Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_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: 3563405
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 16
Found at i:806759 original size:20 final size:20
Alignment explanation
Indices: 806730--806816 Score: 120
Period size: 20 Copynumber: 4.3 Consensus size: 20
806720 CGTGTTTCGC
806730 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
*
806750 GTTGCAAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
* * * *
806770 GTTGCGGATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
*
806790 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGT
806810 GTTGCGA
1 GTTGCGA
806817 TTTACAAATT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.16, C:0.14, G:0.26, T:0.44
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:806774 original size:40 final size:40
Alignment explanation
Indices: 806730--806880 Score: 121
Period size: 40 Copynumber: 3.8 Consensus size: 40
806720 CGTGTTTCGC
* * * *
806730 GTTGCGAATTTGACTTTTGTGTTGCAAATTTGACTTTTGT
1 GTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTCTGT
* *
806770 GTTGCGGATTTGACTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTCTGT
* * ** *
806810 GTTGCG-ATTT-ACAAATTCGCGTTGCAAAATTGGA-AACTGG
1 GTTGCGAATTTGAC-TA-TCGCGTTGC-AAATTTGACTTCTGT
* * *
806850 GTTGTGAATTTGA-GATCGTGTTGCAAATTTG
1 GTTGCGAATTTGACTATCGCGTTGCAAATTTG
806881 TTGGTCATTT
Statistics
Matches: 90, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
38 8 0.09
39 13 0.14
40 58 0.64
41 10 0.11
42 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (40 bp):
GTTGCGAATTTGACTATCGCGTTGCAAATTTGACTTCTGT
Found at i:813042 original size:11 final size:11
Alignment explanation
Indices: 813028--813053 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
813018 CTTTTCCGGT
813028 CACCCTCCGTC
1 CACCCTCCGTC
813039 CACCCTCCGTC
1 CACCCTCCGTC
813050 CACC
1 CACC
813054 AGTGCTATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.65, G:0.08, T:0.15
Consensus pattern (11 bp):
CACCCTCCGTC
Found at i:819850 original size:5 final size:5
Alignment explanation
Indices: 819840--819924 Score: 80
Period size: 5 Copynumber: 15.8 Consensus size: 5
819830 CAACGTCAAC
* * *
819840 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCA
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
*
819889 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC
819925 AGACCGGTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
5 55 0.82
7 12 0.18
ACGTcount: A:0.08, C:0.22, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:819859 original size:22 final size:22
Alignment explanation
Indices: 819834--819925 Score: 175
Period size: 22 Copynumber: 4.2 Consensus size: 22
819824 GAAAGTCAAC
819834 GTCAACGGTCGGGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
819856 GTCAACGGTCGGGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
*
819878 GTCAACGGTCAGGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
819900 GTCAACGGTCGGGTCGGGTCGG
1 GTCAACGGTCGGGTCGGGTCGG
819922 GTCA
1 GTCA
819926 GACCGGTCAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 68 1.00
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (22 bp):
GTCAACGGTCGGGTCGGGTCGG
Found at i:819867 original size:17 final size:16
Alignment explanation
Indices: 819845--819919 Score: 70
Period size: 17 Copynumber: 4.9 Consensus size: 16
819835 TCAACGGTCG
819845 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTC-AC
*
819862 GGTCGGGTCGGGTC-G
1 GGTCGGGTCGGGTCAC
**
819877 GGTC--AAC-GGTCA-
1 GGTCGGGTCGGGTCAC
819889 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTC-AC
819906 GGTCGGGTCGGGTC
1 GGTCGGGTCGGGTC
819920 GGGTCAGACC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 8 0.17
13 1 0.02
14 1 0.02
15 8 0.17
16 1 0.02
17 28 0.60
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (16 bp):
GGTCGGGTCGGGTCAC
Found at i:819876 original size:27 final size:26
Alignment explanation
Indices: 819841--819902 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
819831 AACGTCAACG
*
819841 GTCGGGTCGGGTC-GGGTCAACGGTCGG
1 GTCGGGTCGGGTCACGGTC-A-GGTCGG
819868 GTCGGGTCGGGTCAACGGTCAGGTCGG
1 GTCGGGTCGGGTC-ACGGTCAGGTCGG
819895 GTCGGGTC
1 GTCGGGTC
819903 AACGGTCGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 27 0.84
28 1 0.03
29 4 0.12
ACGTcount: A:0.08, C:0.23, G:0.50, T:0.19
Consensus pattern (26 bp):
GTCGGGTCGGGTCACGGTCAGGTCGG
Found at i:819939 original size:9 final size:9
Alignment explanation
Indices: 819921--820038 Score: 110
Period size: 9 Copynumber: 12.3 Consensus size: 9
819911 GGTCGGGTCG
*
819921 GGTCAGACC
1 GGTCAAACC
819930 GGTCAAACC
1 GGTCAAACC
*
819939 GGTTCAGACC
1 GG-TCAAACC
819949 GGTCAAACC
1 GGTCAAACC
*
819958 GGTTCGAACC
1 GG-TCAAACC
*
819968 GGTTGAAACC
1 GG-TCAAACC
819978 GGTCAAACC
1 GGTCAAACC
*
819987 GGTTGAAACC
1 GG-TCAAACC
819997 GGTCAAACC
1 GGTCAAACC
820006 GGTCAGAACC
1 GGTCA-AACC
*
820016 GGTTGAAAACC
1 GG-T-CAAACC
*
820027 GGTTAAACC
1 GGTCAAACC
820036 GGT
1 GGT
820039 TTCCAGCAGC
Statistics
Matches: 92, Mismatches: 11, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
9 45 0.49
10 39 0.42
11 7 0.08
12 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:819945 original size:19 final size:19
Alignment explanation
Indices: 819927--820039 Score: 122
Period size: 19 Copynumber: 5.8 Consensus size: 19
819917 GTCGGGTCAG
*
819927 ACCGGTCAAACCGGTTCAG
1 ACCGGTCAAACCGGTTCAA
*
819946 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCAA
*
819965 ACCGGTTGAAACCGG-TCAA
1 ACCGG-TCAAACCGGTTCAA
*
819984 ACCGGTTGAAACCGG-TCAA
1 ACCGG-TCAAACCGGTTCAA
*
820003 ACCGGTCAGAACCGGTTGAAA
1 ACCGGTCA-AACCGGTT-CAA
*
820024 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
820040 TCCAGCAGCC
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
18 2 0.02
19 55 0.66
20 17 0.20
21 9 0.11
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:819978 original size:29 final size:28
Alignment explanation
Indices: 819946--820038 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
819936 ACCGGTTCAG
* **
819946 ACCGGTCAAACCGGTTCGAACCGGTTGAA
1 ACCGGTCAAACCGGTTCAAACCGG-TTCA
*
819975 ACCGGTCAAACCGGTTGAAACCGG-TCAA
1 ACCGGTCAAACCGGTTCAAACCGGTTC-A
* *
820003 ACCGGTCAGAACCGGTTGAAAACCGGTTAA
1 ACCGGTCA-AACCGGTT-CAAACCGGTTCA
820033 ACCGGT
1 ACCGGT
820039 TTCCAGCAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
28 9 0.17
29 30 0.56
30 14 0.26
31 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (28 bp):
ACCGGTCAAACCGGTTCAAACCGGTTCA
Found at i:819980 original size:48 final size:49
Alignment explanation
Indices: 819927--820039 Score: 176
Period size: 48 Copynumber: 2.3 Consensus size: 49
819917 GTCGGGTCAG
*
819927 ACCGGTCAAACCGGTTCAGACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAAACCGGTCAAACCGG-TCAGAACCGGTTGAAA
*
819975 ACCGGTCAAACCGGTTGAAACCGGTCAAACCGGTCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAAACCGGTCAAACCGGTCAGAACCGGTTGAAA
*
820024 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
820040 TCCAGCAGCC
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
47 2 0.03
48 41 0.68
49 17 0.28
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (49 bp):
ACCGGTCAAACCGGTTCAAACCGGTCAAACCGGTCAGAACCGGTTGAAA
Found at i:827214 original size:5 final size:5
Alignment explanation
Indices: 827204--827288 Score: 89
Period size: 5 Copynumber: 15.8 Consensus size: 5
827194 AACGGTCAAC
* *
827204 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
*
827253 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC
827289 AGACCGGTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
5 56 0.82
7 12 0.18
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:827217 original size:17 final size:15
Alignment explanation
Indices: 827203--827288 Score: 64
Period size: 17 Copynumber: 5.3 Consensus size: 15
827193 CAACGGTCAA
827203 CGGTCGGGTCGGGTC
1 CGGTCGGGTCGGGTC
* *
827218 GGGTCAACGGTCGGGTC
1 CGGTC--GGGTCGGGTC
* *
827235 GGGTCGGGTCAACGGTC
1 CGGTCGGGTC--GGGTC
*
827252 GGGTCGGGTCGGGTC
1 CGGTCGGGTCGGGTC
827267 AACGGTCGGGTCGGGTC
1 --CGGTCGGGTCGGGTC
*
827284 GGGTC
1 CGGTC
827289 AGACCGGTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
15 16 0.28
17 42 0.72
ACGTcount: A:0.07, C:0.23, G:0.51, T:0.19
Consensus pattern (15 bp):
CGGTCGGGTCGGGTC
Found at i:827222 original size:22 final size:22
Alignment explanation
Indices: 827197--827289 Score: 186
Period size: 22 Copynumber: 4.2 Consensus size: 22
827187 GAAAGTCAAC
827197 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
827219 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
827241 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
827263 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
827285 GGTCA
1 GGTCA
827290 GACCGGTCAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.10, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:827309 original size:19 final size:19
Alignment explanation
Indices: 827287--827384 Score: 101
Period size: 19 Copynumber: 5.1 Consensus size: 19
827277 TCGGGTCGGG
827287 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
827306 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
827325 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
827344 TCAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
* * *
827364 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
827384 T
1 T
827385 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 39 0.57
20 17 0.25
21 9 0.13
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:827315 original size:10 final size:9
Alignment explanation
Indices: 827285--827383 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
827275 GGTCGGGTCG
*
827285 GGTCAGACC
1 GGTCAAACC
827294 GGTCAAACC
1 GGTCAAACC
*
827303 GGTTCAGACC
1 GG-TCAAACC
827313 GGTCAAACC
1 GGTCAAACC
*
827322 GGTTCGAACC
1 GG-TCAAACC
*
827332 GGTTGAAACC
1 GG-TCAAACC
827342 GGTCAAACC
1 GGTCAAACC
827351 GGTCAGAACC
1 GGTCA-AACC
*
827361 GGTTGAAAACC
1 GG-T-CAAACC
*
827372 GGTTAAACC
1 GGTCAAACC
827381 GGT
1 GGT
827384 TTCCAGCAGC
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
9 37 0.49
10 31 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:827342 original size:29 final size:28
Alignment explanation
Indices: 827286--827383 Score: 124
Period size: 29 Copynumber: 3.4 Consensus size: 28
827276 GTCGGGTCGG
* * *
827286 GTCAGACCGGTCAAACCGGTTCAGACCG
1 GTCAAACCGGTCAAACCGGTTGAAACCG
*
827314 GTCAAACCGGTTCGAACCGGTTGAAACCG
1 GTCAAACCGG-TCAAACCGGTTGAAACCG
827343 GTCAAACCGGTCAGAACCGGTTGAAAACCG
1 GTCAAACCGGTCA-AACCGGTTG-AAACCG
*
827373 GTTAAACCGGT
1 GTCAAACCGGT
827384 TTCCAGCAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 11 0.18
29 34 0.56
30 16 0.26
ACGTcount: A:0.29, C:0.28, G:0.28, T:0.16
Consensus pattern (28 bp):
GTCAAACCGGTCAAACCGGTTGAAACCG
Found at i:837038 original size:20 final size:20
Alignment explanation
Indices: 837015--837061 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
837005 GTTTCCAAAT
837015 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
837035 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
837055 TCGCAAC
1 TCGCAAC
837062 ACAGAAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:837078 original size:20 final size:20
Alignment explanation
Indices: 837055--837183 Score: 111
Period size: 20 Copynumber: 6.3 Consensus size: 20
837045 AATCTGTAAA
*
837055 TCGCAACACAGAAGTCAAAT
1 TCGCAACACTGAAGTCAAAT
*
837075 TCGCAAC-GTGATAGTCAAAT
1 TCGCAACACTGA-AGTCAAAT
*
837095 TCGCAACACAT-AAATCAAAT
1 TCGCAACAC-TGAAGTCAAAT
*
837115 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACTGA-AGTCAAAT
* * *
837135 TCGCAAAACTGAATTTGAAAT
1 TCGCAACACTGAA-GTCAAAT
*
837156 TCGCAACACTGAATTTCAAAT
1 TCGCAACACTGAA-GTCAAAT
*
837177 TTGCAAC
1 TCGCAAC
837184 TCGATTTTCG
Statistics
Matches: 89, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
19 3 0.03
20 52 0.58
21 33 0.37
22 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.23
Consensus pattern (20 bp):
TCGCAACACTGAAGTCAAAT
Found at i:837079 original size:40 final size:41
Alignment explanation
Indices: 837035--837140 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 41
837025 AATCTGTAAA
* *
837035 TCGCAACGCGAATCTGT-AAA-TCGCAACACAGAAGTCAAAT
1 TCGCAACGCGAAT-AGTCAAATTCGCAACACAGAAATCAAAT
* *
837075 TCGCAACGTG-ATAGTCAAATTCGCAACACATAAATCAAAT
1 TCGCAACGCGAATAGTCAAATTCGCAACACAGAAATCAAAT
837115 TCGCAACGCG-ATAGTCAAATTCGCAA
1 TCGCAACGCGAATAGTCAAATTCGCAA
837141 AACTGAATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 5 0.08
40 52 0.88
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.20
Consensus pattern (41 bp):
TCGCAACGCGAATAGTCAAATTCGCAACACAGAAATCAAAT
Found at i:837157 original size:21 final size:21
Alignment explanation
Indices: 837129--837221 Score: 86
Period size: 21 Copynumber: 4.6 Consensus size: 21
837119 AACGCGATAG
837129 TCAAATTCGCAAAACTGAATT
1 TCAAATTCGCAAAACTGAATT
* *
837150 TGAAATTCGCAACACTGAATT
1 TCAAATTCGCAAAACTGAATT
* *
837171 TCAAATTTGC--AACTCGATTT
1 TCAAATTCGCAAAACT-GAATT
* *
837191 TCGAATTCGCAACAC-GAATT
1 TCAAATTCGCAAAACTGAATT
*
837211 T-AATTTCGCAA
1 TCAAATTCGCAA
837222 CAGGTTTTAG
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
19 11 0.19
20 17 0.30
21 27 0.47
22 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (21 bp):
TCAAATTCGCAAAACTGAATT
Found at i:837414 original size:16 final size:15
Alignment explanation
Indices: 837379--837417 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
837369 TCCCCATCTC
*
837379 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
837394 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
837410 TAATTTTT
1 TAATTTTT
837418 CAACGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:838033 original size:12 final size:12
Alignment explanation
Indices: 838012--838045 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
838002 ACCACATTTC
*
838012 CAATACCAAACA
1 CAATATCAAACA
838024 CAATATCAAACA
1 CAATATCAAACA
*
838036 CAATCTCAAA
1 CAATATCAAA
838046 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:838202 original size:24 final size:23
Alignment explanation
Indices: 838170--838221 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
838160 AATATTCAAA
* *
838170 ATTTGATCTTTGTCAATACCCGG
1 ATTTTATCTTGGTCAATACCCGG
*
838193 ACTTTTATCTTGGTCAATACTCGG
1 A-TTTTATCTTGGTCAATACCCGG
838217 ATTTT
1 ATTTT
838222 GATGATGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.44
Consensus pattern (23 bp):
ATTTTATCTTGGTCAATACCCGG
Found at i:839839 original size:30 final size:30
Alignment explanation
Indices: 839805--839866 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
839795 TTATATGAGT
*
839805 TATGTGATAAAGGTATGG-AAATGATATGTC
1 TATGTGATAAAGGTA-GGAAAATAATATGTC
839835 TATGTGATAAAGGTAGGAAAATAATATGTC
1 TATGTGATAAAGGTAGGAAAATAATATGTC
839865 TA
1 TA
839867 CATGATACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.32
Consensus pattern (30 bp):
TATGTGATAAAGGTAGGAAAATAATATGTC
Found at i:839873 original size:30 final size:30
Alignment explanation
Indices: 839809--839873 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
839799 ATGAGTTATG
* **
839809 TGATAAAGGTATGGAAATGATATGTCTATG
1 TGATAAAGGTATGGAAATAATATGTCTACA
839839 TGATAAAGGTA-GGAAAATAATATGTCTACA
1 TGATAAAGGTATGG-AAATAATATGTCTACA
839869 TGATA
1 TGATA
839874 CAAATTATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TGATAAAGGTATGGAAATAATATGTCTACA
Found at i:840117 original size:23 final size:23
Alignment explanation
Indices: 840084--840146 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
840074 ATTATTATAT
840084 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
840107 GGCACTCCGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
840130 GGTACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
840147 ATACAAGCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:844973 original size:30 final size:30
Alignment explanation
Indices: 844925--845007 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
844915 TATGCAGGAA
* *
844925 AAAATTATATGATTTATGTGATAAAGGTATGG
1 AAAATAATATG-TCTATGTGATAAAGGTA-GG
*
844957 -AAATGATATGTCTATGTGATAAAGGTAGG
1 AAAATAATATGTCTATGTGATAAAGGTAGG
* *
844986 AAAATAATATGTCAACGTGATA
1 AAAATAATATGTCTATGTGATA
845008 CAAATTATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 2 0.04
30 34 0.76
31 9 0.20
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.33
Consensus pattern (30 bp):
AAAATAATATGTCTATGTGATAAAGGTAGG
Found at i:845247 original size:23 final size:23
Alignment explanation
Indices: 845217--845285 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
845207 CATTATTATA
845217 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
845240 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* * *
845263 TGGCACTTCGGTGTAATTATACG
1 TGGCACTACGGTGCAATTCTACG
845286 AGCTGTGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:848091 original size:20 final size:20
Alignment explanation
Indices: 848017--848090 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
848007 ATCGCAACGT
*
848017 GAATTTGACTTTCACATTGC
1 GAATTTGACTTTCGCATTGC
*
848037 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCATTGC
*
848057 GAATTTGACTTTCGTATTGC
1 GAATTTGACTTTCGCATTGC
848077 GAATTTGACTTTCG
1 GAATTTGACTTTCG
848091 TGCTGTGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (20 bp):
GAATTTGACTTTCGCATTGC
Found at i:848100 original size:20 final size:20
Alignment explanation
Indices: 848017--848106 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
848007 ATCGCAACGT
***
848017 GAATTTGACTTTCACATTGC
1 GAATTTGACTTTCGTGTTGC
*
848037 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGTGTTGC
*
848057 GAATTTGACTTTCGTATTGC
1 GAATTTGACTTTCGTGTTGC
* *
848077 GAATTTGACTTTCGTGCTGT
1 GAATTTGACTTTCGTGTTGC
*
848097 GAATTAGACT
1 GAATTTGACT
848107 ATCACAACGA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (20 bp):
GAATTTGACTTTCGTGTTGC
Found at i:848101 original size:40 final size:40
Alignment explanation
Indices: 848015--848112 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 40
848005 AAATCGCAAC
*
848015 GTGAATTTGACTTTCACATTGCGAATTTGACTTTCGCGTT
1 GTGAATTTGACTTTCACATTGCGAATTTGACTTTCGCGCT
* ** *
848055 GCGAATTTGACTTTCGTATTGCGAATTTGACTTTCGTGCT
1 GTGAATTTGACTTTCACATTGCGAATTTGACTTTCGCGCT
* *
848095 GTGAATTAGACTATCACA
1 GTGAATTTGACTTTCACA
848113 ACGATAAAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.40
Consensus pattern (40 bp):
GTGAATTTGACTTTCACATTGCGAATTTGACTTTCGCGCT
Found at i:848155 original size:20 final size:20
Alignment explanation
Indices: 848130--848177 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
848120 AATCGCAACA
848130 CGAATTTGACTTTCACATTG
1 CGAATTTGACTTTCACATTG
* *
848150 CGAATTTGACTTTCGCGTTG
1 CGAATTTGACTTTCACATTG
848170 CGAATTTG
1 CGAATTTG
848178 TACCTTCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
CGAATTTGACTTTCACATTG
Found at i:848315 original size:66 final size:65
Alignment explanation
Indices: 848231--848406 Score: 239
Period size: 66 Copynumber: 2.6 Consensus size: 65
848221 AATTTAAAAC
848231 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATC-AATT
848296 A
65 A
* * **
848297 AGCAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTCCTTATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAATTA
848361 AACAAATCAACTTTCAATGTA-AAATTCAATTAAACAAGCAAAAAAA
1 AACAAATCAAC-TT---T-TACAAA-TCAATTAAACAAGCAAAAAAA
848407 GTGTACCCCA
Statistics
Matches: 98, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
64 15 0.15
65 24 0.24
66 33 0.34
68 4 0.04
69 16 0.16
70 6 0.06
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.28
Consensus pattern (65 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAATTA
Found at i:849790 original size:21 final size:21
Alignment explanation
Indices: 849742--849860 Score: 100
Period size: 21 Copynumber: 5.7 Consensus size: 21
849732 GTGAATCGGG
* * *
849742 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGATGAGAGGGGC
*
849763 C-CATTGAACGATGACAGGGGC
1 CTC-TTGAACGATGAGAGGGGC
* *
849784 CTCTTGAACGGT-AGGAGAGGC
1 CTCTTGAACGATGA-GAGGGGC
*
849805 CTCTTGAACGATGAGAGGAGC
1 CTCTTGAACGATGAGAGGGGC
* * *
849826 CTCTTGAACGAT-AGGATGCGT
1 CTCTTGAACGATGA-GAGGGGC
849847 CTCTTGAACGATGA
1 CTCTTGAACGATGA
849861 CAGATGAATT
Statistics
Matches: 79, Mismatches: 13, Indels: 11
0.77 0.13 0.11
Matches are distributed among these distances:
20 3 0.04
21 73 0.92
22 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:849812 original size:42 final size:41
Alignment explanation
Indices: 849742--849863 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 41
849732 GTGAATCGGG
* *
849742 CTCTTGAACGGTGGGAGGGACC-CATTGAACGATGACAGGGGC
1 CTCTTGAACGGTAGGAGGG-CCTC-TTGAACGATGACAGGAGC
*
849784 CTCTTGAACGGTAGGAGAGGCCTCTTGAACGATGAGAGGAGC
1 CTCTTGAACGGTAGGAG-GGCCTCTTGAACGATGACAGGAGC
* * *
849826 CTCTTGAACGATAGGATGCGTCTCTTGAACGATGACAG
1 CTCTTGAACGGTAGGA-GGGCCTCTTGAACGATGACAG
849864 ATGAATTGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
42 66 0.94
43 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.20
Consensus pattern (41 bp):
CTCTTGAACGGTAGGAGGGCCTCTTGAACGATGACAGGAGC
Found at i:850196 original size:21 final size:21
Alignment explanation
Indices: 850142--850196 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
850132 TAAAACAATC
* *
850142 TCACGTAGAGCAGCTACCTCA
1 TCACGTAGAGTAGATACCTCA
*
850163 TCACGTAAAGTAGATACCTCA
1 TCACGTAGAGTAGATACCTCA
*
850184 TCACGTAGCGTAG
1 TCACGTAGAGTAG
850197 CGTACCATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (21 bp):
TCACGTAGAGTAGATACCTCA
Found at i:850301 original size:21 final size:21
Alignment explanation
Indices: 850273--850322 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
850263 ACCATTGTCT
*
850273 TCACGTAAAGTACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
*
850294 TGACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCGACCTCA
850315 TCACGTAA
1 TCACGTAA
850323 CTCCCCTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:852057 original size:19 final size:19
Alignment explanation
Indices: 852006--852059 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
851996 AGTAGTTTTT
*
852006 GAAACTTAAATTCGCAACGC
1 GAAAC-TAAAATCGCAACGC
*
852026 GAAAATGAAAATCGCAACGC
1 GAAACT-AAAATCGCAACGC
852046 GAAACTAAAATCGC
1 GAAACTAAAATCGC
852060 GTTGCGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (19 bp):
GAAACTAAAATCGCAACGC
Found at i:852432 original size:22 final size:22
Alignment explanation
Indices: 852398--852469 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
852388 GATGGAGATA
852398 GATGGA-TTCGTCGGAGATGGG
1 GATGGATTTCGTCGGAGATGGG
852419 GATGGATTTCGTCGGAGATGGG
1 GATGGATTTCGTCGGAGATGGG
*
852441 GATGGATTTCGTTGGAGATGGG
1 GATGGATTTCGTCGGAGATGGG
*
852463 GACGGAT
1 GATGGAT
852470 GTCGCCGTAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 6 0.12
22 42 0.88
ACGTcount: A:0.19, C:0.08, G:0.46, T:0.26
Consensus pattern (22 bp):
GATGGATTTCGTCGGAGATGGG
Found at i:852722 original size:60 final size:59
Alignment explanation
Indices: 852643--852839 Score: 222
Period size: 60 Copynumber: 3.3 Consensus size: 59
852633 GAATTTGACT
* ** *
852643 TTCGCGTTGCGAATTTGACTACTGCATTGCGAATTTGACTTCTGTGTTGCGATTTACAGA
1 TTCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTC-GCGTTGCGATTTACAGA
* **
852703 TTCGCGTTGCGAATTTGACTTCAGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTA
1 TTCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACT-TCGCGTTGCG-ATTT-ACAGA
*
852765 -T-GTGTTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACAAATTCGCGTTGCGATTTACAGA
1 TTCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGAC---TTCGCGTTGCGATTTACAGA
*
852823 TTTGCGTTGCGAATTTG
1 TTCGCGTTGCGAATTTG
852840 GAAACTGGTT
Statistics
Matches: 117, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
58 5 0.04
59 9 0.08
60 92 0.79
61 8 0.07
62 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (59 bp):
TTCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTCGCGTTGCGATTTACAGA
Found at i:852788 original size:20 final size:20
Alignment explanation
Indices: 852629--852794 Score: 180
Period size: 20 Copynumber: 8.3 Consensus size: 20
852619 TAAAGGCGCT
852629 TTGCGAATTTGACTT-TCGCG
1 TTGCGAATTTGACTTCT-GCG
* *
852649 TTGCGAATTTGACTACTGCA
1 TTGCGAATTTGACTTCTGCG
*
852669 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGCG
852689 TTGCG-ATTT-ACAGATTC-GCG
1 TTGCGAATTTGAC---TTCTGCG
* *
852709 TTGCGAATTTGACTTCAGTG
1 TTGCGAATTTGACTTCTGCG
852729 TTGCGAATTTGACTATC-GCG
1 TTGCGAATTTGACT-TCTGCG
* *
852749 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTCTGCG
*
852769 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGCG
852789 TTGCGA
1 TTGCGA
852795 TTTACAAATT
Statistics
Matches: 126, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
18 2 0.02
19 8 0.06
20 104 0.83
21 10 0.08
22 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.40
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGCG
Found at i:852811 original size:20 final size:20
Alignment explanation
Indices: 852788--852834 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
852778 TGACTTCTGT
852788 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
* *
852808 GTTGCGATTTACAGATTTGC
1 GTTGCGATTTACAAATTCGC
852828 GTTGCGA
1 GTTGCGA
852835 ATTTGGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:867814 original size:3 final size:3
Alignment explanation
Indices: 867808--867894 Score: 174
Period size: 3 Copynumber: 29.0 Consensus size: 3
867798 ATTTCATCTA
867808 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
867856 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
867895 GGGGTTGTAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:869003 original size:23 final size:25
Alignment explanation
Indices: 868953--869004 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
868943 AAATATTTAT
* **
868953 TTTATAAATATATATTAATTCATGA
1 TTTATAAATATATATTAATTAAACA
868978 TTTATAAATAT-TA-TAATTAAACA
1 TTTATAAATATATATTAATTAAACA
869001 TTTA
1 TTTA
869005 GGTGTGATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.46
24 2 0.08
25 11 0.46
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTATAAATATATATTAATTAAACA
Found at i:872140 original size:58 final size:60
Alignment explanation
Indices: 872029--872140 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 60
872019 AACATAATAA
* * * *
872029 ATAGTCGGGTGACATTTTTATAATTTTTAATAGTCAAGAGACTCAACAAAACAACTCTAT
1 ATAGTCGGGAGACAATTTCATAACTTTTAATAGTCAAGAGACTCAACAAAACAACTCTAT
* *
872089 ATAGTC-GGAGACAATTTCATAACTTTTAATAGTC-TGAGACTTAACAAAACAA
1 ATAGTCGGGAGACAATTTCATAACTTTTAATAGTCAAGAGACTCAACAAAACAA
872141 TGCCCTATAG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 16 0.35
59 24 0.52
60 6 0.13
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (60 bp):
ATAGTCGGGAGACAATTTCATAACTTTTAATAGTCAAGAGACTCAACAAAACAACTCTAT
Found at i:884501 original size:13 final size:13
Alignment explanation
Indices: 884483--884508 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
884473 AATTTTTTTT
884483 AAATATTATCTTA
1 AAATATTATCTTA
884496 AAATATTATCTTA
1 AAATATTATCTTA
884509 GGCCTATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATATTATCTTA
Found at i:886872 original size:130 final size:130
Alignment explanation
Indices: 886651--886899 Score: 498
Period size: 130 Copynumber: 1.9 Consensus size: 130
886641 GTTTAGCGCT
886651 ATGACCCAAGGCATTTATGAACTCTTGCGGTTAAAGATTATCTTGGATGATCTTAAGGTTAAATG
1 ATGACCCAAGGCATTTATGAACTCTTGCGGTTAAAGATTATCTTGGATGATCTTAAGGTTAAATG
886716 GATTGGGCCAATGAAGTTGTATTGTGACAACAAGTTGACTATTAATATCACCCAAGTTTAAAGCG
66 GATTGGGCCAATGAAGTTGTATTGTGACAACAAGTTGACTATTAATATCACCCAAGTTTAAAGCG
886781 ATGACCCAAGGCATTTATGAACTCTTGCGGTTAAAGATTATCTTGGATGATCTTAAGGTTAAATG
1 ATGACCCAAGGCATTTATGAACTCTTGCGGTTAAAGATTATCTTGGATGATCTTAAGGTTAAATG
886846 GATTGGGCCAATGAAGTTGTATTGTGACAACAAGTTGACTATTAATATCACCCA
66 GATTGGGCCAATGAAGTTGTATTGTGACAACAAGTTGACTATTAATATCACCCA
886900 CATTCCAATT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 119 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (130 bp):
ATGACCCAAGGCATTTATGAACTCTTGCGGTTAAAGATTATCTTGGATGATCTTAAGGTTAAATG
GATTGGGCCAATGAAGTTGTATTGTGACAACAAGTTGACTATTAATATCACCCAAGTTTAAAGCG
Found at i:889656 original size:27 final size:27
Alignment explanation
Indices: 889618--889671 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
889608 TCTAAAAAAA
889618 TGAAAAGAGGGTAAATCATAATCAAAG
1 TGAAAAGAGGGTAAATCATAATCAAAG
889645 TGAAAAGAGGGTAAATCATAATCAAAG
1 TGAAAAGAGGGTAAATCATAATCAAAG
889672 AAGACAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.07, G:0.22, T:0.19
Consensus pattern (27 bp):
TGAAAAGAGGGTAAATCATAATCAAAG
Found at i:891234 original size:33 final size:33
Alignment explanation
Indices: 891197--891321 Score: 205
Period size: 33 Copynumber: 3.8 Consensus size: 33
891187 GAGCTCCACC
*
891197 TCCAGGAGGTGGCGGTGGAGGTGGCGCTCTGCT
1 TCCAGGAGGTGGCGGAGGAGGTGGCGCTCTGCT
* *
891230 TCCAGGAGGTGGCGGTGGAGGTGGCGCTGTGCT
1 TCCAGGAGGTGGCGGAGGAGGTGGCGCTCTGCT
*
891263 TCCAGGAGGTGGCGGAGGAGGTGGCGCTCCGCT
1 TCCAGGAGGTGGCGGAGGAGGTGGCGCTCTGCT
*
891296 CCCAGGAGGTGGCGGAGGAGGTGGCG
1 TCCAGGAGGTGGCGGAGGAGGTGGCG
891322 GTGGAGATGT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.11, C:0.21, G:0.51, T:0.17
Consensus pattern (33 bp):
TCCAGGAGGTGGCGGAGGAGGTGGCGCTCTGCT
Found at i:897468 original size:29 final size:29
Alignment explanation
Indices: 897404--897503 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 29
897394 AAAATACTTT
897404 AAAGTTTAGAGAATAAATTAGAATGAGATC
1 AAAGTTTA-AGAATAAATTAGAATGAGATC
* * **
897434 ATAGTTTAAGAATTAATATAGAATG-TTTC
1 AAAGTTTAAGAATAAAT-TAGAATGAGATC
* * *
897463 AAAGTTTAAGGACTAATTTATAATGAAGATC
1 AAAGTTTAA-GAATAAATTAGAATG-AGATC
897494 ATAA-TTTAAG
1 A-AAGTTTAAG
897504 GACATCTTAT
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
29 24 0.44
30 20 0.37
31 8 0.15
32 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.16, T:0.34
Consensus pattern (29 bp):
AAAGTTTAAGAATAAATTAGAATGAGATC
Found at i:911601 original size:14 final size:14
Alignment explanation
Indices: 911582--911609 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
911572 CGCATTGCGA
911582 TTTTCCAAATTCGC
1 TTTTCCAAATTCGC
911596 TTTTCCAAATTCGC
1 TTTTCCAAATTCGC
911610 AACGCGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (14 bp):
TTTTCCAAATTCGC
Found at i:911649 original size:20 final size:21
Alignment explanation
Indices: 911601--911685 Score: 74
Period size: 20 Copynumber: 4.2 Consensus size: 21
911591 TTCGCTTTTC
*
911601 CAAATTCGCAACGC-GAATTTGT
1 CAAATTCGCAACGCAG-A-TAGT
*
911623 -AAA-TCGCAACGCATA-AGT
1 CAAATTCGCAACGCAGATAGT
911641 CAAATTCGCAACG-AGATAGT
1 CAAATTCGCAACGCAGATAGT
*
911661 CAAATTCACAACGC-GATAGT
1 CAAATTCGCAACGCAGATAGT
*
911681 TAAAT
1 CAAAT
911686 GTTTTTATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
19 5 0.09
20 43 0.81
21 3 0.06
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.22
Consensus pattern (21 bp):
CAAATTCGCAACGCAGATAGT
Found at i:912214 original size:20 final size:20
Alignment explanation
Indices: 912170--912214 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
912160 ACGCGAAAAT
*
912170 GTTTCGCGTTGCGAATTTCA
1 GTTTCGCGTTGCGAATTTAA
* *
912190 TTTTCGCGTTGTGAATTTAA
1 GTTTCGCGTTGCGAATTTAA
912210 GTTTC
1 GTTTC
912215 AGAAACTTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.47
Consensus pattern (20 bp):
GTTTCGCGTTGCGAATTTAA
Found at i:913909 original size:21 final size:21
Alignment explanation
Indices: 913883--913932 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
913873 GTTAGGGGAA
*
913883 TTACGTGATGAGGTCGGTGCT
1 TTACGTGATGAGGTCGGTACT
* *
913904 TTACGTCATGAGGTTGGTACT
1 TTACGTGATGAGGTCGGTACT
*
913925 TTATGTGA
1 TTACGTGA
913933 AGATAATGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.32, T:0.38
Consensus pattern (21 bp):
TTACGTGATGAGGTCGGTACT
Found at i:914387 original size:42 final size:43
Alignment explanation
Indices: 914340--914437 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
914330 GATGCACCTA
* * ** *
914340 TCATCATTCAAGAGA-CGCCTCCTATTGTTCAAGAGGCTCCTC
1 TCATCATTCAAGAGAGCCCCTCCCACCGTTCAAGAGGCCCCTC
*
914382 TCATCA-TCGAAGA-AGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCATTC-AAGAGAGCCCCTCCCACCGTTCAAGAGGCCCCTC
*
914424 TCATCGTTCAAGAG
1 TCATCATTCAAGAG
914438 GTCTCGACCG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
41 3 0.07
42 40 0.89
43 2 0.04
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.23
Consensus pattern (43 bp):
TCATCATTCAAGAGAGCCCCTCCCACCGTTCAAGAGGCCCCTC
Found at i:914437 original size:21 final size:21
Alignment explanation
Indices: 914340--914438 Score: 76
Period size: 21 Copynumber: 4.7 Consensus size: 21
914330 GATGCACCTA
* * *
914340 TCATCATTCAAGAGACGCCTC
1 TCATCGTTCAAGAGGCCCCTC
* *
914361 -CTATTGTTCAAGAGGCTCCTC
1 TC-ATCGTTCAAGAGGCCCCTC
* *
914382 TCATC-ATCGAAGAAGCCCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* * *
914403 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
914424 TCATCGTTCAAGAGG
1 TCATCGTTCAAGAGG
914439 TCTCGACCGT
Statistics
Matches: 59, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
20 3 0.05
21 53 0.90
22 3 0.05
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:915882 original size:14 final size:14
Alignment explanation
Indices: 915863--915898 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
915853 TTTTGATTAA
915863 TTTATTTGCAAAAG
1 TTTATTTGCAAAAG
*
915877 TTTATTTGTAAAAG
1 TTTATTTGCAAAAG
*
915891 TTGATTTG
1 TTTATTTG
915899 TTTAATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.50
Consensus pattern (14 bp):
TTTATTTGCAAAAG
Found at i:915965 original size:80 final size:74
Alignment explanation
Indices: 915813--915965 Score: 189
Period size: 80 Copynumber: 2.0 Consensus size: 74
915803 TTTTACATTG
*
915813 AAAGTTGATTTGTTTAATTGATGAGAAAATAAGATTTATTTTTTGATTAATTTATTTGCAAAAGT
1 AAAGTTGATTTGTTTAATTGATGAGAAAATAAGATTTATTTTTTGATTAATTGATTTGCAAAAGT
*
915878 TTATTTGTA
66 TGATTTGTA
* * * * *
915887 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGAAAATAAG-A-T-TTATTTT--TTGATTAATTGATTTGC
915952 AAAAGTTGATTTGT
60 AAAAGTTGATTTGT
915966 TGTTTCTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
74 17 0.26
75 14 0.21
76 1 0.02
77 1 0.02
78 6 0.09
80 27 0.41
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.50
Consensus pattern (74 bp):
AAAGTTGATTTGTTTAATTGATGAGAAAATAAGATTTATTTTTTGATTAATTGATTTGCAAAAGT
TGATTTGTA
Found at i:916189 original size:15 final size:15
Alignment explanation
Indices: 916171--916201 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
916161 GCGGGTTTTG
*
916171 ACGGTGCGGGCTTAA
1 ACGGAGCGGGCTTAA
916186 ACGGAGCGGGCTTAA
1 ACGGAGCGGGCTTAA
916201 A
1 A
916202 AGCCCGCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.39, T:0.16
Consensus pattern (15 bp):
ACGGAGCGGGCTTAA
Found at i:917633 original size:39 final size:39
Alignment explanation
Indices: 917579--917665 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
917569 TCAAGTTGTA
917579 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
917618 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
917657 GATTTTGAT
1 GATTTTGAT
917666 AAGCATCGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:918448 original size:20 final size:20
Alignment explanation
Indices: 918399--918449 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
918389 CAAATAATGT
* *
918399 ACAACATGAAAGTTAAATTC
1 ACAACACGAAAGTCAAATTC
918419 ACAA-AGCGAAAGTCAAATTC
1 ACAACA-CGAAAGTCAAATTC
*
918439 GCAACACGAAA
1 ACAACACGAAA
918450 TAAGCGTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.51, C:0.20, G:0.14, T:0.16
Consensus pattern (20 bp):
ACAACACGAAAGTCAAATTC
Found at i:918821 original size:18 final size:18
Alignment explanation
Indices: 918798--918833 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
918788 AAGCCGGTTG
918798 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
918816 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
918834 CCTTTTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:921133 original size:24 final size:24
Alignment explanation
Indices: 921099--921152 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
921089 CCATCACATC
*
921099 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAA
* *
921123 ATCAAAGTCCGGGTATTGACCAAA
1 ATCAAAATCCGAGTATTGACCAAA
921147 ATCAAA
1 ATCAAA
921153 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAA
Found at i:921299 original size:12 final size:12
Alignment explanation
Indices: 921278--921311 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
921268 GGTTGTGGGT
*
921278 TTTGAGATTGTG
1 TTTGATATTGTG
921290 TTTGATATTGTG
1 TTTGATATTGTG
*
921302 TTTGGTATTG
1 TTTGATATTG
921312 GAAATGTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:922083 original size:21 final size:21
Alignment explanation
Indices: 922057--922132 Score: 152
Period size: 21 Copynumber: 3.6 Consensus size: 21
922047 ACTAAAACCT
922057 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATTCCGC
922078 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATTCCGC
922099 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATTCCGC
922120 GTTGCGAATTTGA
1 GTTGCGAATTTGA
922133 CTTTGTGTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (21 bp):
GTTGCGAATTTGAAATTCCGC
Found at i:922171 original size:39 final size:41
Alignment explanation
Indices: 922056--922181 Score: 168
Period size: 42 Copynumber: 3.1 Consensus size: 41
922046 AACTAAAACC
*
922056 TGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGAAATTCCG
1 TGTTGCGAATTTGAAATTCCGCGTTGCGAATTTG-AATTCTG
* *
922098 CGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACTT-TG
1 TGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGAATTCTG
* *
922138 TGTTGCGAATTTG-AGTAT-CGCGTTTCGAATTTGAATTCTG
1 TGTTGCGAATTTGAAAT-TCCGCGTTGCGAATTTGAATTCTG
922178 TGTT
1 TGTT
922182 ACGATTTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
39 19 0.25
40 20 0.27
41 3 0.04
42 33 0.44
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.40
Consensus pattern (41 bp):
TGTTGCGAATTTGAAATTCCGCGTTGCGAATTTGAATTCTG
Found at i:922208 original size:20 final size:20
Alignment explanation
Indices: 922183--922245 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
922173 TTCTGTGTTA
* *
922183 CGATTTACAAATTCGAGTTG
1 CGATTTACATATTCGCGTTG
922203 CGATTTACATATTCGCGTTG
1 CGATTTACATATTCGCGTTG
*
922223 CGATTTACATATTTGCGTTG
1 CGATTTACATATTCGCGTTG
922243 CGA
1 CGA
922246 AATTAGAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (20 bp):
CGATTTACATATTCGCGTTG
Found at i:922290 original size:20 final size:20
Alignment explanation
Indices: 922240--922292 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
922230 CATATTTGCG
* *
922240 TTGCGAAATTAGAAACTGGG
1 TTGCGAAATTGGAAACTGGA
922260 TTGCGAAATTGGAAACTGGA
1 TTGCGAAATTGGAAACTGGA
922280 TTGCGAAATTGGA
1 TTGCGAAATTGGA
922293 GTTCGTGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.26
Consensus pattern (20 bp):
TTGCGAAATTGGAAACTGGA
Found at i:928695 original size:42 final size:42
Alignment explanation
Indices: 928643--928747 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
928633 CCTATATTTA
* * *
928643 TTTCATGTAATTTATTTTTCGGAAAATATTTTCCCGTGTTTG
1 TTTCACGTAATTTATTTTCCGAAAAATATTTTCCCGTGTTTG
* * *
928685 TTTCACGTAATTTGTTTTCCGAAAAATGTTTTCCTGTGTTTG
1 TTTCACGTAATTTATTTTCCGAAAAATATTTTCCCGTGTTTG
**
928727 TTTCACGTAATTCGTTTTCCG
1 TTTCACGTAATTTATTTTCCG
928748 GAACGTAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (42 bp):
TTTCACGTAATTTATTTTCCGAAAAATATTTTCCCGTGTTTG
Found at i:928981 original size:29 final size:28
Alignment explanation
Indices: 928948--929113 Score: 98
Period size: 29 Copynumber: 6.0 Consensus size: 28
928938 AAATATTTAA
*
928948 AATATATTTATTAATATTTATAATAATAT
1 AATATATTTATTTATATTT-TAATAATAT
* * * *
928977 AATAT-TATATTTTTAGTTCAATAATAT
1 AATATATTTATTTATATTTTAATAATAT
* *
929004 AAT-CA---A-TTATATTATAATAATAT
1 AATATATTTATTTATATTTTAATAATAT
* *
929027 AAGATATTATATTTTTATTTTAATAATAT
1 AATATATT-TATTTATATTTTAATAATAT
*
929056 -ATAATAATTTTTTTATATATTTAATAATGAAT
1 AAT-AT-ATTTATTTATAT-TTTAATAAT--AT
*
929088 AATATTATTTA--TATATTTAAATAATA
1 AATA-TATTTATTTATATTTTAATAATA
929114 CTTTAGTAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
23 15 0.14
24 2 0.02
27 12 0.12
28 11 0.11
29 37 0.36
30 17 0.16
32 7 0.07
33 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (28 bp):
AATATATTTATTTATATTTTAATAATAT
Found at i:929283 original size:18 final size:20
Alignment explanation
Indices: 929256--929293 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
929246 TAATAAAATT
929256 ATAAAAAAA-TA-TTTAATA
1 ATAAAAAAATTATTTTAATA
*
929274 ATAAATAAATTATTTTAATA
1 ATAAAAAAATTATTTTAATA
929294 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAAAAAATTATTTTAATA
Found at i:929499 original size:20 final size:20
Alignment explanation
Indices: 929450--929488 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
929440 TGTTTTCTAG
*
929450 AAATGTAATTCATTTTCCAA
1 AAATATAATTCATTTTCCAA
929470 AAATATAATTCATTTTCCA
1 AAATATAATTCATTTTCCA
929489 GAATTCAAAT
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:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (20 bp):
AAATATAATTCATTTTCCAA
Found at i:929508 original size:29 final size:30
Alignment explanation
Indices: 929475--929555 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
929465 TCCAAAAATA
*
929475 TAATTCATTTTCCAG-AATTCAAATTTCAG
1 TAATTCATTTTCCAGTAATTCAAATTCCAG
*
929504 TAATTCATTTTCGAGTAATTCAAATTCCAG
1 TAATTCATTTTCCAGTAATTCAAATTCCAG
*
929534 TAATTCAAATTT-CAGTAATTCA
1 TAATTC-ATTTTCCAGTAATTCA
929556 TTTTTCAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 14 0.30
30 28 0.61
31 4 0.09
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (30 bp):
TAATTCATTTTCCAGTAATTCAAATTCCAG
Found at i:929547 original size:45 final size:44
Alignment explanation
Indices: 929475--929559 Score: 143
Period size: 45 Copynumber: 1.9 Consensus size: 44
929465 TCCAAAAATA
**
929475 TAATTCATTTTCCAGAATTCAAATTTCAGTAATTCATTTTCGAG
1 TAATTCAAATTCCAGAATTCAAATTTCAGTAATTCATTTTCGAG
929519 TAATTCAAATTCCAGTAATTCAAATTTCAGTAATTCATTTT
1 TAATTCAAATTCCAG-AATTCAAATTTCAGTAATTCATTTT
929560 TCAAAAAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 13 0.34
45 25 0.66
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (44 bp):
TAATTCAAATTCCAGAATTCAAATTTCAGTAATTCATTTTCGAG
Found at i:929562 original size:15 final size:15
Alignment explanation
Indices: 929490--929555 Score: 98
Period size: 15 Copynumber: 4.4 Consensus size: 15
929480 CATTTTCCAG
929490 AATTCAAATTTCAGT
1 AATTCAAATTTCAGT
*
929505 AATTC-ATTTTCGAGT
1 AATTCAAATTTC-AGT
*
929520 AATTCAAATTCCAGT
1 AATTCAAATTTCAGT
929535 AATTCAAATTTCAGT
1 AATTCAAATTTCAGT
929550 AATTCA
1 AATTCA
929556 TTTTTCAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
14 5 0.11
15 36 0.80
16 4 0.09
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (15 bp):
AATTCAAATTTCAGT
Found at i:937882 original size:58 final size:61
Alignment explanation
Indices: 937814--937947 Score: 154
Period size: 58 Copynumber: 2.3 Consensus size: 61
937804 ATGTCCCAAA
* *
937814 TTCATCCCTAAACTATGA-CTATCATTCT-AA-AAGTCCCCATA-CTTTTGAATATTTCAAT
1 TTCATCCCTAAACTATGACCT-TCATTCTGAATAAGTCCCCAAATCTTTTGAACATTTCAAT
** * *
937872 TTCATCCCTAAGA-TATGACCTTCATTCTGAATTGGTCCTCAAATTTTTTGAACATTTCAAT
1 TTCATCCCTAA-ACTATGACCTTCATTCTGAATAAGTCCCCAAATCTTTTGAACATTTCAAT
937933 TTCATCCC-AAACTAT
1 TTCATCCCTAAACTAT
937948 AAATATATGC
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
58 23 0.36
59 6 0.09
60 12 0.19
61 23 0.36
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.39
Consensus pattern (61 bp):
TTCATCCCTAAACTATGACCTTCATTCTGAATAAGTCCCCAAATCTTTTGAACATTTCAAT
Found at i:938027 original size:29 final size:29
Alignment explanation
Indices: 937988--938054 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
937978 AAATCGTTAG
* *
937988 ACCAAGTTATATTATTCAAAAGTTTAGAA
1 ACCAATTTATATTAGTCAAAAGTTTAGAA
938017 ACCAATTTATATTAGTCAAAAGTTTAGAA
1 ACCAATTTATATTAGTCAAAAGTTTAGAA
938046 ACCAATTTA
1 ACCAATTTA
938055 GAAAGAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (29 bp):
ACCAATTTATATTAGTCAAAAGTTTAGAA
Found at i:938087 original size:60 final size:59
Alignment explanation
Indices: 938023--938192 Score: 159
Period size: 60 Copynumber: 2.8 Consensus size: 59
938013 AGAAACCAAT
* *
938023 TTATATTAGTCAAAAGTTTAGAAACCAATTTAGAAAGAGGTTCATTGTTTAGGAATGAAA
1 TTATAATAGTCAAAAGTTTAGAAACCAATTTAGAAAGAGG-TCATAGTTTAGGAATGAAA
* * * * *
938083 TTATAAT-GTTCAAAAGTTTAAGGAA-TAATTTAGAATGATAGTCATAGTTTAGGGATGAAA
1 TTATAATAG-TCAAAAGTTT-AGAAACCAATTTAGAAAGA-GGTCATAGTTTAGGAATGAAA
* * *
938143 TTAAAATATTCAAAAGTTTA-AAGACCAATTTA-AAATGAGGGTTATAGTTT
1 TTATAATAGTCAAAAGTTTAGAA-ACCAATTTAGAAA-GA-GGTCATAGTTT
938193 GGGGACAAAG
Statistics
Matches: 88, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
58 1 0.01
59 5 0.06
60 77 0.88
61 5 0.06
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (59 bp):
TTATAATAGTCAAAAGTTTAGAAACCAATTTAGAAAGAGGTCATAGTTTAGGAATGAAA
Found at i:938162 original size:29 final size:29
Alignment explanation
Indices: 938069--938162 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
938059 GAGGTTCATT
* *
938069 GTTTAGGAATGAAATTATAATGTTCAAAA
1 GTTTAGGAATGAAATTAAAATATTCAAAA
* * *
938098 GTTTAAGGAAT-AATTTAGAATGATAGTC-ATA
1 GTTT-AGGAATGAAATTA-AA--ATATTCAAAA
*
938129 GTTTAGGGATGAAATTAAAATATTCAAAA
1 GTTTAGGAATGAAATTAAAATATTCAAAA
938158 GTTTA
1 GTTTA
938163 AAGACCAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
28 5 0.10
29 16 0.32
30 14 0.28
31 11 0.22
32 4 0.08
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (29 bp):
GTTTAGGAATGAAATTAAAATATTCAAAA
Found at i:941085 original size:37 final size:36
Alignment explanation
Indices: 941013--941085 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
941003 TTATATTTTA
*
941013 AATTTTGTAAAAAAATTATATAAATATTATGAATTT
1 AATTTTGTAAAAAAATTATATAAATATTATCAATTT
* *
941049 AATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 AATTTTGTAAA-AAAATTATATAAATATTAT-CAATTT
941086 GTAATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 23 0.72
37 9 0.28
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (36 bp):
AATTTTGTAAAAAAATTATATAAATATTATCAATTT
Found at i:941995 original size:37 final size:38
Alignment explanation
Indices: 941906--941996 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 38
941896 CCCGAACCCG
* *
941906 ACCCAACCCTAC-CTGACCCGAATATCACACTTAAAAAA
1 ACCCAACCCAACTC-GACTCGAATATCACACTTAAAAAA
* * *
941944 ACCCGACCCGACTCGACTCGAATGTCACACTT-AAAAA
1 ACCCAACCCAACTCGACTCGAATATCACACTTAAAAAA
**
941981 AGTCAACCCAACTCGA
1 ACCCAACCCAACTCGA
941997 ACAAAATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
37 17 0.39
38 26 0.59
39 1 0.02
ACGTcount: A:0.38, C:0.36, G:0.10, T:0.15
Consensus pattern (38 bp):
ACCCAACCCAACTCGACTCGAATATCACACTTAAAAAA
Found at i:942221 original size:38 final size:37
Alignment explanation
Indices: 942162--942243 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 37
942152 AAACCCAAAC
* *
942162 CCGATCCGACCCGACCTGAATATCACACTTAAAAAAA
1 CCGACCCGACCCGACCCGAATATCACACTTAAAAAAA
* *
942199 CTCGACCCGACTCGACCCGAATATCACACTTAAAAAAT
1 C-CGACCCGACCCGACCCGAATATCACACTTAAAAAAA
942237 CCGACCC
1 CCGACCC
942244 TACCAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 7 0.17
38 33 0.82
ACGTcount: A:0.37, C:0.37, G:0.11, T:0.16
Consensus pattern (37 bp):
CCGACCCGACCCGACCCGAATATCACACTTAAAAAAA
Found at i:942303 original size:249 final size:258
Alignment explanation
Indices: 941851--942412 Score: 763
Period size: 249 Copynumber: 2.2 Consensus size: 258
941841 ATATAAGATA
* *
941851 AAATTATATATTTTTTTCGGGTCGGTCC--TATTTTTTCACCCTAAACCCGAACCCGACCCAACC
1 AAATTATATA-TATTTTCGGGTCGGTCCGGT-TTTTTTCACCCTAAACCCAAACCCGACCCAA-C
* *
941914 CTACCTGACCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACTCGAATGTCACACTTAAA
63 C-ACCTGACCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATATCACACTTAAA
* *
941979 AAAGTCAACCCAACTCGAACAAAATAAAGTTTCATCCGACCTGACCCGAATATATGAATTAGAAA
127 AAAGTCAACCC-ACTC-AACAAAATAAAATTTCATCCGACCCGACCCGAATATATGAATTAGAAA
* *
942044 TCCGACCCGACCCGAAATAAT-AAAAAA-A-TTATTTAATAAAAACAGTGACTTAATCCGACCCG
190 TCCAACCCGACCCGAAATAATAAAAAAATATTTATTTAATAAAAACAGTGACTTAATCCAACCCG
942106 ACCC
255 ACCC
* * *
942110 GAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCAAACCCGATCCGA-C-C
1 AAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCAAACCCGACCCAACCAC
* *
942173 C-GACCTGAATATCACACTTAAAAAAACTCGACCCGACTCGACCCGAATATCACACTTAAAAAA-
66 CTGACCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAAG
* * * *
942236 TCCGA-CC-CT-ACCAAAATAAAATTTCATCTGACCCGACCCTAATATATGAATTAGAAATCCAA
131 T-CAACCCACTCAACAAAATAAAATTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAA
942298 CCCGACCCGAAATAATAAAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCAACCCGA
195 CCCGACCCGAAATAAT--AAAAAAATA--TTTATTTAATAAAAACAGTGACTTAATCCAACCCGA
*
942363 CCT
256 CCC
*
942366 AAATTATATATATTTTTGGGTCGGTCCGG-TTTTTTCACCCTAAACCC
1 AAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCC
942413 GACCCGAATA
Statistics
Matches: 273, Mismatches: 20, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
249 63 0.23
251 2 0.01
252 6 0.02
253 4 0.01
254 60 0.22
255 20 0.07
256 63 0.23
257 1 0.00
258 16 0.06
259 37 0.14
260 1 0.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (258 bp):
AAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCAAACCCGACCCAACCAC
CTGACCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAAG
TCAACCCACTCAACAAAATAAAATTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCAAC
CCGACCCGAAATAATAAAAAAATATTTATTTAATAAAAACAGTGACTTAATCCAACCCGACCC
Found at i:952991 original size:19 final size:19
Alignment explanation
Indices: 952967--953008 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
952957 AGCAGCGAAA
* * *
952967 TGAGGTTTGGATCCGAAGG
1 TGAGGTTTGAAGCCGAAGC
952986 TGAGGTTTGAAGCCGAAGC
1 TGAGGTTTGAAGCCGAAGC
953005 TGAG
1 TGAG
953009 AGGGATAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (19 bp):
TGAGGTTTGAAGCCGAAGC
Found at i:953725 original size:37 final size:36
Alignment explanation
Indices: 953650--953725 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
953640 TTTTTATATT
953650 TTTAATTTTATAAAAAAATTATATAAATATTATAAA
1 TTTAATTTTATAAAAAAATTATATAAATATTATAAA
* *
953686 TTTAATTTGT-TAAAGAAAA-TGTATAAATATTTTACAA
1 TTTAATTT-TATAAA-AAAATTATATAAATATTATA-AA
953723 TTT
1 TTT
953726 GTAATACTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 25 0.71
37 10 0.29
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTAATTTTATAAAAAAATTATATAAATATTATAAA
Found at i:963088 original size:21 final size:23
Alignment explanation
Indices: 963051--963093 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
963041 ACTTAATAGA
963051 ATTATTGATGTGATATT-TTTTG
1 ATTATTGATGTGATATTATTTTG
*
963073 ATTATT-ATGTGGTATTATTTT
1 ATTATTGATGTGATATTATTTT
963094 ATAGTGATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.23, C:0.00, G:0.16, T:0.60
Consensus pattern (23 bp):
ATTATTGATGTGATATTATTTTG
Found at i:973554 original size:15 final size:15
Alignment explanation
Indices: 973534--973568 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
973524 GAGGGTATTT
973534 GTAGTCATTCGGGAC
1 GTAGTCATTCGGGAC
*
973549 GTAGTCCTTCGGGAC
1 GTAGTCATTCGGGAC
973564 GTAGT
1 GTAGT
973569 GGTCCTACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (15 bp):
GTAGTCATTCGGGAC
Found at i:983655 original size:2 final size:2
Alignment explanation
Indices: 983648--983682 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
983638 ATTATTAATA
*
983648 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
983683 ATTTAGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:984362 original size:14 final size:14
Alignment explanation
Indices: 984343--984372 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
984333 TTACTTTATA
984343 TTTATATTATAAAT
1 TTTATATTATAAAT
984357 TTTATATTATAAAT
1 TTTATATTATAAAT
984371 TT
1 TT
984373 CTATCATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATATTATAAAT
Found at i:985949 original size:28 final size:29
Alignment explanation
Indices: 985918--985981 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
985908 CATTTATTAA
*
985918 AATTTAATTATAGTTTTAATATAAATA-T
1 AATTTAATTATAGTTTTAAAATAAATATT
* * *
985946 AATTAAATTATATTTTTAAAATAATTATT
1 AATTTAATTATAGTTTTAAAATAAATATT
985975 AATTTAA
1 AATTTAA
985982 ATAATTTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 23 0.77
29 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
AATTTAATTATAGTTTTAAAATAAATATT
Found at i:989022 original size:32 final size:31
Alignment explanation
Indices: 988986--989062 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
988976 CGGGGCCGTG
*
988986 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
989018 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
989049 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
989063 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:989045 original size:63 final size:63
Alignment explanation
Indices: 988939--989062 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
988929 CCCTAAGGGA
* * ** *
988939 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
989002 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
989063 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:989943 original size:7 final size:7
Alignment explanation
Indices: 989931--989973 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
989921 GTCAAAGAAA
989931 GTCAACG
1 GTCAACG
989938 GTCAACG
1 GTCAACG
989945 GTC-ACG
1 GTCAACG
989951 GTCAACG
1 GTCAACG
989958 GTC-ACG
1 GTCAACG
989964 GTCAACG
1 GTCAACG
989971 GTC
1 GTC
989974 GGGTCGGGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.35
7 22 0.65
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:989953 original size:13 final size:13
Alignment explanation
Indices: 989935--989973 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
989925 AAGAAAGTCA
989935 ACGGTCAACGGTC
1 ACGGTCAACGGTC
989948 ACGGTCAACGGTC
1 ACGGTCAACGGTC
989961 ACGGTCAACGGTC
1 ACGGTCAACGGTC
989974 GGGTCGGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:989956 original size:20 final size:20
Alignment explanation
Indices: 989931--989973 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
989921 GTCAAAGAAA
989931 GTCAACGGTCAACGGTCACG
1 GTCAACGGTCAACGGTCACG
989951 GTCAACGGTC-ACGGTCAACG
1 GTCAACGGTCAACGGTC-ACG
989971 GTC
1 GTC
989974 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (20 bp):
GTCAACGGTCAACGGTCACG
Found at i:989985 original size:17 final size:17
Alignment explanation
Indices: 989963--990003 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
989953 CAACGGTCAC
*
989963 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
989980 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
989997 GGTCAAC
1 GGTCAAC
990004 CCGGTTCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:990021 original size:19 final size:19
Alignment explanation
Indices: 989997--990068 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
989987 AGTCGGGTCG
*
989997 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
990016 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* *
990035 GATCAAAACGGTTC-GAACC
1 GGTCAAACCGGTTCAG-ACC
990054 GGTCAAACCGGTTCA
1 GGTCAAACCGGTTCA
990069 AAACTGGTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
18 1 0.02
19 45 0.98
ACGTcount: A:0.28, C:0.31, G:0.25, T:0.17
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:990027 original size:9 final size:9
Alignment explanation
Indices: 989997--990085 Score: 61
Period size: 9 Copynumber: 9.3 Consensus size: 9
989987 AGTCGGGTCG
*
989997 GGTCAACCC
1 GGTCAAACC
*
990006 GGTTCAGACC
1 GG-TCAAACC
990016 GGTCAAACC
1 GGTCAAACC
*
990025 GGTTCAGACC
1 GG-TCAAACC
* *
990035 GATCAAAAC
1 GGTCAAACC
*
990044 GGTTCGAACC
1 GG-TCAAACC
990054 GGTCAAACC
1 GGTCAAACC
*
990063 GGTTCAAAACT
1 GG-TC-AAACC
*
990074 GGTTAAACC
1 GGTCAAACC
990083 GGT
1 GGT
990086 TTTCCAGCAG
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
9 31 0.51
10 24 0.39
11 6 0.10
ACGTcount: A:0.29, C:0.28, G:0.25, T:0.18
Consensus pattern (9 bp):
GGTCAAACC
Found at i:990056 original size:29 final size:30
Alignment explanation
Indices: 990020--990086 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
990010 CAGACCGGTC
*
990020 AAACCGGTTCAGACC-GATCAAAAC-GGTT
1 AAACCGGTTCAAACCGGATCAAAACTGGTT
* *
990048 CGAACCGG-TCAAACCGGTTCAAAACTGGTT
1 -AAACCGGTTCAAACCGGATCAAAACTGGTT
990078 AAACCGGTT
1 AAACCGGTT
990087 TTCCAGCAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
28 6 0.19
29 20 0.65
30 5 0.16
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.19
Consensus pattern (30 bp):
AAACCGGTTCAAACCGGATCAAAACTGGTT
Found at i:992738 original size:22 final size:22
Alignment explanation
Indices: 992708--992767 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
992698 AGAACCCCAT
* *
992708 GGGGTATCGATTCCCCTGT-GAG
1 GGGGAATCGATTCCCCT-TAAAG
*
992730 GGGGAATCGGTTCCCCTTCAAAG
1 GGGGAATCGATTCCCCTT-AAAG
992753 GGGGAATCGATTCCC
1 GGGGAATCGATTCCC
992768 TCATGGGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 1 0.03
22 15 0.47
23 16 0.50
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.23
Consensus pattern (22 bp):
GGGGAATCGATTCCCCTTAAAG
Found at i:992781 original size:20 final size:20
Alignment explanation
Indices: 992729--992789 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
992719 TCCCCTGTGA
* *
992729 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATT-CCC-TC-AT
992752 GGGGGAATCGATTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
992772 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
992790 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.51
21 2 0.06
22 3 0.09
23 12 0.34
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:997293 original size:19 final size:19
Alignment explanation
Indices: 997269--997307 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
997259 TCGAATGCAT
997269 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
997288 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
997307 T
1 T
997308 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:997408 original size:64 final size:65
Alignment explanation
Indices: 997255--997415 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
997245 GAACTAATTG
* * *** *
997255 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
997320 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
997383 A
65 A
997384 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
997416 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 48 0.56
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:997430 original size:64 final size:64
Alignment explanation
Indices: 997255--997435 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
997245 GAACTAATTG
* * * *
997255 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** **
997320 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
997384 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
997436 AGTGTTCCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
64 51 0.52
65 48 0.48
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:1003242 original size:20 final size:21
Alignment explanation
Indices: 1003213--1003268 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
1003203 TTTGCGCTTC
*
1003213 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
1003233 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
1003255 ATGCATCGATGCAT
1 ATGCATCGATGCAT
1003269 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:1004852 original size:21 final size:21
Alignment explanation
Indices: 1004810--1004853 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1004800 ACCCCGGGAG
*
1004810 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
1004831 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
1004852 CT
1 CT
1004854 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:1005918 original size:19 final size:19
Alignment explanation
Indices: 1005894--1005932 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1005884 TCAAATGCAT
1005894 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1005913 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1005932 T
1 T
1005933 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1005949 original size:65 final size:63
Alignment explanation
Indices: 1005831--1006039 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 63
1005821 TATTCAAAGG
* * *
1005831 CATGCACCGATGCA-TCAGTCCATGCATCGATGCATCGATGAAT-TAATT-GAACATCAAATGCA
1 CATGCACCGATGCACTC--TCCATGCATCGATGCATC--TGAATAT-TTTCAAACATCGAATGCA
*
1005893 TTC
61 TTT
1005896 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCA-TCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * **
1005961 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATA-TTTTCAAACATCGAATGCATTT
*
1006025 CATGCATCGATGCAC
1 CATGCACCGATGCAC
1006040 ACTTGGTGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
63 7 0.06
64 53 0.42
65 63 0.50
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (63 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATATTTTCAAACATCGAATGCATTT
Found at i:1006033 original size:64 final size:65
Alignment explanation
Indices: 1005880--1006040 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
1005870 GAATTAATTG
* * * *** *
1005880 AACATCAAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
1005945 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
1006008 A
65 A
1006009 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
1006041 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:1006055 original size:64 final size:64
Alignment explanation
Indices: 1005831--1006060 Score: 216
Period size: 64 Copynumber: 3.6 Consensus size: 64
1005821 TATTCAAAGG
* * * * *
1005831 CATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--GAACATCAAATGCA
1 CATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCA
*
1005893 TTC
62 TTT
* * *
1005896 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTT
* ** **
1005961 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTT
*** *
1006025 CATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 CATGCATCGATGCACACTCCATGCATCGATGCATCA
1006061 AGTGTTCCAA
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
63 6 0.04
64 69 0.50
65 63 0.46
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:1009922 original size:21 final size:22
Alignment explanation
Indices: 1009891--1009934 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
1009881 ATATTAACTT
1009891 TCCTAGAAAACCCCAAAAACCA
1 TCCTAGAAAACCCCAAAAACCA
1009913 TCCTA-AAAACCCCAAAAACCA
1 TCCTAGAAAACCCCAAAAACCA
1009934 T
1 T
1009935 GGTTAAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.50, C:0.36, G:0.02, T:0.11
Consensus pattern (22 bp):
TCCTAGAAAACCCCAAAAACCA
Found at i:1011277 original size:21 final size:21
Alignment explanation
Indices: 1011248--1011300 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1011238 ATTCTGACTA
1011248 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
1011269 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
1011290 TCGCAATGCGA
1 TCGCATTGCGA
1011301 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:1011315 original size:20 final size:20
Alignment explanation
Indices: 1011290--1011415 Score: 122
Period size: 20 Copynumber: 6.5 Consensus size: 20
1011280 TTTTCCTAAT
1011290 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1011310 TCGCAACGCGATTACGT--A
1 TCGCAATGCGAATACGTAAA
*
1011328 ----AA-GCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1011343 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
1011364 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1011384 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
1011405 TCGCAATGCGA
1 TCGCAATGCGA
1011416 TTTACATAAC
Statistics
Matches: 88, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
13 10 0.11
14 2 0.02
15 1 0.01
18 1 0.01
19 2 0.02
20 37 0.42
21 35 0.40
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1011335 original size:13 final size:13
Alignment explanation
Indices: 1011317--1011342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1011307 AAATCGCAAC
1011317 GCGATTACGTAAA
1 GCGATTACGTAAA
1011330 GCGATTACGTAAA
1 GCGATTACGTAAA
1011343 TCGCAATGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
GCGATTACGTAAA
Found at i:1011357 original size:21 final size:21
Alignment explanation
Indices: 1011333--1011420 Score: 124
Period size: 21 Copynumber: 4.2 Consensus size: 21
1011323 ACGTAAAGCG
*
1011333 ATTACGTAAATCGCAATGCGA
1 ATTACGAAAATCGCAATGCGA
*
1011354 ATTAGGAAAATCGCAATGCGA
1 ATTACGAAAATCGCAATGCGA
*
1011375 A-TACGTAAATCGCAATGCGA
1 ATTACGAAAATCGCAATGCGA
*
1011395 ATTAGGAAAATCGCAATGCGA
1 ATTACGAAAATCGCAATGCGA
*
1011416 TTTAC
1 ATTAC
1011421 ATAACGCCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.31
21 40 0.69
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (21 bp):
ATTACGAAAATCGCAATGCGA
Found at i:1011392 original size:41 final size:41
Alignment explanation
Indices: 1011330--1011415 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
1011320 ATTACGTAAA
*
1011330 GCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAAT
1 GCGAATACGTAAATCGCAATGCGAATTAGGAAAATCGCAAT
1011371 GCGAATACGTAAATCGCAATGCGAATTAGGAAAATCGCAAT
1 GCGAATACGTAAATCGCAATGCGAATTAGGAAAATCGCAAT
1011412 GCGA
1 GCGA
1011416 TTTACATAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (41 bp):
GCGAATACGTAAATCGCAATGCGAATTAGGAAAATCGCAAT
Found at i:1012064 original size:33 final size:33
Alignment explanation
Indices: 1012022--1012115 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
1012012 CAAATTCGCA
*
1012022 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTATCG
*
1012055 TTGCGATTTTCATTTCACGTTGCGATTCTATCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTATCG
**
1012088 TTGCGATAGTCATTTCCGCGTTGCGATT
1 TTGCGATTTTCATTT-CGCGTTGCGATT
1012116 TTCATTCTCT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 44 0.80
34 11 0.20
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTATCG
Found at i:1012120 original size:20 final size:19
Alignment explanation
Indices: 1012016--1012143 Score: 87
Period size: 20 Copynumber: 7.2 Consensus size: 19
1012006 CGAAACCAAA
*
1012016 TTCGCATTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
1012035 TTCGCGTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1012050 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1012068 TTCACGTTGCGA--TTC-T
1 TTCGCGTTGCGATTTTCAT
* **
1012084 AT--CGTTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
1012101 TTCCGCGTTGCGATTTTCAT
1 TT-CGCGTTGCGATTTTCAT
* * *
1012121 TCTCTCATTGCAATTTTCAT
1 T-TCGCGTTGCGATTTTCAT
1012141 TTC
1 TTC
1012144 AACTAAAAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
14 18 0.21
16 7 0.08
17 8 0.09
19 23 0.27
20 29 0.34
21 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1014002 original size:94 final size:93
Alignment explanation
Indices: 1013831--1014300 Score: 777
Period size: 94 Copynumber: 5.1 Consensus size: 93
1013821 TAGATTGCTT
* * *
1013831 AGTAAATTTATTCGGTTGCTGCCAATACTGATAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1013892 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
1013921 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
1013986 ATTTGTCTTTTATTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
*
1014015 AGTAAATTTATTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1014080 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
1014109 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1014174 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * *
1014203 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
1014268 ATTTGTCTTTGTTTTGTCTTTTAGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
1014296 AGTAA
1 AGTAA
1014301 TGCAATCCAT
Statistics
Matches: 363, Mismatches: 12, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
90 34 0.09
92 3 0.01
93 27 0.07
94 299 0.82
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Done.