAG-TACATGA
1 TGACATGAGCTACATGA
76028 ACATATGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 7 0.17
29 35 0.83
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAAAGAAA
Found at i:76130 original size:15 final size:15
Alignment explanation
Indices: 76112--76219 Score: 198
Period size: 15 Copynumber: 7.2 Consensus size: 15
76102 GAGGATATGA
76112 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
76127 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
76142 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
76157 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
76172 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
76187 TAGTCCTTCGGGACA
1 TAGTCCTTCGGGACG
*
76202 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
76217 TAG
1 TAG
76220 GATTCCTAAG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 90 1.00
ACGTcount: A:0.15, C:0.25, G:0.32, T:0.28
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:76232 original size:18 final size:18
Alignment explanation
Indices: 76211--76252 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
76201 ATAGTCCTTC
76211 GGGATGTAGGA-TTCCTAA
1 GGGATGTAGGAGTT-CTAA
*
76229 GGGATGTAGGAGTTCTAC
1 GGGATGTAGGAGTTCTAA
76247 GGGATG
1 GGGATG
76253 AATACTGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.24, C:0.10, G:0.40, T:0.26
Consensus pattern (18 bp):
GGGATGTAGGAGTTCTAA
Found at i:77702 original size:2 final size:2
Alignment explanation
Indices: 77695--77719 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
77685 ATTTTAAGTA
77695 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 A
77720 ATGGACGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:86135 original size:16 final size:16
Alignment explanation
Indices: 86094--86136 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
86084 TGACTTGATC
86094 TGATATTTACCTGACT
1 TGATATTTACCTGACT
*
86110 TGACATTTACCTGACT
1 TGATATTTACCTGACT
86126 T-ATATATTACC
1 TGATAT-TTACC
86137 ATAGACGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 3 0.12
16 21 0.88
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (16 bp):
TGATATTTACCTGACT
Found at i:86377 original size:23 final size:24
Alignment explanation
Indices: 86334--86392 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
86324 AAATAGACTT
* *
86334 ATTATATAAAATTGTTTAATA-AA
1 ATTATATAAAACTATTTAATATAA
86357 ATTA-ATAAAACTATTTAAATATAA
1 ATTATATAAAACTATTT-AATATAA
86381 ATTATATAAAAC
1 ATTATATAAAAC
86393 ATGATTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 10 0.32
23 8 0.26
24 6 0.19
25 7 0.23
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (24 bp):
ATTATATAAAACTATTTAATATAA
Found at i:86402 original size:25 final size:23
Alignment explanation
Indices: 86334--86405 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 23
86324 AAATAGACTT
* *
86334 ATTATATAAAATTGTTTAATAAA
1 ATTATATAAAACTGATTAATAAA
86357 ATTA-ATAAAACT-ATTTAAATATAA
1 ATTATATAAAACTGA-TT-AATA-AA
86381 ATTATATAAAACATGATTAATAAA
1 ATTATATAAAAC-TGATTAATAAA
86405 A
1 A
86406 ATATTGGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 9 0.22
25 11 0.27
26 3 0.07
27 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (23 bp):
ATTATATAAAACTGATTAATAAA
Found at i:86470 original size:23 final size:24
Alignment explanation
Indices: 86433--86483 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
86423 TGATTAAATG
86433 TAAATTAATATAGTTTAATTTATA
1 TAAATTAATATAGTTTAATTTATA
*
86457 TAAATT-ATATAGTTTAATTTATG
1 TAAATTAATATAGTTTAATTTATA
86480 TAAA
1 TAAA
86484 GAAAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (24 bp):
TAAATTAATATAGTTTAATTTATA
Found at i:86900 original size:21 final size:21
Alignment explanation
Indices: 86874--86915 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
86864 CTAACTTTGC
86874 TACCAGAAATTTCTTCATCGA
1 TACCAGAAATTTCTTCATCGA
86895 TACCAGAAATTTCTTCATCGA
1 TACCAGAAATTTCTTCATCGA
86916 GCTTTTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (21 bp):
TACCAGAAATTTCTTCATCGA
Found at i:88182 original size:21 final size:21
Alignment explanation
Indices: 88152--88271 Score: 195
Period size: 21 Copynumber: 5.7 Consensus size: 21
88142 GGTAGCGTAG
*
88152 GTGTACCGGTACACTATCAGA
1 GTGTATCGGTACACTATCAGA
88173 GTGTATCGGTACACTATCAGA
1 GTGTATCGGTACACTATCAGA
*
88194 GTGTATCGGTATACTATCAGA
1 GTGTATCGGTACACTATCAGA
* *
88215 GCGTATCAGTACACTATCAGA
1 GTGTATCGGTACACTATCAGA
*
88236 GCGTATCGGTACACTATCAGA
1 GTGTATCGGTACACTATCAGA
88257 GTGTATCGGTACACT
1 GTGTATCGGTACACT
88272 CAATGTAAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 92 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
GTGTATCGGTACACTATCAGA
Found at i:91437 original size:21 final size:22
Alignment explanation
Indices: 91407--91449 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
91397 TTAGGATCAA
*
91407 TGGGATTAGGAATAGGATTTGG
1 TGGGATTAGGAAGAGGATTTGG
*
91429 TGGGA-TAGGAGGAGGATTTGG
1 TGGGATTAGGAAGAGGATTTGG
91450 AGGAGGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.28
Consensus pattern (22 bp):
TGGGATTAGGAAGAGGATTTGG
Found at i:92149 original size:23 final size:23
Alignment explanation
Indices: 92122--92227 Score: 139
Period size: 23 Copynumber: 4.8 Consensus size: 23
92112 CGATTCCCCT
92122 AAGGGGGAATCGGTTCCCATTCA
1 AAGGGGGAATCGGTTCCCATTCA
*
92145 AAGGGGGAATCGGTTCCC---CT
1 AAGGGGGAATCGGTTCCCATTCA
92165 AAGGGGGAATCGGTTCCCATTCA
1 AAGGGGGAATCGGTTCCCATTCA
*
92188 AAGGGGGAATCGGTTCCCCTTC-
1 AAGGGGGAATCGGTTCCCATTCA
* * *
92210 ATGGGGGTATCGATTCCC
1 AAGGGGGAATCGGTTCCC
92228 TCTGCCTTAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
20 19 0.26
22 15 0.20
23 40 0.54
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.23
Consensus pattern (23 bp):
AAGGGGGAATCGGTTCCCATTCA
Found at i:92165 original size:43 final size:43
Alignment explanation
Indices: 92115--92207 Score: 186
Period size: 43 Copynumber: 2.2 Consensus size: 43
92105 GGGGTAACGA
92115 TTCCCCTAAGGGGGAATCGGTTCCCATTCAAAGGGGGAATCGG
1 TTCCCCTAAGGGGGAATCGGTTCCCATTCAAAGGGGGAATCGG
92158 TTCCCCTAAGGGGGAATCGGTTCCCATTCAAAGGGGGAATCGG
1 TTCCCCTAAGGGGGAATCGGTTCCCATTCAAAGGGGGAATCGG
92201 TTCCCCT
1 TTCCCCT
92208 TCATGGGGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.23
Consensus pattern (43 bp):
TTCCCCTAAGGGGGAATCGGTTCCCATTCAAAGGGGGAATCGG
Found at i:96084 original size:22 final size:21
Alignment explanation
Indices: 96042--96081 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
96032 AAGACTATTT
96042 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
96063 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
96082 ATAGAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:99517 original size:15 final size:15
Alignment explanation
Indices: 99497--99525 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
99487 AATTTCTTTT
99497 TCGTTATCTAAACCC
1 TCGTTATCTAAACCC
99512 TCGTTATCTAAACC
1 TCGTTATCTAAACC
99526 AAATGTCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (15 bp):
TCGTTATCTAAACCC
Found at i:109061 original size:12 final size:12
Alignment explanation
Indices: 109044--109109 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
109034 TTTTAGGTTC
109044 GGGTTTGAATTT
1 GGGTTTGAATTT
* *
109056 GGGTTTGAGTTC
1 GGGTTTGAATTT
*
109068 GGG-TTCAGATTT
1 GGGTTTGA-ATTT
*
109080 GGGTTT-AGGTTT
1 GGGTTTGA-ATTT
*
109092 GGGTTTGATTTT
1 GGGTTTGAATTT
109104 GGGTTT
1 GGGTTT
109110 AGGGTTTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
11 3 0.07
12 38 0.86
13 3 0.07
ACGTcount: A:0.11, C:0.03, G:0.38, T:0.48
Consensus pattern (12 bp):
GGGTTTGAATTT
Found at i:109067 original size:24 final size:24
Alignment explanation
Indices: 109035--109112 Score: 97
Period size: 24 Copynumber: 3.2 Consensus size: 24
109025 TTATGGTTTT
109035 TTTAGGTTCGGGTTTGAATTTGGG
1 TTTAGGTTCGGGTTTGAATTTGGG
*
109059 TTT-GAGTTCGGG-TTCAGATTTGGG
1 TTTAG-GTTCGGGTTTGA-ATTTGGG
* *
109083 TTTAGGTTTGGGTTTGATTTTGGG
1 TTTAGGTTCGGGTTTGAATTTGGG
109107 TTTAGG
1 TTTAGG
109113 GTTTATATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
23 4 0.09
24 38 0.83
25 4 0.09
ACGTcount: A:0.12, C:0.04, G:0.37, T:0.47
Consensus pattern (24 bp):
TTTAGGTTCGGGTTTGAATTTGGG
Found at i:109634 original size:18 final size:20
Alignment explanation
Indices: 109593--109636 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
109583 TGAACTTCTA
* *
109593 GAGAGAATGCAGAGAATTTT
1 GAGAGAATGCAGAGAAGTTG
109613 GAGAGAAT-CAGAG-AGTTG
1 GAGAGAATGCAGAGAAGTTG
109631 GAGAGA
1 GAGAGA
109637 GAGAGAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 5 0.23
20 8 0.36
ACGTcount: A:0.41, C:0.05, G:0.36, T:0.18
Consensus pattern (20 bp):
GAGAGAATGCAGAGAAGTTG
Found at i:109919 original size:6 final size:6
Alignment explanation
Indices: 109882--109959 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
109872 ACTATTTATA
109882 ATTAAT ATTAAAAT AATTATAT ATT-AT AATTAAT ATTAAT A-T-A- ATTAAT
1 ATTAAT ATT--AAT -ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT ATTAAT
*
109931 ATTAAT ATTAA- CTT-AT ATTAAT A-TAAT AT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT AT
109960 AGTTTATAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
3 1 0.02
4 3 0.05
5 13 0.22
6 27 0.47
7 6 0.10
8 5 0.09
9 3 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTAAT
Found at i:109921 original size:34 final size:33
Alignment explanation
Indices: 109882--109994 Score: 110
Period size: 34 Copynumber: 3.4 Consensus size: 33
109872 ACTATTTATA
109882 ATTAATATTAAAATAATTATATATTATAATTAAT
1 ATTAATA-TAAAATAATTATATATTATAATTAAT
*
109916 ATTAATATAATTAAT-ATTA-ATATTA-ACTT-AT
1 ATTAATATAA--AATAATTATATATTATAATTAAT
* * *
109947 ATTAATATAATATAGTT-TATAATTTGTAATTAAT
1 ATTAATATAAAATAATTATAT-A-TTATAATTAAT
109981 ATTAATATAAAATA
1 ATTAATATAAAATA
109995 TAGTCTATAA
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
29 2 0.03
30 4 0.06
31 13 0.20
32 5 0.08
33 12 0.18
34 26 0.40
35 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (33 bp):
ATTAATATAAAATAATTATATATTATAATTAAT
Found at i:109952 original size:31 final size:28
Alignment explanation
Indices: 109853--109990 Score: 106
Period size: 28 Copynumber: 4.8 Consensus size: 28
109843 TTTCATCTCT
* *
109853 ATATAATTTATATTAATA-AACTAT-T-
1 ATATAATTAATATTAATATAATTATATA
*
109878 -TATAATTAATATTAAAATAATTATATA
1 ATATAATTAATATTAATATAATTATATA
*
109905 TTATAATTAATATTAATATAATTAATATTA
1 ATATAATTAATATTAATATAATT-ATA-TA
109935 ATATTAACTT-ATATTAATATAATATAGTTTATA
1 ATA-TAA-TTAATATTAATATAAT-TA---TATA
*
109968 ATTTGTAATTAATATTAATATAA
1 A--TATAATTAATATTAATATAA
109991 AATATAGTCT
Statistics
Matches: 92, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
24 15 0.16
25 5 0.05
26 1 0.01
28 21 0.23
29 3 0.03
30 4 0.04
31 17 0.18
32 3 0.03
33 5 0.05
34 17 0.18
35 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATAATTAATATTAATATAATTATATA
Found at i:109957 original size:21 final size:20
Alignment explanation
Indices: 109908--109959 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
109898 TTATATATTA
109908 TAAT-TAATATTAATATAAT
1 TAATATAATATTAATATAAT
109927 TAATATTAATATTAACT-TATAT
1 TAATA-TAATATTAA-TATA-AT
109949 TAATATAATAT
1 TAATATAATAT
109960 AGTTTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.14
21 17 0.59
22 8 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATATAATATTAATATAAT
Found at i:109968 original size:43 final size:41
Alignment explanation
Indices: 109860--109986 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 41
109850 TCTATATAAT
* *
109860 TTATATTAATA-AA-CTATTTATAATTAATATTAA-AATAA
1 TTATATTAATATAATATATTTATAATTAATATTAATATTAA
*
109898 TTATA-TATTATAATTAATATTAATATAATTAATATTAATATTAA
1 TTATATTAATATAA-T-ATATT--TATAATTAATATTAATATTAA
**
109942 CTTATATTAATATAATATAGTTTATAATTTGTAATTAATATTAA
1 -TTATATTAATATAATATA-TTTATAATTAAT-ATTAATATTAA
109986 T
1 T
109987 ATAAAATATA
Statistics
Matches: 72, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
37 4 0.06
38 7 0.10
41 4 0.06
43 24 0.33
44 18 0.25
45 8 0.11
46 7 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (41 bp):
TTATATTAATATAATATATTTATAATTAATATTAATATTAA
Found at i:110016 original size:31 final size:30
Alignment explanation
Indices: 109978--110035 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
109968 ATTTGTAATT
109978 AATATTAATATAAAATATA-GTCTATAAAATC
1 AATATTAAT-TAAAATATATGT-TATAAAATC
*
110009 AATATTAATTAAACTATATGTTATAAA
1 AATATTAATTAAAATATATGTTATAAA
110036 TTATATAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (30 bp):
AATATTAATTAAAATATATGTTATAAAATC
Found at i:110053 original size:21 final size:20
Alignment explanation
Indices: 110021--110171 Score: 74
Period size: 21 Copynumber: 7.0 Consensus size: 20
110011 TATTAATTAA
110021 ACTATATGTTATAAATTATAT
1 ACTATAT-TTATAAATTATAT
* *
110042 AGTATAGTTTATAAACTATAT
1 ACTATA-TTTATAAATTATAT
110063 ACTATATTAATATAAATTATAATT
1 ACTATATT--TATAAATTAT-A-T
** * *
110087 AAGATAATTA-ACATTAATAT
1 ACTATATTTATAAATT-ATAT
*
110107 AAACTATA--TAGTACATTAATAT
1 --ACTATATTTA-TAAATT-ATAT
110129 AAACTATAGTTTATAAATTATAT
1 --ACTATA-TTTATAAATTATAT
*
110152 ACTATATGTTATAAAGTATA
1 ACTATAT-TTATAAATTATA
110172 AACTTTATAG
Statistics
Matches: 104, Mismatches: 12, Indels: 28
0.72 0.08 0.19
Matches are distributed among these distances:
20 6 0.06
21 44 0.42
22 36 0.35
23 5 0.05
24 11 0.11
25 2 0.02
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
ACTATATTTATAAATTATAT
Found at i:110070 original size:87 final size:89
Alignment explanation
Indices: 109979--110158 Score: 217
Period size: 89 Copynumber: 2.0 Consensus size: 89
109969 TTTGTAATTA
* * *
109979 ATATTAATATAAAATATAGTCTATA-A-AATCAATATTAAT-TAAACTATAT-GT-TATAAATTA
1 ATATTAATATAAAATATAAT-TA-AGATAATCAACATTAATATAAACTATATAGTACATAAA-TA
* *
110039 TATAGTATAGTTTATAAACTATATACT
63 TAAACTATAGTTTATAAACTATATACT
* * *
110066 ATATTAATATAAATTATAATTAAGATAATTAACATTAATATAAACTATATAGTACATTAATATAA
1 ATATTAATATAAAATATAATTAAGATAATCAACATTAATATAAACTATATAGTACATAAATATAA
*
110131 ACTATAGTTTATAAATTATATACT
66 ACTATAGTTTATAAACTATATACT
110155 ATAT
1 ATAT
110159 GTTATAAAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
85 1 0.01
86 3 0.04
87 29 0.37
88 10 0.13
89 32 0.41
90 4 0.05
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (89 bp):
ATATTAATATAAAATATAATTAAGATAATCAACATTAATATAAACTATATAGTACATAAATATAA
ACTATAGTTTATAAACTATATACT
Found at i:110123 original size:22 final size:22
Alignment explanation
Indices: 110097--110199 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
110087 AAGATAATTA
110097 ACATTAATATAAACTATATAGT
1 ACATTAATATAAACTATATAGT
110119 ACATTAATATAAAC--TATAGT
1 ACATTAATATAAACTATATAGT
** * *
110139 TTATAAATTATATACTATAT-GT
1 ACATTAA-TATAAACTATATAGT
* * *
110161 -TATAAAGTATAAACTTTATAGT
1 ACATTAA-TATAAACTATATAGT
*
110183 ACACTAATATAAACTAT
1 ACATTAATATAAACTAT
110200 TGTTTATAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
20 10 0.15
21 22 0.34
22 27 0.42
23 6 0.09
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.39
Consensus pattern (22 bp):
ACATTAATATAAACTATATAGT
Found at i:110157 original size:89 final size:85
Alignment explanation
Indices: 109947--110158 Score: 216
Period size: 87 Copynumber: 2.4 Consensus size: 85
109937 ATTAACTTAT
* * * *
109947 ATTAATAT-AATATAGTTTATAATTTGTA-ATTAATATTAATATAAAATATAGTCTATAAAATCA
1 ATTAATATAAATATAGTTTATAAATTATATACT-ATATTAATATAAAATATAATCTATAAAATCA
* *
110010 ATATTAATTAAACTATATGTT
65 ACATTAATTAAACTATATGTC
* * * *
110031 ATAAATTATATAGTATAGTTTATAAACTATATACTATATTAATATAAATTATAAT-TA-AGATAA
1 ATTAA-TATA-AATATAGTTTATAAATTATATACTATATTAATATAAAATATAATCTATA-A-AA
*
110094 TTAACATTAATATAAACTATATAGTAC
62 TCAACATTAAT-TAAACTATAT-GT-C
110121 ATTAATATAAACTATAGTTTATAAATTATATACTATAT
1 ATTAATATAAA-TATAGTTTATAAATTATATACTATAT
110159 GTTATAAAGT
Statistics
Matches: 104, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
84 4 0.04
85 4 0.04
86 3 0.03
87 45 0.43
88 13 0.12
89 31 0.30
90 4 0.04
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (85 bp):
ATTAATATAAATATAGTTTATAAATTATATACTATATTAATATAAAATATAATCTATAAAATCAA
CATTAATTAAACTATATGTC
Found at i:110214 original size:21 final size:21
Alignment explanation
Indices: 110124--110214 Score: 69
Period size: 21 Copynumber: 4.3 Consensus size: 21
110114 ATAGTACATT
*
110124 AATATAAACTATAGTTTATAA
1 AATATAAACTATTGTTTATAA
* *
110145 ATTATATACTATATG-TTATAA
1 AATATAAACTAT-TGTTTATAA
* * * * *
110166 AGTATAAACT-TTATAGTACACT
1 AATATAAACTATTGT-TTATA-A
110188 AATATAAACTATTGTTTATAA
1 AATATAAACTATTGTTTATAA
110209 AATATA
1 AATATA
110215 GGTTACATAT
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 33 0.65
22 13 0.25
23 3 0.06
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (21 bp):
AATATAAACTATTGTTTATAA
Found at i:110284 original size:57 final size:55
Alignment explanation
Indices: 110211--110344 Score: 162
Period size: 57 Copynumber: 2.4 Consensus size: 55
110201 GTTTATAAAA
*
110211 TATAGGTTACATATATAGTTTATATA-ACATATAAATAGATTGTATATATAAATATAC
1 TATAGGTTACATATATAGTTTATATATAC-TATAAATAG-TT-TATACATAAATATAC
* * * * * *
110268 TATTGGTTATATATATAATTTATATATACTATACATAGTTTATACATACATGTAC
1 TATAGGTTACATATATAGTTTATATATACTATAAATAGTTTATACATAAATATAC
*
110323 TATAAGTTACATATATAGTTTA
1 TATAGGTTACATATATAGTTTA
110345 CATGTATACA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
55 30 0.46
56 2 0.03
57 31 0.48
58 2 0.03
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (55 bp):
TATAGGTTACATATATAGTTTATATATACTATAAATAGTTTATACATAAATATAC
Found at i:110515 original size:15 final size:15
Alignment explanation
Indices: 110497--110557 Score: 86
Period size: 15 Copynumber: 3.9 Consensus size: 15
110487 TTTATATGGT
110497 TTATATATATATAGG
1 TTATATATATATAGG
110512 TTATATATATATATAGG
1 -T-TATATATATATAGG
*
110529 TTATATATATATAGT
1 TTATATATATATAGG
110544 TTATATATACTATA
1 TTATATATA-TATA
110558 CATAGTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
15 22 0.52
16 6 0.14
17 14 0.33
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (15 bp):
TTATATATATATAGG
Found at i:110518 original size:17 final size:17
Alignment explanation
Indices: 110489--110541 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
110479 TAATTTACTT
110489 TATAT-GGTT-TATATA
1 TATATAGGTTATATATA
110504 TATATAGGTTATATATA
1 TATATAGGTTATATATA
110521 TATATAGGTTATATATA
1 TATATAGGTTATATATA
110538 TATA
1 TATA
110542 GTTTATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.14
16 4 0.11
17 27 0.75
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
TATATAGGTTATATATA
Found at i:110550 original size:17 final size:17
Alignment explanation
Indices: 110498--110568 Score: 83
Period size: 17 Copynumber: 4.1 Consensus size: 17
110488 TTATATGGTT
*
110498 TATATATATATAGGTTA
1 TATATATATATAGTTTA
*
110515 TATATATATATAG-GT-
1 TATATATATATAGTTTA
110530 TATATATATATAGTTTA
1 TATATATATATAGTTTA
110547 TATATACTATACATAGTTTA
1 TATATA-TAT--ATAGTTTA
110567 TA
1 TA
110569 CATACATGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
15 13 0.28
16 2 0.04
17 19 0.40
18 3 0.06
20 10 0.21
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (17 bp):
TATATATATATAGTTTA
Found at i:110562 original size:20 final size:20
Alignment explanation
Indices: 110530--110573 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
110520 ATATATAGGT
*
110530 TATA-TATATATAGTTTATA
1 TATACTATACATAGTTTATA
110549 TATACTATACATAGTTTATA
1 TATACTATACATAGTTTATA
*
110569 CATAC
1 TATAC
110574 ATGTACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (20 bp):
TATACTATACATAGTTTATA
Found at i:110598 original size:35 final size:36
Alignment explanation
Indices: 110559--110632 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
110549 TATACTATAC
*
110559 ATAGTTTATA-CATACATGTACTATAAGTTACATAT
1 ATAGTTTATAGCATACATATACTATAAGTTACATAT
* *
110594 ATAGTTTATATGTATACATATACTATAGGTTACATAT
1 ATAGTTTATA-GCATACATATACTATAAGTTACATAT
110631 AT
1 AT
110633 TAACTATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 10 0.29
37 24 0.71
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (36 bp):
ATAGTTTATAGCATACATATACTATAAGTTACATAT
Found at i:110692 original size:13 final size:13
Alignment explanation
Indices: 110674--110701 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
110664 TACATATATA
110674 ATTTATATAAACT
1 ATTTATATAAACT
110687 ATTTATATAAACT
1 ATTTATATAAACT
110700 AT
1 AT
110702 ATATGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTATATAAACT
Found at i:110770 original size:2 final size:2
Alignment explanation
Indices: 110763--110905 Score: 61
Period size: 2 Copynumber: 72.5 Consensus size: 2
110753 TTCTATAAAC
* *
110763 TA TA TA TA TA TA TA TA TA GTC TA TA GA T- TA CT- TA TA T- TA GT-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA -TA
* * *
110804 TA TA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA -A
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
110843 TT TA TA AA CTA TA TA T- TT TA TA TA GTT TA TA CA TA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
110885 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
110906 TAATATAAAT
Statistics
Matches: 104, Mismatches: 21, Indels: 32
0.66 0.13 0.20
Matches are distributed among these distances:
1 9 0.09
2 87 0.84
3 8 0.08
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:110834 original size:66 final size:62
Alignment explanation
Indices: 110763--110920 Score: 140
Period size: 66 Copynumber: 2.4 Consensus size: 62
110753 TTCTATAAAC
**
110763 TATATATATATATATATAGTCTATAGATTACTTATATTAG-TTATACATACATA-TATATACTAT
1 TATATATATATATATATAAACTATAGATT--TTATA-TAGTTTATACATACATAGTATATA-TAT
110826 A
62 A
* * * * *
110827 TTAATATAAATTATAATTTATAAACTATATATTTTATATAGTTTATACATATATAGTTTATATAT
1 -T-ATATATA-TAT-ATATATAAACTATAGATTTTATATAGTTTATACATACATAGTATATATAT
110892 A
62 A
*
110893 TATATATATATATTAATATAAATTATAG
1 TATATATATATA-T-ATATAAACTATAG
110921 TTTATAAACT
Statistics
Matches: 75, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
62 1 0.01
63 4 0.05
64 16 0.21
65 5 0.07
66 27 0.36
67 8 0.11
68 14 0.19
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (62 bp):
TATATATATATATATATAAACTATAGATTTTATATAGTTTATACATACATAGTATATATATA
Found at i:110866 original size:25 final size:24
Alignment explanation
Indices: 110838--110968 Score: 104
Period size: 24 Copynumber: 5.2 Consensus size: 24
110828 TAATATAAAT
*
110838 TATAATTTATAAACTATATATTTTA
1 TATAGTTTATAAA-TATATATTTTA
* *
110863 TATAGTTTATACATATATAGTTTA
1 TATAGTTTATAAATATATATTTTA
* *
110887 TATA-TATATATATATATATTAATATAAA
1 TATAGTTTATAAATATATATT--T-T--A
110915 TTATAGTTTATAAACTATATACTTTT-
1 -TATAGTTTATAAA-TATATA-TTTTA
* *
110941 TATAGTTTATACATATATAGTTTA
1 TATAGTTTATAAATATATATTTTA
110965 TATA
1 TATA
110969 CATAGTTCAT
Statistics
Matches: 86, Mismatches: 10, Indels: 21
0.74 0.09 0.18
Matches are distributed among these distances:
23 16 0.19
24 24 0.28
25 24 0.28
26 1 0.01
28 1 0.01
29 5 0.06
30 7 0.08
31 6 0.07
32 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (24 bp):
TATAGTTTATAAATATATATTTTA
Found at i:110927 original size:78 final size:79
Alignment explanation
Indices: 110795--110972 Score: 288
Period size: 78 Copynumber: 2.2 Consensus size: 79
110785 ATAGATTACT
*
110795 TATATTAGTTATACATACATATATATACTATATTAATATAAATTATAATTTATAAACTATATA-T
1 TATA-TAGTT-TATATACATATATATACTATATTAATATAAATTATAATTTATAAACTATATACT
110859 TTTATATAGTTTATACA
64 TTT-TATAGTTTATACA
* *
110876 TATATAGTTTATATATATATATATA-TATATTAATATAAATTATAGTTTATAAACTATATACTTT
1 TATATAGTTTATATACATATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTT
110940 TTATAGTTTATACA
66 TTATAGTTTATACA
110954 TATATAGTTTATATACATA
1 TATATAGTTTATATACATA
110973 GTTCATATAA
Statistics
Matches: 92, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
78 65 0.71
79 18 0.20
80 5 0.05
81 4 0.04
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (79 bp):
TATATAGTTTATATACATATATATACTATATTAATATAAATTATAATTTATAAACTATATACTTT
TTATAGTTTATACA
Found at i:110972 original size:17 final size:15
Alignment explanation
Indices: 110861--110896 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
110851 CTATATATTT
110861 TATATAGTTTATACA
1 TATATAGTTTATACA
*
110876 TATATAGTTTATATA
1 TATATAGTTTATACA
110891 TATATA
1 TATATA
110897 TATATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:110981 original size:15 final size:15
Alignment explanation
Indices: 110942--111029 Score: 58
Period size: 15 Copynumber: 5.9 Consensus size: 15
110932 TATACTTTTT
* *
110942 ATAGTTTATACATAT
1 ATAGTTTATATATAC
110957 ATAG-TT-TATATAC
1 ATAGTTTATATATAC
* *
110970 ATAGTTCATATAAAC
1 ATAGTTTATATATAC
*
110985 ATAATTTATATAT--
1 ATAGTTTATATATAC
* *
110998 ATAGCTTATAATTATTAT
1 ATAGTTTAT-A-TA-TAC
111016 ATAGTTTATATATA
1 ATAGTTTATATATA
111030 AAATTATATT
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
13 16 0.29
14 4 0.07
15 24 0.43
16 3 0.05
17 1 0.02
18 8 0.14
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (15 bp):
ATAGTTTATATATAC
Found at i:111018 original size:18 final size:20
Alignment explanation
Indices: 110985--111025 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
110975 TCATATAAAC
110985 ATAATTTATATATATAGCTT
1 ATAATTTATATATATAGCTT
*
111005 ATAA-TTAT-TATATAGTTT
1 ATAATTTATATATATAGCTT
111023 ATA
1 ATA
111026 TATAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (20 bp):
ATAATTTATATATATAGCTT
Found at i:115523 original size:21 final size:21
Alignment explanation
Indices: 115499--115556 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
115489 AGCTTTACAT
115499 TTTTTATTGAATTTTATT-CA
1 TTTTTATTGAATTTTATTGCA
* *** *
115519 CTTTTAATTCTTTTTTATTGTA
1 -TTTTTATTGAATTTTATTGCA
115541 TTTTTATTGAATTTTA
1 TTTTTATTGAATTTTA
115557 AATATATGAA
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTATTGAATTTTATTGCA
Found at i:115901 original size:59 final size:59
Alignment explanation
Indices: 115834--115953 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 59
115824 AAGTTTAGAG
*
115834 AGTAATACA-AAAGATTAAAGGATTACTTTGTAACTTTTAATAGTTGGTG-GACTCAACAA
1 AGTAATACACAAA-ATTAAAGGATTACTTTGTAACTTTTAATAGTCGG-GAGACTCAACAA
* * *
115893 AGTAATACACTATAATTAAAGGATTATTTTGTAATTTTTAATAGTCGGGAGACTCAACAA
1 AGTAATACAC-AAAATTAAAGGATTACTTTGTAACTTTTAATAGTCGGGAGACTCAACAA
115953 A
1 A
115954 ACAACACCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
59 10 0.19
60 42 0.78
61 2 0.04
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (59 bp):
AGTAATACACAAAATTAAAGGATTACTTTGTAACTTTTAATAGTCGGGAGACTCAACAA
Found at i:115966 original size:60 final size:60
Alignment explanation
Indices: 115847--115969 Score: 167
Period size: 60 Copynumber: 2.0 Consensus size: 60
115837 AATACAAAAG
* ** *
115847 ATTAAAGGATTACTTTGTAACTTTTAATAGTTGGTGGACTCAACAAAGTAATACACTATA
1 ATTAAAGGATTACTTTGTAACTTTTAATAGTCGGTGGACTCAACAAAACAACACACTATA
* * *
115907 ATTAAAGGATTATTTTGTAATTTTTAATAGTCGG-GAGACTCAACAAAACAACACCCTATA
1 ATTAAAGGATTACTTTGTAACTTTTAATAGTCGGTG-GACTCAACAAAACAACACACTATA
115967 ATT
1 ATT
115970 TGGATATCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 1 0.02
60 54 0.98
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (60 bp):
ATTAAAGGATTACTTTGTAACTTTTAATAGTCGGTGGACTCAACAAAACAACACACTATA
Found at i:118305 original size:24 final size:24
Alignment explanation
Indices: 118273--118321 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
118263 AGTCTTCCTG
*
118273 ATGATGTATAAAACATGTATGTAC
1 ATGATGTATAAAACATCTATGTAC
118297 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
118321 A
1 A
118322 ATGTCATGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:124506 original size:4 final size:4
Alignment explanation
Indices: 124497--124523 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
124487 CAATGCATGT
124497 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
124524 CATAGTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:125416 original size:30 final size:32
Alignment explanation
Indices: 125377--125448 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
125367 AATATTTTTA
*
125377 ATTTT-AATTA-A-AAATATTAAAAAATTAAC
1 ATTTTAAATTATACAAATATTAAAAAACTAAC
*
125406 ATTTTAAATTATACAAATATTAAAAAACTAAT
1 ATTTTAAATTATACAAATATTAAAAAACTAAC
*
125438 ATTTTATATTA
1 ATTTTAAATTA
125449 CACTCAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.14
30 5 0.14
31 1 0.03
32 26 0.70
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (32 bp):
ATTTTAAATTATACAAATATTAAAAAACTAAC
Found at i:135782 original size:25 final size:24
Alignment explanation
Indices: 135716--135832 Score: 189
Period size: 24 Copynumber: 4.8 Consensus size: 24
135706 AAATATCAAA
135716 TCTTAAAACAACACTTCATTTGTC
1 TCTTAAAACAACACTTCATTTGTC
* *
135740 TCTTAAATCAACACTTCATTTCTC
1 TCTTAAAACAACACTTCATTTGTC
135764 TCTTAAAAACAACACTTCATTTGTC
1 TCTT-AAAACAACACTTCATTTGTC
135789 TCTTAAAACAACACTTCATTTGTC
1 TCTTAAAACAACACTTCATTTGTC
*
135813 TCTTAAAAATAACACTTCAT
1 TCTT-AAAACAACACTTCAT
135833 GCATCCTATA
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
24 50 0.58
25 36 0.42
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (24 bp):
TCTTAAAACAACACTTCATTTGTC
Found at i:135787 original size:49 final size:49
Alignment explanation
Indices: 135716--135832 Score: 200
Period size: 49 Copynumber: 2.4 Consensus size: 49
135706 AAATATCAAA
*
135716 TCTT-AAAACAACACTTCATTTGTCTCTTAAATCAACACTTCATTTCTC
1 TCTTAAAAACAACACTTCATTTGTCTCTTAAAACAACACTTCATTTCTC
*
135764 TCTTAAAAACAACACTTCATTTGTCTCTTAAAACAACACTTCATTTGTC
1 TCTTAAAAACAACACTTCATTTGTCTCTTAAAACAACACTTCATTTCTC
*
135813 TCTTAAAAATAACACTTCAT
1 TCTTAAAAACAACACTTCAT
135833 GCATCCTATA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
48 4 0.06
49 61 0.94
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (49 bp):
TCTTAAAAACAACACTTCATTTGTCTCTTAAAACAACACTTCATTTCTC
Found at i:136305 original size:18 final size:18
Alignment explanation
Indices: 136278--136313 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
136268 TTCGAGAATT
136278 ATCGAGACTAAATTAATC
1 ATCGAGACTAAATTAATC
*
136296 ATCGATACTAAATTAATC
1 ATCGAGACTAAATTAATC
136314 GAATATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (18 bp):
ATCGAGACTAAATTAATC
Found at i:139115 original size:42 final size:42
Alignment explanation
Indices: 139026--139148 Score: 126
Period size: 42 Copynumber: 3.0 Consensus size: 42
139016 CTATTGTAGC
* * * *
139026 ATTTGTGGTATAAACACCACTAATTTACCACTCTATTAC-AG
1 ATTTGTGGTATAAACGCCGCTAAATTACCACTCTATTGCGAG
139067 TATTTGTGGTATAAACGCCGCTAAATTACCACTCTATTGCGACG
1 -ATTTGTGGTATAAACGCCGCTAAATTACCACTCTATTGCGA-G
* * * * *
139111 -TTTGTGCTA-AAACGCCGCAAAATTTCTACTCGATTGCG
1 ATTTGTGGTATAAACGCCGCTAAATTACCACTCTATTGCG
139149 GTGTTTTTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
41 25 0.36
42 43 0.61
43 1 0.01
44 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (42 bp):
ATTTGTGGTATAAACGCCGCTAAATTACCACTCTATTGCGAG
Found at i:139147 original size:41 final size:42
Alignment explanation
Indices: 139069--139148 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
139059 TATTACAGTA
* * *
139069 TTTGTGGTATAAACGCCGCTAAATTACCACTCTATTGCGACG
1 TTTGTGCTATAAACGCCGCAAAATTACCACTCGATTGCGACG
* *
139111 TTTGTGCTA-AAACGCCGCAAAATTTCTACTCGATTGCG
1 TTTGTGCTATAAACGCCGCAAAATTACCACTCGATTGCG
139149 GTGTTTTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
41 25 0.76
42 8 0.24
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (42 bp):
TTTGTGCTATAAACGCCGCAAAATTACCACTCGATTGCGACG
Found at i:141944 original size:898 final size:898
Alignment explanation
Indices: 140209--142007 Score: 3517
Period size: 898 Copynumber: 2.0 Consensus size: 898
140199 CCATTCAAGA
140209 AGGCATTATTAATGTCAAATTGCCTAAGCTTCCACCCTTTGGATAAAGCAAGAGAAATAATCACA
1 AGGCATTATTAATGTCAAATTGCCTAAGCTTCCACCCTTTGGATAAAGCAAGAGAAATAATCACA
140274 TGAATTGTAGTTGGTTTCACCACTGGACTAAAGACTTCATGAAAGTCAACACCGGGTTGTTGAAG
66 TGAATTGTAGTTGGTTTCACCACTGGACTAAAGACTTCATGAAAGTCAACACCGGGTTGTTGAAG
140339 AAATCATTTCGCCATAAGCCTGGCCTTATAACGAGCTACAGACCCATTTGGATTCCTTTTTACTT
131 AAATCATTTCGCCATAAGCCTGGCCTTATAACGAGCTACAGACCCATTTGGATTCCTTTTTACTT
140404 TAAAAATTTGTTTGCAGTTGAAAACTTGTCTATCATTTGGAAGAGGAACAAAAGTCCAAGCGTCA
196 TAAAAATTTGTTTGCAGTTGAAAACTTGTCTATCATTTGGAAGAGGAACAAAAGTCCAAGCGTCA
140469 TTATTCATCAACGCCTCATACTCTTCCTCTATTTCCTTCTGCCATTATGGAGATAACGAAGCTTC
261 TTATTCATCAACGCCTCATACTCTTCCTCTATTTCCTTCTGCCATTATGGAGATAACGAAGCTTC
140534 CTCAATAGAGTGAGGCTCTTTATCCAGACATGCAACATGCAGAGCCTTAGGTTTATGAATCCCAT
326 CTCAATAGAGTGAGGCTCTTTATCCAGACATGCAACATGCAGAGCCTTAGGTTTATGAATCCCAT
140599 TTTTCATTATTGTCACTATGGGATGAATATTATGAGAACCAGACATAGAACCATGGATAGCAGGT
391 TTTTCATTATTGTCACTATGGGATGAATATTATGAGAACCAGACATAGAACCATGGATAGCAGGT
140664 ATCGCAACAACATCCTTAGCACGTGAAAAATTAGTCGAGCCCACTAAACCTTACTCAGTCTGAAC
456 ATCGCAACAACATCCTTAGCACGTGAAAAATTAGTCGAGCCCACTAAACCTTACTCAGTCTGAAC
*
140729 ACAAGGACCATTATTATCATCTGCACACAAGATATGCGTACGCAATGACTGATCTATGCAATGTG
521 ACAAGGACCATTATTATCATCTGCACACAAGATATGCGTACGCAATGACTGATCTACGCAATGTG
140794 TAGGATTGGACATGACACTAGCCTCGAGAATCCCAAGAGTAGAAGATCGAGACTCTTGAAAAATA
586 TAGGATTGGACATGACACTAGCCTCGAGAATCCCAAGAGTAGAAGATCGAGACTCTTGAAAAATA
140859 GGATAGCATTCCCCAAGTGCAGAAATAACTCCATCACGTGAACTACCACTCAAAAAATCATTTGT
651 GGATAGCATTCCCCAAGTGCAGAAATAACTCCATCACGTGAACTACCACTCAAAAAATCATTTGT
140924 CAACCATGCATCATTTTGCTCATTCCTCACCAAAACACGCAGGGAATAACAAGAATTCACCACAA
716 CAACCATGCATCATTTTGCTCATTCCTCACCAAAACACGCAGGGAATAACAAGAATTCACCACAA
*
140989 TAGGAGGCTGTGTAGCAGACCCAAAAGCTACCACAAGTACAAAAGCTGTATCTAGTGTAGGCATC
781 TAGGAGGCTGTGTAGCAGACCCAAAAGCTACCACAAGTACAAAAGCTGTATCTAGTGTAGGAATC
* *
141054 GCCTCATTTTCTTAAGAAACTACCACTTCCACAACTTTTTGAGAAGCTGATTG
846 GCCTCATTTCCTTAAGAAACTACCACCTCCACAACTTTTTGAGAAGCTGATTG
*
141107 AGGCATTATTAATGTCAAATTGCCTAAGCTTCCACCCTTTGGATAAAGCAAGAGAAATAATCATA
1 AGGCATTATTAATGTCAAATTGCCTAAGCTTCCACCCTTTGGATAAAGCAAGAGAAATAATCACA
141172 TGAATTGTAGTTGGTTTCACCACTGGACTAAAGACTTCATGAAAGTCAACACCGGGTTGTTGAAG
66 TGAATTGTAGTTGGTTTCACCACTGGACTAAAGACTTCATGAAAGTCAACACCGGGTTGTTGAAG
141237 AAATCATTTCGCCATAAGCCTGGCCTTATAACGAGCTACAGACCCATTTGGATTCCTTTTTACTT
131 AAATCATTTCGCCATAAGCCTGGCCTTATAACGAGCTACAGACCCATTTGGATTCCTTTTTACTT
* *
141302 TAAAAATTTGTTTGTAGTTGAAAACTTGTCTATCATTTGGAAGAGGAACAAAATTCCAAGCGTCA
196 TAAAAATTTGTTTGCAGTTGAAAACTTGTCTATCATTTGGAAGAGGAACAAAAGTCCAAGCGTCA
*
141367 TTATTCATCAACGCCTCATACTCTTCCTTTATTTCCTTCTGCCATTATGGAGATAACGAAGCTTC
261 TTATTCATCAACGCCTCATACTCTTCCTCTATTTCCTTCTGCCATTATGGAGATAACGAAGCTTC
141432 CTCAATAGAGTGAGGCTCTTTATCCAGACATGCAACATGCAGAGCCTTAGGTTTATGAATCCCAT
326 CTCAATAGAGTGAGGCTCTTTATCCAGACATGCAACATGCAGAGCCTTAGGTTTATGAATCCCAT
141497 TTTTCATTATTGTCACTATGGGATGAATATTATGAGAACCAGACATAGAACCATGGATAGCAGGT
391 TTTTCATTATTGTCACTATGGGATGAATATTATGAGAACCAGACATAGAACCATGGATAGCAGGT
141562 ATCGCAACAACATCCTTAGCACGTGAAAAATTAGTCGAGCCCACTAAACCTTACTCAGTCTGAAC
456 ATCGCAACAACATCCTTAGCACGTGAAAAATTAGTCGAGCCCACTAAACCTTACTCAGTCTGAAC
141627 ACAAGGACCATTATTATCATCTGCACACAAGATATGCGTACGCAATGACTGATCTACGCAATGTG
521 ACAAGGACCATTATTATCATCTGCACACAAGATATGCGTACGCAATGACTGATCTACGCAATGTG
*
141692 TAGGATTGGACATGACACTAGCCTCGAGAATCCCAAGAGTAGAAGATTGAGACTCTTGAAAAATA
586 TAGGATTGGACATGACACTAGCCTCGAGAATCCCAAGAGTAGAAGATCGAGACTCTTGAAAAATA
141757 GGATAGCATTCCCCAAGTGCAGAAATAACTCCATCACGTGAACTACCACTCAAAAAATCATTTGT
651 GGATAGCATTCCCCAAGTGCAGAAATAACTCCATCACGTGAACTACCACTCAAAAAATCATTTGT
141822 CAACCATGCATCATTTTGCTCATTCCTCACCAAAACACGCAGGGAATAACAAGAATTCACCACAA
716 CAACCATGCATCATTTTGCTCATTCCTCACCAAAACACGCAGGGAATAACAAGAATTCACCACAA
141887 TAGGAGGCTGTGTAGCAGACCCAAAAGCTACCACAAGTACAAAAGCTGTATCTAGTGTAGGAATC
781 TAGGAGGCTGTGTAGCAGACCCAAAAGCTACCACAAGTACAAAAGCTGTATCTAGTGTAGGAATC
141952 GCCTCATTTCCTTAAGAAACTACCACCTCCACAACTTTTTGAGAAGCTGATTG
846 GCCTCATTTCCTTAAGAAACTACCACCTCCACAACTTTTTGAGAAGCTGATTG
142005 AGG
1 AGG
142008 AGAAAAACAA
Statistics
Matches: 892, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
898 892 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (898 bp):
AGGCATTATTAATGTCAAATTGCCTAAGCTTCCACCCTTTGGATAAAGCAAGAGAAATAATCACA
TGAATTGTAGTTGGTTTCACCACTGGACTAAAGACTTCATGAAAGTCAACACCGGGTTGTTGAAG
AAATCATTTCGCCATAAGCCTGGCCTTATAACGAGCTACAGACCCATTTGGATTCCTTTTTACTT
TAAAAATTTGTTTGCAGTTGAAAACTTGTCTATCATTTGGAAGAGGAACAAAAGTCCAAGCGTCA
TTATTCATCAACGCCTCATACTCTTCCTCTATTTCCTTCTGCCATTATGGAGATAACGAAGCTTC
CTCAATAGAGTGAGGCTCTTTATCCAGACATGCAACATGCAGAGCCTTAGGTTTATGAATCCCAT
TTTTCATTATTGTCACTATGGGATGAATATTATGAGAACCAGACATAGAACCATGGATAGCAGGT
ATCGCAACAACATCCTTAGCACGTGAAAAATTAGTCGAGCCCACTAAACCTTACTCAGTCTGAAC
ACAAGGACCATTATTATCATCTGCACACAAGATATGCGTACGCAATGACTGATCTACGCAATGTG
TAGGATTGGACATGACACTAGCCTCGAGAATCCCAAGAGTAGAAGATCGAGACTCTTGAAAAATA
GGATAGCATTCCCCAAGTGCAGAAATAACTCCATCACGTGAACTACCACTCAAAAAATCATTTGT
CAACCATGCATCATTTTGCTCATTCCTCACCAAAACACGCAGGGAATAACAAGAATTCACCACAA
TAGGAGGCTGTGTAGCAGACCCAAAAGCTACCACAAGTACAAAAGCTGTATCTAGTGTAGGAATC
GCCTCATTTCCTTAAGAAACTACCACCTCCACAACTTTTTGAGAAGCTGATTG
Found at i:147780 original size:13 final size:13
Alignment explanation
Indices: 147762--147786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
147752 GTATTTTGCT
147762 TTGTTGGGCTTTA
1 TTGTTGGGCTTTA
147775 TTGTTGGGCTTT
1 TTGTTGGGCTTT
147787 GAGTTGGGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.08, G:0.32, T:0.56
Consensus pattern (13 bp):
TTGTTGGGCTTTA
Found at i:147825 original size:3 final size:3
Alignment explanation
Indices: 147819--147855 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
147809 TAAAATATAT
*
147819 TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
147856 TTAAAACTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Done.