Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_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: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 29
Found at i:4605346 original size:21 final size:21
Alignment explanation
Indices: 4605320--4605359 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4605310 CCCCCTTTGA
*
4605320 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
4605341 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
4605360 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:4610053 original size:20 final size:20
Alignment explanation
Indices: 4610028--4610093 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
4610018 GTTCTCTAGA
4610028 ACCTTCAAATAATGGGTAAT
1 ACCTTCAAATAATGGGTAAT
*
4610048 ACCTTCAAAGAATGGGTAAT
1 ACCTTCAAATAATGGGTAAT
4610068 ACCTTCAAATAATGGGTAAT
1 ACCTTCAAATAATGGGTAAT
4610088 ACCTTC
1 ACCTTC
4610094 TTACTTTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (20 bp):
ACCTTCAAATAATGGGTAAT
Found at i:4610635 original size:26 final size:26
Alignment explanation
Indices: 4610604--4610681 Score: 156
Period size: 26 Copynumber: 3.0 Consensus size: 26
4610594 ATTTTGATGA
4610604 ATCATTGCTGCCAACTAATGCACTTT
1 ATCATTGCTGCCAACTAATGCACTTT
4610630 ATCATTGCTGCCAACTAATGCACTTT
1 ATCATTGCTGCCAACTAATGCACTTT
4610656 ATCATTGCTGCCAACTAATGCACTTT
1 ATCATTGCTGCCAACTAATGCACTTT
4610682 CGGTGCATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
ATCATTGCTGCCAACTAATGCACTTT
Found at i:4619411 original size:26 final size:26
Alignment explanation
Indices: 4619360--4619411 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
4619350 TAGCATAAGA
* * *
4619360 TATATTTTTAATATATATTAATTATT
1 TATATTTTAAATATATAATAAGTATT
4619386 TATATTTATAAATA-ATAATAAGTATT
1 TATATTT-TAAATATATAATAAGTATT
4619412 AGCGGAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
TATATTTTAAATATATAATAAGTATT
Found at i:4624862 original size:205 final size:205
Alignment explanation
Indices: 4624513--4624919 Score: 757
Period size: 205 Copynumber: 2.0 Consensus size: 205
4624503 GTCTGCTACC
4624513 CCAGAAACACTTCTTAAGGAAGCAATCATGTTATCAGCTGTGGATACGAGGACAAAACAGACTGG
1 CCAGAAACACTTCTTAAGGAAGCAATCATGTTATCAGCTGTGGATACGAGGACAAAACAGACTGG
4624578 GAAGTGAGGTAAGTTTCTCCTTTCCTTTATTCATTGCAACTGAAATGTTTACAACAGTGTGATTC
66 GAAGTGAGGTAAGTTTCTCCTTTCCTTTATTCATTGCAACTGAAATGTTTACAACAGTGTGATTC
4624643 CTTTGCTTGTAAAA-TGATTGCGGGATTCCGTGGCTATTGAAGTTATGTT-GTAATGTA-TGAAT
131 CTTTGCTTGTAAAATTGATTGCGGGATTCCGTGGCTATTGAAGTTATGTTAGTAATGTACTGAAT
4624705 ATTTAAACTA
196 ATTTAAACTA
4624715 CCAGAAACACTTCTTAAGGAAGCAATTCATGTTATCAGCTGTGGATACGAGGACAAAACAGACTG
1 CCAGAAACACTTCTTAAGGAAGCAA-TCATGTTATCAGCTGTGGATACGAGGACAAAACAGACT-
4624780 GGGAAGTGAGGTAAGTTATCTCCTTTCCTTTATTCATTGCAACTGAAATGTTTACAACAGTGTGA
64 GGGAAGTGAGGTAAGTT-TCTCCTTTCCTTTATTCATTGCAACTGAAATGTTTACAACAGTGTGA
*
4624845 TTCCTTTGCTTGTAAAATTGATTGCTGGATTCCGTGGCTATTGAAGTTATGTTAGTAATGTACTG
128 TTCCTTTGCTTGTAAAATTGATTGCGGGATTCCGTGGCTATTGAAGTTATGTTAGTAATGTACTG
4624910 AATATTTAAA
193 AATATTTAAA
4624920 ATTATTGCTT
Statistics
Matches: 198, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
202 25 0.13
203 38 0.19
204 17 0.09
205 64 0.32
206 34 0.17
207 8 0.04
208 12 0.06
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (205 bp):
CCAGAAACACTTCTTAAGGAAGCAATCATGTTATCAGCTGTGGATACGAGGACAAAACAGACTGG
GAAGTGAGGTAAGTTTCTCCTTTCCTTTATTCATTGCAACTGAAATGTTTACAACAGTGTGATTC
CTTTGCTTGTAAAATTGATTGCGGGATTCCGTGGCTATTGAAGTTATGTTAGTAATGTACTGAAT
ATTTAAACTA
Found at i:4627612 original size:14 final size:14
Alignment explanation
Indices: 4627575--4627613 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
4627565 TAATCTTTTG
4627575 TTTTCACAAATTTA
1 TTTTCACAAATTTA
*
4627589 -TTTCAAAAATTTA
1 TTTTCACAAATTTA
4627602 TTTTCACAAATT
1 TTTTCACAAATT
4627614 ATCATAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTTCACAAATTTA
Found at i:4628263 original size:14 final size:14
Alignment explanation
Indices: 4628226--4628253 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4628216 GTATTCTTTA
4628226 AATTTTTTAAATAT
1 AATTTTTTAAATAT
4628240 AATTTTTTAAATAT
1 AATTTTTTAAATAT
4628254 TTATTTTTAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTTTTAAATAT
Found at i:4628678 original size:4 final size:4
Alignment explanation
Indices: 4628669--4628697 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
4628659 TACAACTAAA
4628669 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
4628698 ACAAACAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:4633585 original size:19 final size:20
Alignment explanation
Indices: 4633561--4633599 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4633551 ACTAAACATT
4633561 AATATTTTTGAA-AAAAATG
1 AATATTTTTGAACAAAAATG
*
4633580 AATATTTTTTAACAAAAATG
1 AATATTTTTGAACAAAAATG
4633600 TTAAGAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (20 bp):
AATATTTTTGAACAAAAATG
Found at i:4633843 original size:5 final size:5
Alignment explanation
Indices: 4633833--4633857 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4633823 TCCTTTATTT
4633833 TTTCC TTTCC TTTCC TTTCC TTTCC
1 TTTCC TTTCC TTTCC TTTCC TTTCC
4633858 ATTTGATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCC
Found at i:4634627 original size:27 final size:27
Alignment explanation
Indices: 4634573--4634628 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
4634563 CCGCCATCAC
* *
4634573 CACTTTGAACTTGAAACTCCATAGCAT
1 CACTTTGAACTTGAAACTCCACAACAT
*
4634600 CACTTTGAACTTGAAAGTCCACAACAT
1 CACTTTGAACTTGAAACTCCACAACAT
4634627 CA
1 CA
4634629 AGATCTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.27, G:0.11, T:0.27
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCACAACAT
Found at i:4634976 original size:30 final size:32
Alignment explanation
Indices: 4634940--4635022 Score: 116
Period size: 34 Copynumber: 2.6 Consensus size: 32
4634930 ACCCGCCCCG
4634940 ATTATATATATATATTTTA-TTTTTT-TATTA
1 ATTATATATATATATTTTATTTTTTTATATTA
4634970 ATTATATATATAATATTTATATTTTTTTATATTA
1 ATTATATATAT-ATATTT-TATTTTTTTATATTA
*
4635004 ATTATATATAAAATATTTT
1 ATTATATAT-ATATATTTT
4635023 CGGGTTCGGG
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
30 11 0.23
31 6 0.13
32 2 0.04
33 7 0.15
34 20 0.43
35 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
ATTATATATATATATTTTATTTTTTTATATTA
Found at i:4637824 original size:24 final size:24
Alignment explanation
Indices: 4637797--4637848 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
4637787 CGTTCATTTA
*
4637797 CGTTCATAAACGTTCGGTTATGTT
1 CGTTCATAAACGTTCAGTTATGTT
* ***
4637821 CGTTTATGTTCGTTCAGTTATGTT
1 CGTTCATAAACGTTCAGTTATGTT
4637845 CGTT
1 CGTT
4637849 TATGTTCCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.48
Consensus pattern (24 bp):
CGTTCATAAACGTTCAGTTATGTT
Found at i:4637849 original size:24 final size:24
Alignment explanation
Indices: 4637807--4637868 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
4637797 CGTTCATAAA
*
4637807 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCAGTTATGTTCGTTTATGTT
4637831 CGTTCAGTTATGTTCGTTTATGTT
1 CGTTCAGTTATGTTCGTTTATGTT
* *
4637855 CCTTCATTTATGTT
1 CGTTCAGTTATGTT
4637869 TAACCCAGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.11, C:0.15, G:0.19, T:0.55
Consensus pattern (24 bp):
CGTTCAGTTATGTTCGTTTATGTT
Found at i:4638244 original size:16 final size:16
Alignment explanation
Indices: 4638219--4638285 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
4638209 GTCTCCAACG
*
4638219 TTTATGTTCGTGCTCA
1 TTTATGTTCGTGTTCA
*
4638235 TTTATATTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
4638251 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
4638267 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
4638281 TTTAT
1 TTTAT
4638286 TAAATGAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 39 0.85
ACGTcount: A:0.13, C:0.12, G:0.16, T:0.58
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:4642651 original size:15 final size:15
Alignment explanation
Indices: 4642607--4642643 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
4642597 TCACCCGTGT
4642607 GGGTAAATATTATAA
1 GGGTAAATATTATAA
4642622 GGGTAAATATTATAA
1 GGGTAAATATTATAA
4642637 GGGTAAA
1 GGGTAAA
4642644 GTATATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (15 bp):
GGGTAAATATTATAA
Found at i:4644428 original size:23 final size:24
Alignment explanation
Indices: 4644410--4644462 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
4644400 TATCTCTATT
4644410 TTTATGA-CACATTTTTCTCTGTC
1 TTTATGAGCACATTTTTCTCTGTC
*
4644433 ATTAT-AGCACATTTTTCTCTGTC
1 TTTATGAGCACATTTTTCTCTGTC
4644456 TTTATGA
1 TTTATGA
4644463 TATGTTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 1 0.04
23 24 0.92
24 1 0.04
ACGTcount: A:0.21, C:0.19, G:0.09, T:0.51
Consensus pattern (24 bp):
TTTATGAGCACATTTTTCTCTGTC
Found at i:4648278 original size:20 final size:20
Alignment explanation
Indices: 4648242--4648279 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4648232 ATCTTATTCC
**
4648242 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
4648262 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
4648280 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:4651223 original size:3 final size:3
Alignment explanation
Indices: 4651215--4651253 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
4651205 CGTTCTCTCC
*
4651215 AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4651254 TCTATTCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4666120 original size:15 final size:15
Alignment explanation
Indices: 4666100--4666156 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
4666090 AACCGGGTAT
4666100 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
**
4666115 CGGGTACCCGCAAAATC
1 CGGGTACCCG-ATTA-C
*
4666132 CGGGTACCCAATTAC
1 CGGGTACCCGATTAC
4666147 CGGGTACCCG
1 CGGGTACCCG
4666157 TAACATCCGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 20 0.59
16 4 0.12
17 10 0.29
ACGTcount: A:0.23, C:0.35, G:0.26, T:0.16
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:4666146 original size:32 final size:32
Alignment explanation
Indices: 4666100--4666168 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
4666090 AACCGGGTAT
*
4666100 CGGGTACCCGATTACCGGGTACCCGCAAAATC
1 CGGGTACCCAATTACCGGGTACCCGCAAAATC
* *
4666132 CGGGTACCCAATTACCGGGTACCCGTAACATC
1 CGGGTACCCAATTACCGGGTACCCGCAAAATC
4666164 CGGGT
1 CGGGT
4666169 CGGGACACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.17
Consensus pattern (32 bp):
CGGGTACCCAATTACCGGGTACCCGCAAAATC
Found at i:4666168 original size:17 final size:15
Alignment explanation
Indices: 4666100--4666168 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 15
4666090 AACCGGGTAT
*
4666100 CGGGTACCCG-ATTAC
1 CGGGTACCCGAAAT-C
4666115 CGGGTACCCGCAAAATC
1 CGGGTACCCG--AAATC
*
4666132 CGGGTACCC-AATTAC
1 CGGGTACCCGAAAT-C
4666147 CGGGTACCCGTAACATC
1 CGGGTACCCG-AA-ATC
4666164 CGGGT
1 CGGGT
4666169 CGGGACACGG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 3 0.07
15 20 0.45
17 18 0.41
18 3 0.07
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.17
Consensus pattern (15 bp):
CGGGTACCCGAAATC
Found at i:4677166 original size:20 final size:22
Alignment explanation
Indices: 4677138--4677190 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
4677128 CAGAGAGAAT
*
4677138 CGATCCCCCCTTT-A-GGGAAC
1 CGATTCCCCCTTTAAGGGGAAC
4677158 CGATTCCCCCTTTGAAGGGGAAC
1 CGATTCCCCCTTT-AAGGGGAAC
4677181 CGATTCCCCC
1 CGATTCCCCC
4677191 CACAGGGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.41
22 1 0.03
23 16 0.55
ACGTcount: A:0.19, C:0.40, G:0.21, T:0.21
Consensus pattern (22 bp):
CGATTCCCCCTTTAAGGGGAAC
Found at i:4677716 original size:11 final size:12
Alignment explanation
Indices: 4677695--4677729 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
4677685 CAAAACCATA
4677695 TTTTTCAAAAAG
1 TTTTTCAAAAAG
4677707 TTTTTCAAAAAG
1 TTTTTCAAAAAG
4677719 TTTTTCAAAAA
1 TTTTTCAAAAA
4677730 CTTTGCCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (12 bp):
TTTTTCAAAAAG
Found at i:4680712 original size:64 final size:64
Alignment explanation
Indices: 4680644--4680787 Score: 177
Period size: 64 Copynumber: 2.2 Consensus size: 64
4680634 ATGCACATGC
*
4680644 AGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTATGCATCGATGCATAAG-
1 AGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTTATGCATCGATGCAT-AGT
4680707 G-
63 GT
* * * * *
4680708 AGTGCATCGATACATCCCCATTAAATACAAACATCGAATAGGATTTATGCATCGATGCATGGTGT
1 AGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTTATGCATCGATGCATAGTGT
4680773 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
4680788 ACCTCCATTA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
63 1 0.01
64 47 0.68
65 20 0.29
66 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (64 bp):
AGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTATGCATCGATGCATAGTGT
Found at i:4681412 original size:23 final size:23
Alignment explanation
Indices: 4681379--4681441 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
4681369 ATTATTATAT
4681379 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
4681402 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
4681425 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
4681442 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:4683419 original size:18 final size:18
Alignment explanation
Indices: 4683396--4683432 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4683386 TACTCAAACA
4683396 AAATAATATAAAGTACAC
1 AAATAATATAAAGTACAC
4683414 AAATAATATAAAGTACAC
1 AAATAATATAAAGTACAC
4683432 A
1 A
4683433 GATGGTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (18 bp):
AAATAATATAAAGTACAC
Found at i:4683820 original size:60 final size:58
Alignment explanation
Indices: 4683750--4683861 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
4683740 TAGGCGAATA
* * *
4683750 ACTATTTTGTAACTTTTAATAGTAAGAGGATTTAACAAAACAATGTCCTATAATTGGAGG
1 ACTATTTTGTAACTTTTAATAATAA-A-GATTTAACAAAACAATATCCAATAATTGGAGG
* *
4683810 ACTATTTTGTAACTTTTAATAATCAATATTTAACAAAACAATATCCAATAAT
1 ACTATTTTGTAACTTTTAATAATAAAGATTTAACAAAACAATATCCAATAAT
4683862 CTTTATCCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 23 0.49
59 1 0.02
60 23 0.49
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (58 bp):
ACTATTTTGTAACTTTTAATAATAAAGATTTAACAAAACAATATCCAATAATTGGAGG
Found at i:4687453 original size:23 final size:23
Alignment explanation
Indices: 4687427--4687502 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
4687417 TAACCGACTG
4687427 TATATTACTAATAAATTAAATAA
1 TATATTACTAATAAATTAAATAA
* * * *
4687450 TATATT-TTAAAACAATTTTGAAT-G
1 TATATTACTAATA-AA--TTAAATAA
*
4687474 TATATTACTAATGAATTAAATAA
1 TATATTACTAATAAATTAAATAA
4687497 TATATT
1 TATATT
4687503 TTAAAATAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 9 0.23
23 14 0.36
24 8 0.21
25 8 0.21
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TATATTACTAATAAATTAAATAA
Found at i:4687513 original size:23 final size:23
Alignment explanation
Indices: 4687440--4687513 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
4687430 ATTACTAATA
*
4687440 AATTAAATAATATATTTTAAAAC
1 AATTAAATAATATATTTTAAAAT
* * * *
4687463 AATT--TTGAATGTATATTACTAAT
1 AATTAAAT-AATATATTTTA-AAAT
4687486 GAATTAAATAATATATTTTAAAAT
1 -AATTAAATAATATATTTTAAAAT
4687510 AATT
1 AATT
4687514 TTATTTGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 10
0.66 0.16 0.18
Matches are distributed among these distances:
21 1 0.03
22 9 0.24
23 10 0.27
24 7 0.19
25 9 0.24
26 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (23 bp):
AATTAAATAATATATTTTAAAAT
Found at i:4687523 original size:47 final size:47
Alignment explanation
Indices: 4687425--4687515 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
4687415 TTTAACCGAC
4687425 TGTATATTACTAATAAATTAAATAATATATTTTAAAACAATTTTGAA
1 TGTATATTACTAATAAATTAAATAATATATTTTAAAACAATTTTGAA
* *
4687472 TGTATATTACTAATGAATTAAATAATATATTTTAAAATAATTTT
1 TGTATATTACTAATAAATTAAATAATATATTTTAAAACAATTTT
4687516 ATTTGTATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.45
Consensus pattern (47 bp):
TGTATATTACTAATAAATTAAATAATATATTTTAAAACAATTTTGAA
Found at i:4689118 original size:15 final size:17
Alignment explanation
Indices: 4689093--4689125 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4689083 CAAGTTACAA
4689093 GCAGTTTGTGGG-TGTT
1 GCAGTTTGTGGGTTGTT
4689109 GCAG-TTGTGGGTTGTT
1 GCAGTTTGTGGGTTGTT
4689125 G
1 G
4689126 TGACTTTGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.06, C:0.06, G:0.45, T:0.42
Consensus pattern (17 bp):
GCAGTTTGTGGGTTGTT
Found at i:4689910 original size:22 final size:21
Alignment explanation
Indices: 4689871--4689919 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
4689861 TATACGTATG
* * *
4689871 TAAAAAAATATTTTTTTTGAA
1 TAAAAAAATAATTATTTTAAA
4689892 TAAAAAATATAATTATTTTAAA
1 TAAAAAA-ATAATTATTTTAAA
4689914 TAAAAA
1 TAAAAA
4689920 CGAATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAAAAATAATTATTTTAAA
Found at i:4691603 original size:14 final size:14
Alignment explanation
Indices: 4691584--4691613 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4691574 ATGTATATTA
4691584 TAAAAAAAGTTTTT
1 TAAAAAAAGTTTTT
4691598 TAAAAAAAGTTTTT
1 TAAAAAAAGTTTTT
4691612 TA
1 TA
4691614 CAATATTTAT
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:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TAAAAAAAGTTTTT
Found at i:4703031 original size:20 final size:21
Alignment explanation
Indices: 4702976--4703051 Score: 84
Period size: 20 Copynumber: 3.7 Consensus size: 21
4702966 TTCAAATCAA
* *
4702976 ATTCAAGTTCGAGTTGAGTTC
1 ATTCAAATTCGAGTTTAGTTC
4702997 ATTC-AATTCGAGTTTAGTTC
1 ATTCAAATTCGAGTTTAGTTC
* *
4703017 ATTCAAATT-GAGTTTTGATTG
1 ATTCAAATTCGAGTTTAG-TTC
*
4703038 AATCAAATTCGAGT
1 ATTCAAATTCGAGT
4703052 AGCTTGTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 25 0.53
21 18 0.38
22 4 0.09
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (21 bp):
ATTCAAATTCGAGTTTAGTTC
Found at i:4707266 original size:94 final size:94
Alignment explanation
Indices: 4707105--4707292 Score: 376
Period size: 94 Copynumber: 2.0 Consensus size: 94
4707095 ATTTGACCGA
4707105 TTCCCACCAACAACGCTTGGCAGAAATTCTGTCACCCTGCTCGCCTAAACCTTTGCCATGCACTT
1 TTCCCACCAACAACGCTTGGCAGAAATTCTGTCACCCTGCTCGCCTAAACCTTTGCCATGCACTT
4707170 GTAAACCACATAACAGTAAGAGATCGGTT
66 GTAAACCACATAACAGTAAGAGATCGGTT
4707199 TTCCCACCAACAACGCTTGGCAGAAATTCTGTCACCCTGCTCGCCTAAACCTTTGCCATGCACTT
1 TTCCCACCAACAACGCTTGGCAGAAATTCTGTCACCCTGCTCGCCTAAACCTTTGCCATGCACTT
4707264 GTAAACCACATAACAGTAAGAGATCGGTT
66 GTAAACCACATAACAGTAAGAGATCGGTT
4707293 CATGACGAAT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (94 bp):
TTCCCACCAACAACGCTTGGCAGAAATTCTGTCACCCTGCTCGCCTAAACCTTTGCCATGCACTT
GTAAACCACATAACAGTAAGAGATCGGTT
Found at i:4708971 original size:22 final size:20
Alignment explanation
Indices: 4708931--4708971 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
4708921 GTAAACTAAA
*
4708931 GCCAAATTTATTAATTAAGG
1 GCCAAATTTATCAATTAAGG
4708951 GCCAAATTATAATCAATTAAG
1 GCCAAATT-T-ATCAATTAAG
4708972 ATATTAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (20 bp):
GCCAAATTTATCAATTAAGG
Found at i:4709108 original size:61 final size:61
Alignment explanation
Indices: 4709038--4709171 Score: 218
Period size: 61 Copynumber: 2.2 Consensus size: 61
4709028 TACATGGCTA
*
4709038 GATTATTAACTATTTTAATGAACTAAGGACCTAATTGAAAGAAACTAAGCTTATTA-GACTT
1 GATTATTAACTATTTTAATGAACTAAGGACCTAATTGAAAGAAACTAAACTTATTATGA-TT
* *
4709099 GATTATTAACCAATTTAATGAACTAAGGACCTAATTGAAAGAAACTAAACTTATTATGATT
1 GATTATTAACTATTTTAATGAACTAAGGACCTAATTGAAAGAAACTAAACTTATTATGATT
4709160 GATTA-TAACTAT
1 GATTATTAACTAT
4709172 GCCATTAAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
60 5 0.07
61 60 0.90
62 2 0.03
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (61 bp):
GATTATTAACTATTTTAATGAACTAAGGACCTAATTGAAAGAAACTAAACTTATTATGATT
Found at i:4710754 original size:60 final size:60
Alignment explanation
Indices: 4710647--4710799 Score: 177
Period size: 60 Copynumber: 2.5 Consensus size: 60
4710637 GTATATGCAT
* *
4710647 ATAGTTTG-GGATGAAATTGGAATGTTAAAAAAAATTGAGGATCAATTTAGAATGA-AGGTC
1 ATAGTTTGAGGATGAAATTGAAATGTT-AAAAAGATTGAGGATCAATTTAGAATGATA-GTC
* *
4710707 ATAGTTTGAGGATGAAATTGAAATGTTCAAAAGGTTGAGGA-CTAATTTAGAATGATAGTC
1 ATAGTTTGAGGATGAAATTGAAATGTTAAAAAGATTGAGGATC-AATTTAGAATGATAGTC
* * * * *
4710767 GTAGTTTAAGGATTAAATTGAAATATTGAAAAG
1 ATAGTTTGAGGATGAAATTGAAATGTTAAAAAG
4710800 TTCATGTTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
59 1 0.01
60 62 0.77
61 18 0.22
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (60 bp):
ATAGTTTGAGGATGAAATTGAAATGTTAAAAAGATTGAGGATCAATTTAGAATGATAGTC
Found at i:4711638 original size:20 final size:20
Alignment explanation
Indices: 4711613--4711650 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4711603 TTTGGTTCAC
4711613 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
4711633 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
4711651 GGAATAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:4717280 original size:30 final size:31
Alignment explanation
Indices: 4717219--4717289 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 31
4717209 GTTATATGAG
* *
4717219 CTATGTGATAAAGGTATGGAAAATGATATGT
1 CTATGTGATAAAGGTATAGAAAATAATATGT
4717250 CTATGTGATAAAGGTATAG-AAATAATATGT
1 CTATGTGATAAAGGTATAGAAAATAATATGT
*
4717280 CTATGAGATA
1 CTATGTGATA
4717290 CACTATGTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 19 0.51
31 18 0.49
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (31 bp):
CTATGTGATAAAGGTATAGAAAATAATATGT
Found at i:4717578 original size:25 final size:25
Alignment explanation
Indices: 4717541--4717588 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4717531 GGTGCAATTC
4717541 TACGCGGCACTTCGGTG-CAAATTTT
1 TACGCGGCACTTCGG-GACAAATTTT
*
4717566 TACGCGGCCCTTCGGGACAAATT
1 TACGCGGCACTTCGGGACAAATT
4717589 CTATATGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (25 bp):
TACGCGGCACTTCGGGACAAATTTT
Found at i:4718465 original size:44 final size:43
Alignment explanation
Indices: 4718402--4718493 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 43
4718392 ACGGGTTGGG
* *
4718402 GTGTATCGATGCACATTCAAGGAATGCATCGGTGCATCT-TCATA
1 GTGTAACGATGCACATTCAAGGAATGCATCGATGCA-CTGTC-TA
*
4718446 GTGTAACGATGCACATTCAAGGGATGCATCGATGCACTGTCTA
1 GTGTAACGATGCACATTCAAGGAATGCATCGATGCACTGTCTA
4718489 GTGTA
1 GTGTA
4718494 TTGATGCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 9 0.20
44 35 0.80
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
GTGTAACGATGCACATTCAAGGAATGCATCGATGCACTGTCTA
Found at i:4718479 original size:23 final size:23
Alignment explanation
Indices: 4718406--4718482 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
4718396 GTTGGGGTGT
*
4718406 ATCGATGCACATTCAAGGAATGC
1 ATCGATGCACATTCAAGGGATGC
* *
4718429 ATCGGTGCATC-TTCATA--G-TGT
1 ATCGATGCA-CATTCA-AGGGATGC
*
4718450 AACGATGCACATTCAAGGGATGC
1 ATCGATGCACATTCAAGGGATGC
4718473 ATCGATGCAC
1 ATCGATGCAC
4718483 TGTCTAGTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
20 2 0.05
21 13 0.32
22 1 0.02
23 23 0.56
24 2 0.05
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (23 bp):
ATCGATGCACATTCAAGGGATGC
Found at i:4722203 original size:20 final size:21
Alignment explanation
Indices: 4722164--4722203 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4722154 GAAGTTTTAA
* *
4722164 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
4722185 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
4722204 AATTAAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:4723804 original size:21 final size:21
Alignment explanation
Indices: 4723778--4723820 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4723768 TTTTCGGGCT
* *
4723778 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
4723799 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
4723820 A
1 A
4723821 CGAACATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:4723880 original size:66 final size:67
Alignment explanation
Indices: 4723800--4723949 Score: 212
Period size: 67 Copynumber: 2.3 Consensus size: 67
4723790 ACCCATTCAA
* *
4723800 GGGGAACCGATACCCCTTCAACGAACATG-ATTTCCAGAATGCTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAACATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
*
4723864 TG
66 GG
* * * * *
4723866 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGAATGCTTGTGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAACATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
4723931 GG
66 GG
*
4723933 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
4723950 ATGAGAAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
66 25 0.34
67 49 0.66
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAACATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
GG
Found at i:4723938 original size:20 final size:20
Alignment explanation
Indices: 4723913--4723950 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4723903 GAATGCTTGT
*
4723913 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
4723933 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
4723951 TGAGAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:4724292 original size:29 final size:29
Alignment explanation
Indices: 4724250--4724321 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
4724240 CATATTATGA
* * *
4724250 TACATTACATGAATTTATATTAAATGTAT
1 TACATGACATGAATTCATATGAAATGTAT
*
4724279 TACATGACATGAATTCATATGATATGTAT
1 TACATGACATGAATTCATATGAAATGTAT
*
4724308 TGCATGACATGAAT
1 TACATGACATGAAT
4724322 ATGCAGAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATGAAATGTAT
Found at i:4724739 original size:149 final size:149
Alignment explanation
Indices: 4724464--4724761 Score: 569
Period size: 149 Copynumber: 2.0 Consensus size: 149
4724454 AGAGGGTCTG
4724464 TTCGGTTCTTTAGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACATACTT
1 TTCGGTTCTTTAGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACATACTT
* * *
4724529 GATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTATATG
66 GATCCATAGTATATGTATATGATTCTTAAGGAATTCTACGTGGTCCTTATGGACATCATTATATG
4724594 GCACTACGGTGCAATTCTA
131 GCACTACGGTGCAATTCTA
4724613 TTCGGTTCTTTAGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACATACTT
1 TTCGGTTCTTTAGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACATACTT
4724678 GATCCATAGTATATGTATATGATTCTTAAGGAATTCTACGTGGTCCTTATGGACATCATTATATG
66 GATCCATAGTATATGTATATGATTCTTAAGGAATTCTACGTGGTCCTTATGGACATCATTATATG
4724743 GCACTACGGTGCAATTCTA
131 GCACTACGGTGCAATTCTA
4724762 CGGGGCACTT
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 146 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (149 bp):
TTCGGTTCTTTAGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTTGAAAGACACATACTT
GATCCATAGTATATGTATATGATTCTTAAGGAATTCTACGTGGTCCTTATGGACATCATTATATG
GCACTACGGTGCAATTCTA
Found at i:4724786 original size:23 final size:23
Alignment explanation
Indices: 4724742--4724786 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4724732 ATCATTATAT
*
4724742 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
4724765 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
4724787 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:4727171 original size:21 final size:24
Alignment explanation
Indices: 4727146--4727192 Score: 73
Period size: 21 Copynumber: 2.1 Consensus size: 24
4727136 GATTCATATG
4727146 ATATGTGA-TACAAGA-AAA-GAC
1 ATATGTGATTACAAGAGAAATGAC
4727167 ATATGTGATTACAAGAGAAATGAC
1 ATATGTGATTACAAGAGAAATGAC
4727191 AT
1 AT
4727193 GAATACATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.35
22 7 0.30
23 3 0.13
24 5 0.22
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (24 bp):
ATATGTGATTACAAGAGAAATGAC
Found at i:4727981 original size:33 final size:33
Alignment explanation
Indices: 4727944--4728013 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
4727934 TTTAGAAAGA
4727944 TAATCATGCAATGCAATCTAAGTAAAAACGTGT
1 TAATCATGCAATGCAATCTAAGTAAAAACGTGT
4727977 TAATCATGCAATGCAATCTAAGTAAAAACGTGT
1 TAATCATGCAATGCAATCTAAGTAAAAACGTGT
4728010 TAAT
1 TAAT
4728014 AGGAGTTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (33 bp):
TAATCATGCAATGCAATCTAAGTAAAAACGTGT
Found at i:4729210 original size:84 final size:84
Alignment explanation
Indices: 4729069--4729237 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
4729059 ACTTTGATCT
4729069 TCCCCATGTAGTGGCTAGTGCACCCAAGTACCCCAATGTTAGCCATGTCGAAGGCAACATGTTCG
1 TCCCCATGTAGTGGCTAGTGCACCCAAGTACCCCAATGTTAGCCATGTCGAAGGCAACATGTTCG
4729134 ACACTATTCCCGTTGACGC
66 ACACTATTCCCGTTGACGC
4729153 TCCCCATGTAGTGGCTAGTGCACCCAAGTACCCCAATGTTAGCCATGTCGAAGGCAACATGTTCG
1 TCCCCATGTAGTGGCTAGTGCACCCAAGTACCCCAATGTTAGCCATGTCGAAGGCAACATGTTCG
4729218 ACACTATTCCCGTTGACGC
66 ACACTATTCCCGTTGACGC
4729237 T
1 T
4729238 GATGCAATAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (84 bp):
TCCCCATGTAGTGGCTAGTGCACCCAAGTACCCCAATGTTAGCCATGTCGAAGGCAACATGTTCG
ACACTATTCCCGTTGACGC
Found at i:4734658 original size:13 final size:13
Alignment explanation
Indices: 4734640--4734666 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4734630 AAAGTTATCA
4734640 TTTAGTGTACTAT
1 TTTAGTGTACTAT
4734653 TTTAGTGTACTAT
1 TTTAGTGTACTAT
4734666 T
1 T
4734667 GTAAGCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TTTAGTGTACTAT
Found at i:4736697 original size:16 final size:16
Alignment explanation
Indices: 4736676--4736714 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4736666 TTTTAGAATT
*
4736676 GAGGATTCTCTCTAGA
1 GAGGATTCTCTCTAAA
* *
4736692 GAGGATTCTTTTTAAA
1 GAGGATTCTCTCTAAA
4736708 GAGGATT
1 GAGGATT
4736715 ACTTTATAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (16 bp):
GAGGATTCTCTCTAAA
Found at i:4742133 original size:2 final size:2
Alignment explanation
Indices: 4742126--4742169 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4742116 TACATTTCTA
4742126 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4742168 AT
1 AT
4742170 GTTTTAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4746202 original size:9 final size:9
Alignment explanation
Indices: 4746188--4746302 Score: 77
Period size: 10 Copynumber: 12.0 Consensus size: 9
4746178 GGCTGCTGGA
4746188 AACCGGTTT
1 AACCGGTTT
4746197 AACCGGTTTT
1 AACCGG-TTT
4746207 CAACCGGTTCT
1 -AACCGGTT-T
*
4746218 GACCGGTTT
1 AACCGGTTT
*
4746227 GACCGGTTT
1 AACCGGTTT
*
4746236 CAACCGGTTCG
1 -AACCGGTT-T
4746247 AACCGGTTT
1 AACCGGTTT
* *
4746256 GACCGGTCT
1 AACCGGTTT
*
4746265 GACTCGGTTT
1 AAC-CGGTTT
* *
4746275 GACCGGTCTG
1 AACCGGT-TT
*
4746285 AGCCGGTTT
1 AACCGGTTT
*
4746294 GACCGGTTT
1 AACCGGTTT
4746303 GACCCGACCC
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
9 38 0.44
10 41 0.48
11 7 0.08
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.30
Consensus pattern (9 bp):
AACCGGTTT
Found at i:4746233 original size:19 final size:19
Alignment explanation
Indices: 4746190--4746306 Score: 109
Period size: 19 Copynumber: 6.1 Consensus size: 19
4746180 CTGCTGGAAA
* * *
4746190 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
4746210 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
4746229 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
4746249 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
4746267 CTCGGTTTGACCGG-TCTGA
1 C-CGGTTTGACCGGTTCTGA
4746286 GCCGGTTTGACCGGTT-TGA
1 -CCGGTTTGACCGGTTCTGA
4746305 CC
1 CC
4746307 CGACCCGACC
Statistics
Matches: 85, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
18 7 0.08
19 53 0.62
20 17 0.20
21 8 0.09
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:4746251 original size:29 final size:30
Alignment explanation
Indices: 4746188--4746262 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
4746178 GGCTGCTGGA
*
4746188 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
4746219 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
4746247 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
4746263 CTGACTCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:4746272 original size:29 final size:27
Alignment explanation
Indices: 4746189--4746306 Score: 110
Period size: 29 Copynumber: 4.1 Consensus size: 27
4746179 GCTGCTGGAA
* *
4746189 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTT-GACCGGTTC-G
*
4746219 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTTT-GACCGGTTCG
* *
4746247 AACCGGTTTGACCGGTCTGACTCGGTTTG
1 -ACCGGTTTGACCGGTTTGAC-CGGTTCG
* *
4746276 ACCGGTCTGAGCCGGTTTGACCGGTTTG
1 ACCGGTTTGA-CCGGTTTGACCGGTTCG
4746304 ACC
1 ACC
4746307 CGACCCGACC
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
28 22 0.28
29 44 0.56
30 13 0.16
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (27 bp):
ACCGGTTTGACCGGTTTGACCGGTTCG
Found at i:4746303 original size:9 final size:9
Alignment explanation
Indices: 4746189--4746306 Score: 119
Period size: 9 Copynumber: 12.3 Consensus size: 9
4746179 GCTGCTGGAA
*
4746189 ACCGGTTTA
1 ACCGGTTTG
*
4746198 ACCGGTTTTCA
1 ACCGG-TTT-G
4746209 ACCGGTTCTG
1 ACCGGTT-TG
4746219 ACCGGTTTG
1 ACCGGTTTG
*
4746228 ACCGGTTTCA
1 ACCGGTTT-G
*
4746238 ACCGGTTCG
1 ACCGGTTTG
4746247 AACCGGTTTG
1 -ACCGGTTTG
*
4746257 ACCGGTCTG
1 ACCGGTTTG
4746266 ACTCGGTTTG
1 AC-CGGTTTG
*
4746276 ACCGGTCTG
1 ACCGGTTTG
4746285 AGCCGGTTTG
1 A-CCGGTTTG
4746295 ACCGGTTTG
1 ACCGGTTTG
4746304 ACC
1 ACC
4746307 CGACCCGACC
Statistics
Matches: 93, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
9 43 0.46
10 43 0.46
11 7 0.08
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4746334 original size:23 final size:23
Alignment explanation
Indices: 4746301--4746351 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
4746291 TTTGACCGGT
4746301 TTGA-CCCGACCCGACCCGACCG
1 TTGACCCCGACCCGACCCGACCG
4746323 TTGACCCCGACCCGACCCGACCG
1 TTGACCCCGACCCGACCCGACCG
4746346 TTGACC
1 TTGACC
4746352 GTTGACCGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.18, C:0.49, G:0.22, T:0.12
Consensus pattern (23 bp):
TTGACCCCGACCCGACCCGACCG
Found at i:4746336 original size:28 final size:29
Alignment explanation
Indices: 4746303--4746358 Score: 87
Period size: 28 Copynumber: 1.9 Consensus size: 29
4746293 TGACCGGTTT
4746303 GACCCGACCCGACC-CGACCGTTGACCCC
1 GACCCGACCCGACCGCGACCGTTGACCCC
*
4746331 GACCCGACCCGACCGTTGACCGTTGACC
1 GACCCGACCCGACCG-CGACCGTTGACC
4746359 GTTGACTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 14 0.56
30 11 0.44
ACGTcount: A:0.18, C:0.48, G:0.23, T:0.11
Consensus pattern (29 bp):
GACCCGACCCGACCGCGACCGTTGACCCC
Found at i:4747300 original size:63 final size:63
Alignment explanation
Indices: 4747232--4747355 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
4747222 CTAATGTGAC
* ** * *
4747232 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
4747295 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
4747356 TCCCTTAGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:4753558 original size:9 final size:9
Alignment explanation
Indices: 4753544--4753658 Score: 77
Period size: 10 Copynumber: 12.0 Consensus size: 9
4753534 GGCTGCTGGA
4753544 AACCGGTTT
1 AACCGGTTT
4753553 AACCGGTTTT
1 AACCGG-TTT
4753563 CAACCGGTTCT
1 -AACCGGTT-T
*
4753574 GACCGGTTT
1 AACCGGTTT
*
4753583 GACCGGTTT
1 AACCGGTTT
*
4753592 CAACCGGTTCG
1 -AACCGGTT-T
4753603 AACCGGTTT
1 AACCGGTTT
* *
4753612 GACCGGTCT
1 AACCGGTTT
*
4753621 GACTCGGTTT
1 AAC-CGGTTT
* *
4753631 GACCGGTCTG
1 AACCGGT-TT
*
4753641 AGCCGGTTT
1 AACCGGTTT
*
4753650 GACCGGTTT
1 AACCGGTTT
4753659 GACCCGACCC
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
9 38 0.44
10 41 0.48
11 7 0.08
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.30
Consensus pattern (9 bp):
AACCGGTTT
Found at i:4753589 original size:19 final size:19
Alignment explanation
Indices: 4753546--4753662 Score: 109
Period size: 19 Copynumber: 6.1 Consensus size: 19
4753536 CTGCTGGAAA
* * *
4753546 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
4753566 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
4753585 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
4753605 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
4753623 CTCGGTTTGACCGG-TCTGA
1 C-CGGTTTGACCGGTTCTGA
4753642 GCCGGTTTGACCGGTT-TGA
1 -CCGGTTTGACCGGTTCTGA
4753661 CC
1 CC
4753663 CGACCCGACC
Statistics
Matches: 85, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
18 7 0.08
19 53 0.62
20 17 0.20
21 8 0.09
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:4753607 original size:29 final size:30
Alignment explanation
Indices: 4753544--4753618 Score: 118
Period size: 29 Copynumber: 2.5 Consensus size: 30
4753534 GGCTGCTGGA
*
4753544 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
4753575 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
4753603 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
4753619 CTGACTCGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 1 0.02
29 28 0.67
30 13 0.31
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:4753628 original size:29 final size:27
Alignment explanation
Indices: 4753545--4753662 Score: 110
Period size: 29 Copynumber: 4.1 Consensus size: 27
4753535 GCTGCTGGAA
* *
4753545 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTT-GACCGGTTC-G
*
4753575 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTTT-GACCGGTTCG
* *
4753603 AACCGGTTTGACCGGTCTGACTCGGTTTG
1 -ACCGGTTTGACCGGTTTGAC-CGGTTCG
* *
4753632 ACCGGTCTGAGCCGGTTTGACCGGTTTG
1 ACCGGTTTGA-CCGGTTTGACCGGTTCG
4753660 ACC
1 ACC
4753663 CGACCCGACC
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
28 22 0.28
29 44 0.56
30 13 0.16
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (27 bp):
ACCGGTTTGACCGGTTTGACCGGTTCG
Found at i:4753659 original size:9 final size:9
Alignment explanation
Indices: 4753545--4753662 Score: 119
Period size: 9 Copynumber: 12.3 Consensus size: 9
4753535 GCTGCTGGAA
*
4753545 ACCGGTTTA
1 ACCGGTTTG
*
4753554 ACCGGTTTTCA
1 ACCGG-TTT-G
4753565 ACCGGTTCTG
1 ACCGGTT-TG
4753575 ACCGGTTTG
1 ACCGGTTTG
*
4753584 ACCGGTTTCA
1 ACCGGTTT-G
*
4753594 ACCGGTTCG
1 ACCGGTTTG
4753603 AACCGGTTTG
1 -ACCGGTTTG
*
4753613 ACCGGTCTG
1 ACCGGTTTG
4753622 ACTCGGTTTG
1 AC-CGGTTTG
*
4753632 ACCGGTCTG
1 ACCGGTTTG
4753641 AGCCGGTTTG
1 A-CCGGTTTG
4753651 ACCGGTTTG
1 ACCGGTTTG
4753660 ACC
1 ACC
4753663 CGACCCGACC
Statistics
Matches: 93, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
9 43 0.46
10 43 0.46
11 7 0.08
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4753669 original size:5 final size:5
Alignment explanation
Indices: 4753659--4753699 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
4753649 TGACCGGTTT
*
4753659 GACCC GACCC GACCC GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACC
4753700 GTTGACCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.20, C:0.54, G:0.22, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:4753683 original size:22 final size:22
Alignment explanation
Indices: 4753657--4753706 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
4753647 TTTGACCGGT
4753657 TTGACCCGACCCGACCCGACCG
1 TTGACCCGACCCGACCCGACCG
4753679 TTGACCCGACCCGACCCGACCG
1 TTGACCCGACCCGACCCGACCG
4753701 TTGACC
1 TTGACC
4753707 GTTGACCGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.18, C:0.48, G:0.22, T:0.12
Consensus pattern (22 bp):
TTGACCCGACCCGACCCGACCG
Found at i:4753708 original size:7 final size:7
Alignment explanation
Indices: 4753696--4753726 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
4753686 GACCCGACCC
4753696 GACCGTT
1 GACCGTT
4753703 GACCGTT
1 GACCGTT
4753710 GACCGTT
1 GACCGTT
4753717 GACCGTT
1 GACCGTT
4753724 GAC
1 GAC
4753727 TTTCTTTGAC
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:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:4754664 original size:63 final size:63
Alignment explanation
Indices: 4754596--4754719 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
4754586 CTAATGTGAC
* ** * *
4754596 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
4754659 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
4754720 TCCCTTAGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:4757109 original size:23 final size:23
Alignment explanation
Indices: 4757076--4757126 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
4757066 TTAAAATTTC
4757076 AGGTTGAGAATGGTGAATCTTTA
1 AGGTTGAGAATGGTGAATCTTTA
*
4757099 AGGTTGGGAATGGTGAATCTTTA
1 AGGTTGAGAATGGTGAATCTTTA
4757122 AGGTT
1 AGGTT
4757127 CTGGTTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.33, T:0.35
Consensus pattern (23 bp):
AGGTTGAGAATGGTGAATCTTTA
Found at i:4775078 original size:31 final size:32
Alignment explanation
Indices: 4774994--4775080 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 32
4774984 GAGTCGAGGG
*
4774994 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTAAGGAACATATGGACAGAAT
***
4775026 TACCTATG-TCTTTCGAGACATATGGAC--AAT
1 TACCTATGTTCTAAGGA-ACATATGGACAGAAT
4775056 ATACCTATGTTCTAAGGAACATATG
1 -TACCTATGTTCTAAGGAACATATG
4775081 AAAAGTTCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
30 3 0.07
31 20 0.43
32 23 0.50
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (32 bp):
TACCTATGTTCTAAGGAACATATGGACAGAAT
Found at i:4775156 original size:30 final size:30
Alignment explanation
Indices: 4775105--4775165 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4775095 GTTCTTCGGA
*
4775105 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTATGGACAGTTACCGAGGATCTTTATG
* *
4775135 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTATGGACAGTTACCGAGGATCTTTATG
4775165 A
1 A
4775166 TAGGTCCTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (30 bp):
ACCTATGGACAGTTACCGAGGATCTTTATG
Found at i:4780292 original size:31 final size:31
Alignment explanation
Indices: 4780208--4780331 Score: 94
Period size: 31 Copynumber: 4.0 Consensus size: 31
4780198 GAGTCGAGGG
* *
4780208 TACCTATGTTCTACGGAACATATGAACA-TAA
1 TACCTATGTTCTAAGGAACATATGGACAGT-A
***
4780239 TTACCTATG-TCTTTCGAGACATATGGACAGTA
1 -TACCTATGTTCTAAGGA-ACATATGGACAGTA
*
4780271 TACCTATGTTCTAAGGAACATATGGATAGT-
1 TACCTATGTTCTAAGGAACATATGGACAGTA
* * *
4780301 TCACCTAGGTTCTTCA-GAACCTATGGACAGT
1 T-ACCTATGTTC-TAAGGAACATATGGACAGT
4780332 TGTCGAGGAT
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
30 1 0.01
31 47 0.63
32 26 0.35
33 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAGTA
Found at i:4788544 original size:129 final size:128
Alignment explanation
Indices: 4788316--4788568 Score: 443
Period size: 129 Copynumber: 2.0 Consensus size: 128
4788306 CTCAGTGACA
* * *
4788316 AAAAATGTCTTATAATATACGATTTCAACCAATTTTTTTGGATTTGTCAAAATGACCAACTAAAT
1 AAAAATGCCTTATAATATACGATTTCAACCAATTTTTTTAGATTTGCCAAAATGACCAACTAAAT
4788381 CGCAATGCGATCGATAATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTCCAGATTTGCC
66 CGCAATGCGATCGATAATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTCCAGATTTGCC
* *
4788444 AAAAATGCCTTATAATATACTATTTTAACCAACTTTTTTTAGATTTGCCAAAATGACCAACTAAA
1 AAAAATGCCTTATAATATACGATTTCAACCAA-TTTTTTTAGATTTGCCAAAATGACCAACTAAA
*
4788509 TCGCAATGCGATCGATAATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTTCAGATT
65 TCGCAATGCGATCGATAATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTCCAGATT
4788569 CGCAACGCGA
Statistics
Matches: 118, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
128 29 0.25
129 89 0.75
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (128 bp):
AAAAATGCCTTATAATATACGATTTCAACCAATTTTTTTAGATTTGCCAAAATGACCAACTAAAT
CGCAATGCGATCGATAATTCGCAACGCGATCTCCGGTATCGCAAATCAGTTTCCAGATTTGCC
Found at i:4788640 original size:21 final size:21
Alignment explanation
Indices: 4788614--4788678 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
4788604 CATATTCACA
4788614 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
4788635 TTGCGATTTATTCCAAATT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
*
4788656 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
4788677 TT
1 TT
4788679 ATCGCAACGA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
19 8 0.23
21 18 0.51
23 9 0.26
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:4789293 original size:6 final size:6
Alignment explanation
Indices: 4789282--4789307 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4789272 GTCTCGTCTC
4789282 GTCGTG GTCGTG GTCGTG GTCGTG GT
1 GTCGTG GTCGTG GTCGTG GTCGTG GT
4789308 AATACGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.50, T:0.35
Consensus pattern (6 bp):
GTCGTG
Found at i:4790567 original size:102 final size:102
Alignment explanation
Indices: 4790443--4790692 Score: 412
Period size: 102 Copynumber: 2.5 Consensus size: 102
4790433 AAAATATGGT
4790443 AGTTGAGATATTTATATGTGATCAGGGATGAACCAATGAGAACATGAT-AAAAGTATAATGATCA
1 AGTTGAGATATTTATATGTGATCAGGGATGAACCAATGAGAACATGATAAAAAG-ATAATGATCA
* * *
4790507 ACAAGTTCACATACATTGGGTTGACGAATACGTTGTGC
65 ACAAGTTCACATACATTGGGTTGACGAACAAGCTGTGC
* *
4790545 AGTTGAGATATTTACATGTGATCAGGGATAAACCAATGAGAACATGATAAAAAGATAATGATCAA
1 AGTTGAGATATTTATATGTGATCAGGGATGAACCAATGAGAACATGATAAAAAGATAATGATCAA
*
4790610 CAAGTTCACATACATTGGGTTGACGAACAAGCTGTGT
66 CAAGTTCACATACATTGGGTTGACGAACAAGCTGTGC
* *
4790647 AGTTGAAATATTTATATGTAATCAGGGATGAACCAATGAGAACATG
1 AGTTGAGATATTTATATGTGATCAGGGATGAACCAATGAGAACATG
4790693 CGAGAGGGTA
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
102 132 0.96
103 5 0.04
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (102 bp):
AGTTGAGATATTTATATGTGATCAGGGATGAACCAATGAGAACATGATAAAAAGATAATGATCAA
CAAGTTCACATACATTGGGTTGACGAACAAGCTGTGC
Found at i:4790754 original size:18 final size:18
Alignment explanation
Indices: 4790718--4790768 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
4790708 CTCCTTTGAA
* **
4790718 ATTTTTTATTTTTTGTAT
1 ATTTTTTATTTATAATAT
4790736 ATTTTTTATTTATAATAT
1 ATTTTTTATTTATAATAT
4790754 ATTTTTGT-TTTATAA
1 ATTTTT-TATTTATAA
4790769 AAATTTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (18 bp):
ATTTTTTATTTATAATAT
Found at i:4792074 original size:21 final size:21
Alignment explanation
Indices: 4792048--4792088 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4792038 TATGTTATAA
*
4792048 GGTTTAGGATTTAGAGTTTAG
1 GGTTTAGGATTTAAAGTTTAG
*
4792069 GGTTTAGGGTTTAAAGTTTA
1 GGTTTAGGATTTAAAGTTTA
4792089 TGTGATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (21 bp):
GGTTTAGGATTTAAAGTTTAG
Found at i:4792153 original size:14 final size:14
Alignment explanation
Indices: 4792107--4792146 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
4792097 GATTTAAGAA
4792107 TTAGGGTTTATAGT
1 TTAGGGTTTATAGT
4792121 TTAGGGTTTATAGT
1 TTAGGGTTTATAGT
4792135 TTAGGGTTTATA
1 TTAGGGTTTATA
4792147 TACTAGGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTATAGT
Found at i:4798375 original size:23 final size:23
Alignment explanation
Indices: 4798343--4798387 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4798333 GTACACAAAT
*
4798343 ATGTTTGTTTAACGTTCGTCAAC
1 ATGTTCGTTTAACGTTCGTCAAC
* *
4798366 ATGTTCGTTTAATGTTTGTCAA
1 ATGTTCGTTTAACGTTCGTCAA
4798388 GGCATTCGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (23 bp):
ATGTTCGTTTAACGTTCGTCAAC
Found at i:4799273 original size:6 final size:6
Alignment explanation
Indices: 4799260--4799567 Score: 508
Period size: 6 Copynumber: 51.3 Consensus size: 6
4799250 TGTTAGTGTT
* * * * *
4799260 TATACA TATGCA TATGCA TATGCA TATGCA TATGCA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
* * * * *
4799308 TATGCA TATACA TATACA TATGCA TATGCA TATACA TATGCA TATGCA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
* *
4799356 TATGCA TATACA TATACA TATACA TATGCA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
4799404 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
4799452 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
4799500 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
4799548 TATACA TATACA TATACA TA
1 TATACA TATACA TATACA TA
4799568 AGATCATTCT
Statistics
Matches: 292, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 292 1.00
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (6 bp):
TATACA
Found at i:4801891 original size:21 final size:22
Alignment explanation
Indices: 4801867--4801909 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
4801857 ATTCTGAGAG
4801867 AACAC-TGTAGTTCTTCATTCA
1 AACACGTGTAGTTCTTCATTCA
4801888 AACACTGTGTAGTTCTTCATTC
1 AACAC-GTGTAGTTCTTCATTC
4801910 GACAATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
23 15 0.75
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.40
Consensus pattern (22 bp):
AACACGTGTAGTTCTTCATTCA
Found at i:4807161 original size:3 final size:3
Alignment explanation
Indices: 4807153--4807223 Score: 133
Period size: 3 Copynumber: 23.7 Consensus size: 3
4807143 TATCTTTCTC
4807153 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
*
4807201 AAT AAT AAT AAT AAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
4807224 CAACAATTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4807376 original size:57 final size:57
Alignment explanation
Indices: 4807315--4807530 Score: 414
Period size: 57 Copynumber: 3.8 Consensus size: 57
4807305 AAAAAATCAT
*
4807315 ATAATTTAAAAATAATGATACTACATATTTTATTAAATATGTCTTCTAGACTTTATG
1 ATAATTTAAAAATAACGATACTACATATTTTATTAAATATGTCTTCTAGACTTTATG
4807372 ATAATTTAAAAATAACGATACTACATATTTTATTAAATATGTCTTCTAGACTTTATG
1 ATAATTTAAAAATAACGATACTACATATTTTATTAAATATGTCTTCTAGACTTTATG
4807429 ATAATTTAAAAATAACGATACTACATATTTTATTAAATATGTCTTCTAGACTTTATG
1 ATAATTTAAAAATAACGATACTACATATTTTATTAAATATGTCTTCTAGACTTTATG
*
4807486 ATAATTTAAAAATAACGATACTACATATTTTATTAATTATGTCTT
1 ATAATTTAAAAATAACGATACTACATATTTTATTAAATATGTCTT
4807531 AAAAATATTA
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 157 1.00
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (57 bp):
ATAATTTAAAAATAACGATACTACATATTTTATTAAATATGTCTTCTAGACTTTATG
Found at i:4807909 original size:20 final size:20
Alignment explanation
Indices: 4807869--4807911 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4807859 TTACAAATAT
*
4807869 AAAAATCAGAAAAATACAAA
1 AAAAATCAGAAAAACACAAA
* *
4807889 AAAAATCTGAAAAACATAAA
1 AAAAATCAGAAAAACACAAA
4807909 AAA
1 AAA
4807912 TTAATATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.74, C:0.09, G:0.05, T:0.12
Consensus pattern (20 bp):
AAAAATCAGAAAAACACAAA
Found at i:4808158 original size:21 final size:21
Alignment explanation
Indices: 4808132--4808206 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
4808122 GTTTCCAGAT
* *
4808132 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
4808153 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
4808174 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
4808195 TCGCAATGCGAA
1 TCGCAATGCGAA
4808207 TATGTAAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:4808235 original size:41 final size:41
Alignment explanation
Indices: 4808146--4808273 Score: 152
Period size: 41 Copynumber: 3.1 Consensus size: 41
4808136 AACGCGAACT
* * *
4808146 TCGACTATCGCAATGCGAACT-TGGACTATCGCAATGCGA-ACT
1 TCGACTATCGCAATGCGAA-TATGTA-AATCGCAATGCGATA-G
* *
4808188 TGGACTATCGCAATGCGAATATGTAAATCGTAATGCGATAG
1 TCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAG
* *
4808229 TCGACTATCACAATGCGAATATGTAAATCGCAATGTGATAG
1 TCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAG
4808270 TCGA
1 TCGA
4808274 AAGTCGCGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
41 53 0.71
42 22 0.29
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (41 bp):
TCGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAG
Found at i:4808289 original size:21 final size:21
Alignment explanation
Indices: 4808265--4808351 Score: 140
Period size: 21 Copynumber: 4.1 Consensus size: 21
4808255 ATCGCAATGT
4808265 GATAGTCGAAAG-TCGCGTTGC
1 GATAGTCG-AAGTTCGCGTTGC
4808286 GATAGTCGAAGTTCGCGTTGC
1 GATAGTCGAAGTTCGCGTTGC
*
4808307 GATAGTCCAAGTTCGCGTTGC
1 GATAGTCGAAGTTCGCGTTGC
*
4808328 GATAGTCGAAGTTCGCATTGC
1 GATAGTCGAAGTTCGCGTTGC
4808349 GAT
1 GAT
4808352 TTATTCCAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 3 0.05
21 59 0.95
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (21 bp):
GATAGTCGAAGTTCGCGTTGC
Found at i:4808323 original size:42 final size:43
Alignment explanation
Indices: 4808267--4808376 Score: 145
Period size: 42 Copynumber: 2.6 Consensus size: 43
4808257 CGCAATGTGA
* * *
4808267 TAGTCGAAAGTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGA-
1 TAGTCCAAATTCGCGTTGCGATAGTCGAAGTTCGCATTGCGAT
*
4808309 TAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCATTGCGATT
1 TAGTCCAAATTCGCGTTGCGATAGTCGAAGTTCGCATTGCGA-T
*
4808353 TATTCCAAATT--CGTTGCGATAGTC
1 TAGTCCAAATTCGCGTTGCGATAGTC
4808377 CAAAATCGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
42 51 0.85
44 9 0.15
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (43 bp):
TAGTCCAAATTCGCGTTGCGATAGTCGAAGTTCGCATTGCGAT
Found at i:4808480 original size:6 final size:6
Alignment explanation
Indices: 4808469--4808493 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4808459 GACACGTATT
4808469 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
4808494 GACGAGACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4811493 original size:220 final size:221
Alignment explanation
Indices: 4811111--4811552 Score: 877
Period size: 220 Copynumber: 2.0 Consensus size: 221
4811101 CTATGTTTGA
4811111 TTTACTCTGGTTTTCTGCCATCAAATCTGGATGTCGTCCACAATCTAAAACGTTTGTTGACCAAA
1 TTTACTCTGGTTTTCTGCCATCAAATCTGGATGTCGTCCACAATCTAAAACGTTTGTTGACCAAA
4811176 GTCTTTTGTTCTTCATTATAATCACACGTGTGAAGCAGAGACAATTGAATATCAGTTGAGTTTAA
66 GTCTTTTGTTCTTCATTATAATCACACGTGTGAAGCAGAGACAATTGAATATCAGTTGAGTTTAA
4811241 ATCATAACAGTTTAAATCATAGCTTGTTGTTGATGGAAAAAAATAGATTATAATAGATGTTAAC-
131 ATCATAACAGTTTAAATCATAGCTTGTTGTTGATGGAAAAAAATAGATTATAATAGATGTTAACA
4811305 ATTTACTTCTTTTAATTTGGATGAAG
196 ATTTACTTCTTTTAATTTGGATGAAG
4811331 TTTACTCTGGTTTTCTGCCATCAAATCTGGATGTCGTCCACAATCTAAAACGTTTGTTGACCAAA
1 TTTACTCTGGTTTTCTGCCATCAAATCTGGATGTCGTCCACAATCTAAAACGTTTGTTGACCAAA
4811396 GTCTTTTGTTCTTCATTATAATCACACGTGTGAAGCAGAGACAATTGAATATCAGTTGAGTTTAA
66 GTCTTTTGTTCTTCATTATAATCACACGTGTGAAGCAGAGACAATTGAATATCAGTTGAGTTTAA
4811461 ATCATAACAGTTTAAATCATAGCTTGTTGTTGATGGAAAAAAATAGATTATAATAGATGTTAACA
131 ATCATAACAGTTTAAATCATAGCTTGTTGTTGATGGAAAAAAATAGATTATAATAGATGTTAACA
4811526 ATTTACTTCTTTTAATTTGGATGAAG
196 ATTTACTTCTTTTAATTTGGATGAAG
4811552 T
1 T
4811553 GCAATTGATT
Statistics
Matches: 221, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
220 194 0.88
221 27 0.12
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (221 bp):
TTTACTCTGGTTTTCTGCCATCAAATCTGGATGTCGTCCACAATCTAAAACGTTTGTTGACCAAA
GTCTTTTGTTCTTCATTATAATCACACGTGTGAAGCAGAGACAATTGAATATCAGTTGAGTTTAA
ATCATAACAGTTTAAATCATAGCTTGTTGTTGATGGAAAAAAATAGATTATAATAGATGTTAACA
ATTTACTTCTTTTAATTTGGATGAAG
Found at i:4811675 original size:21 final size:20
Alignment explanation
Indices: 4811651--4811692 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4811641 GTCATACAAT
*
4811651 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
4811672 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
4811692 T
1 T
4811693 TGTAAGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:4820781 original size:18 final size:18
Alignment explanation
Indices: 4820755--4820793 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4820745 GTCATAACCC
4820755 GACCCGACCCGACCCATT
1 GACCCGACCCGACCCATT
* *
4820773 GACCTGACCCGACCCGTT
1 GACCCGACCCGACCCATT
4820791 GAC
1 GAC
4820794 TGGCGTTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.46, G:0.21, T:0.13
Consensus pattern (18 bp):
GACCCGACCCGACCCATT
Found at i:4823294 original size:12 final size:12
Alignment explanation
Indices: 4823273--4823334 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
4823263 ATGACCTAAA
4823273 TTCTGTTCTGAT
1 TTCTGTTCTGAT
*
4823285 TTCTGATCTGGA-
1 TTCTGTTCT-GAT
4823297 TTCTGTTCTGAT
1 TTCTGTTCTGAT
* * *
4823309 ATCTATTCTGAA
1 TTCTGTTCTGAT
* *
4823321 TTCTTTTTTGAT
1 TTCTGTTCTGAT
4823333 TT
1 TT
4823335 ATGATATCTC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 2 0.05
12 35 0.90
13 2 0.05
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (12 bp):
TTCTGTTCTGAT
Found at i:4823318 original size:24 final size:24
Alignment explanation
Indices: 4823245--4823324 Score: 92
Period size: 24 Copynumber: 3.3 Consensus size: 24
4823235 ATTTCTGACT
*
4823245 TGAATTCTGTTCTGATA-CATGACC
1 TGAATTCTGTTCTGATATC-TGATC
* *
4823269 TAAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
*
4823293 TGGATTCTGTTCTGATATCT-ATTC
1 TGAATTCTGTTCTGATATCTGA-TC
4823317 TGAATTCT
1 TGAATTCT
4823325 TTTTTGATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 1 0.02
24 45 0.96
25 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.46
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:4823505 original size:2 final size:2
Alignment explanation
Indices: 4823498--4823522 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4823488 AGGATGGGGG
4823498 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4823523 GTTTTAAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4837673 original size:22 final size:21
Alignment explanation
Indices: 4837624--4837675 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
4837614 TTCATAGTTA
*
4837624 TTATAATTATTTTATAACAAT
1 TTATAATCATTTTATAACAAT
*
4837645 TTAATAATCATTTTATAACTAT
1 TT-ATAATCATTTTATAACAAT
4837667 TATATAATC
1 T-TATAATC
4837676 GAAATTATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 24 0.89
23 1 0.04
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATAATCATTTTATAACAAT
Found at i:4844195 original size:31 final size:31
Alignment explanation
Indices: 4844125--4844230 Score: 124
Period size: 31 Copynumber: 3.4 Consensus size: 31
4844115 GTCGAGGGTT
* *
4844125 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTAAGGAACATATGGACAGTA
***
4844156 TTACCTATG-TCTTTTGAGACATATGGACAGTA
1 -TACCTATGTTCTAAGGA-ACATATGGACAGTA
*
4844188 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTAAGGAACATATGGACAGTA
*
4844219 TACCTAGGTTCT
1 TACCTATGTTCT
4844231 TCGGGACCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
31 37 0.59
32 26 0.41
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAGTA
Found at i:4846606 original size:27 final size:27
Alignment explanation
Indices: 4846554--4846607 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
4846544 CCGAGTATAA
* *
4846554 CACTGGTATCTTCAAATAATTTAAAAG
1 CACTGGTATCTTCAAATAACTCAAAAG
*
4846581 CACTGGTATGTTCAAATAACTCAAAAG
1 CACTGGTATCTTCAAATAACTCAAAAG
4846608 AACAACCCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (27 bp):
CACTGGTATCTTCAAATAACTCAAAAG
Found at i:4847952 original size:6 final size:6
Alignment explanation
Indices: 4847941--4847974 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
4847931 AGAAAGAATG
*
4847941 AATTCC AATTCC AATTCC AATTCC AGTTCC AATT
1 AATTCC AATTCC AATTCC AATTCC AATTCC AATT
4847975 ATAATTACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.35
Consensus pattern (6 bp):
AATTCC
Found at i:4847980 original size:18 final size:18
Alignment explanation
Indices: 4847941--4847980 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4847931 AGAAAGAATG
*
4847941 AATTCCAATTCCAATTCC
1 AATTCCAATTCCAATTAC
* *
4847959 AATTCCAGTTCCAATTAT
1 AATTCCAATTCCAATTAC
4847977 AATT
1 AATT
4847981 ACTATAAGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTCCAATTCCAATTAC
Found at i:4855744 original size:3 final size:3
Alignment explanation
Indices: 4855736--4855791 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
4855726 CTCGTCTTTC
4855736 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4855784 ATA ATA AT
1 ATA ATA AT
4855792 CACATATGGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4864369 original size:32 final size:32
Alignment explanation
Indices: 4864287--4864370 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
4864277 AAGCAATTGA
* * * *
4864287 GGGCATCTTTGAAGATTAAACATCAAATGTTG
1 GGGCATCTTTGGAGATTCAACATCAAATATCG
* *
4864319 GGGCATCTTTTGAGATTCAACATCGAATATCG
1 GGGCATCTTTGGAGATTCAACATCAAATATCG
4864351 GGGCATCTTTGG-GAATTCAA
1 GGGCATCTTTGGAG-ATTCAA
4864371 TATCCTGATA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 1 0.02
32 43 0.98
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (32 bp):
GGGCATCTTTGGAGATTCAACATCAAATATCG
Found at i:4864536 original size:2 final size:2
Alignment explanation
Indices: 4864531--4864560 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4864521 TTTTTTTTGC
*
4864531 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4864561 TGCAGCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4865160 original size:43 final size:41
Alignment explanation
Indices: 4865091--4865244 Score: 166
Period size: 43 Copynumber: 3.6 Consensus size: 41
4865081 ACGAAGGGGC
* **
4865091 CATCCACGATTTCAACTTCAAAACGGAGGATATCGTGCCCATA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGT-CCCA-A
* *
4865134 CATCCACTATTTCAACTCCACGACGGAGGATATCGTACCAA
1 CATCCACGATTTCAACTCCACGACGGAGGATATCGTCCCAA
*
4865175 CGGATCCACGATTTCAACTCCACGATGGAGGATATCGTACCCACA
1 C--ATCCACGATTTCAACTCCACGACGGAGGATATCGT-CCCA-A
* *
4865220 CAACCAC-AGTTTCAACTTCACGACG
1 CATCCACGA-TTTCAACTCCACGACG
4865245 AAGGGAATCG
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 84 0.88
44 3 0.03
45 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (41 bp):
CATCCACGATTTCAACTCCACGACGGAGGATATCGTCCCAA
Found at i:4865192 original size:86 final size:86
Alignment explanation
Indices: 4865092--4865257 Score: 219
Period size: 86 Copynumber: 1.9 Consensus size: 86
4865082 CGAAGGGGCC
* * * *
4865092 ATCCACGATTTCAACTTCAAAACGGAGGATATCGTGCCCATACATCCACTA-TTTCAACTCCACG
1 ATCCACGATTTCAACTCCAAAACGGAGGATATCGTACCCACACAACCAC-AGTTTCAACTCCACG
*
4865156 ACGGA-GGATATCGTACCAACGG
65 ACGAAGGGA-ATCGTACCAACGG
** * *
4865178 ATCCACGATTTCAACTCCACGATGGAGGATATCGTACCCACACAACCACAGTTTCAACTTCACGA
1 ATCCACGATTTCAACTCCAAAACGGAGGATATCGTACCCACACAACCACAGTTTCAACTCCACGA
4865243 CGAAGGGAATCGTAC
66 CGAAGGGAATCGTAC
4865258 ACACAAGCAG
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.01
86 65 0.94
87 3 0.04
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (86 bp):
ATCCACGATTTCAACTCCAAAACGGAGGATATCGTACCCACACAACCACAGTTTCAACTCCACGA
CGAAGGGAATCGTACCAACGG
Found at i:4865255 original size:43 final size:43
Alignment explanation
Indices: 4865091--4865262 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 43
4865081 ACGAAGGGGC
* ** * *
4865091 CATCCAC-GATTTCAACTTCAAAACGGAGGATATCGTGCCCATA
1 CATCCACAG-TTTCAACTCCACGACGGAGGATATCGTACCCACA
* *
4865134 CATCCACTA-TTTCAACTCCACGACGGAGGATATCGTACCAACG
1 CATCCAC-AGTTTCAACTCCACGACGGAGGATATCGTACCCACA
* *
4865177 GATCCAC-GATTTCAACTCCACGATGGAGGATATCGTACCCACA
1 CATCCACAG-TTTCAACTCCACGACGGAGGATATCGTACCCACA
* * * *
4865220 CAACCACAGTTTCAACTTCACGACGAAGGGA-ATCGTACACACA
1 CATCCACAGTTTCAACTCCACGACGGA-GGATATCGTACCCACA
4865263 AGCAGCATCC
Statistics
Matches: 106, Mismatches: 17, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
43 102 0.96
44 4 0.04
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (43 bp):
CATCCACAGTTTCAACTCCACGACGGAGGATATCGTACCCACA
Found at i:4865579 original size:83 final size:83
Alignment explanation
Indices: 4865335--4865849 Score: 557
Period size: 83 Copynumber: 6.1 Consensus size: 83
4865325 GAGTATCTGC
* * *
4865335 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCT-TAAGTC
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAAG-C
* * * *
4865399 AATAAAGGCTATCTGTCAAA
65 TAGAAGGGTTATCTGTC-AA
* * * *
4865419 CAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACATCATTTACAGCATAACTCAAAGC
* *
4865484 TAAAAGGTTTATCTGTCAA
65 TAGAAGGGTTATCTGTCAA
* * *
4865503 CAAAGACATTCGAGTTCGATTACACTAAGCTCAAAGGCACATCATTTATAGCATAACTCAAAGCT
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAAGCT
4865568 AGAAGGGTTATCTGTCAA
66 AGAAGGGTTATCTGTCAA
* * * * * * * **
4865586 AAAACACCTTCGAGTTTGATTTCACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGAA
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAAGCT
*
4865651 AGAAGGGTTATCTGTCGA
66 AGAAGGGTTATCTGTCAA
* * * * * * * *
4865669 CAAAAAACTTTCGAGTTCGACTACACTCAGCTCAAAGGCATATCAATTGCAACATAACTCAAAAC
1 C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAAGC
*
4865734 TAGAAGGGTTATCTATCAA
65 TAGAAGGGTTATCTGTCAA
* * * * * *
4865753 CAAAGACCTTTGAGTTCGATTAAACTTAGCTCAAAGGTACATCAAATTTACAGTATAGCTC-AAG
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTACAGCATAACTCAAAG
* * *
4865817 GTGAGAAGGGCTATCTGTCAT
64 CT-AGAAGGGTTATCTGTCAA
4865838 CAAAGACCTTCG
1 CAAAGACCTTCG
4865850 TGATTTCATT
Statistics
Matches: 356, Mismatches: 69, Indels: 11
0.82 0.16 0.03
Matches are distributed among these distances:
83 150 0.42
84 131 0.37
85 73 0.21
86 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (83 bp):
CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAACTCAAAGCT
AGAAGGGTTATCTGTCAA
Found at i:4865703 original size:167 final size:166
Alignment explanation
Indices: 4865343--4865841 Score: 588
Period size: 167 Copynumber: 3.0 Consensus size: 166
4865333 GCCAAAGACC
* * * * *
4865343 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCT-TAAGTCAATAAAGG
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAAG-CTAGAAGGG
* * * *
4865407 CTATCTGTCAAACAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAAC
65 TTATCTGTCAAA-AAAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACATCATTTACAGC
* * *
4865472 ATAACTCAAGGCTAA-AAGGTTTATCTGTCAACAAAGACA
128 ATAGCTCAAGG-TAAGAAGGGTTATCTGTCAACAAAAACA
* **
4865511 TTCGAGTTCGATTACACTAAGCTCAAAGGCACATCATTTATAGCATAACTCAAAGCTAGAAGGGT
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAAGCTAGAAGGGT
* * * *
4865576 TATCTGTCAAAAAACACCTTCGAGTTTGATTTCACTCAGCTCAAAGGCACATCATTTGCAGCATA
66 TATCTGTCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATA
* * *
4865641 GCTCAAGGAAAGAAGGGTTATCTGTCGACAAAAAACT
131 GCTCAAGGTAAGAAGGGTTATCTGTCAAC-AAAAACA
* * * * *
4865678 TTCGAGTTCGACTACACTCAGCTCAAAGGCATATCAATTGCAACATAACTCAAAACTAGAAGGGT
1 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAAGCTAGAAGGGT
* * * * * * *
4865743 TATCTATCAACAAAGACCTTTGAGTTCGATTAAACTTAGCTCAAAGGTACATCAAATTTACAGTA
66 TATCTGTCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTACAGCA
* * *
4865808 TAGCTCAAGGTGAGAAGGGCTATCTGTCATCAAA
129 TAGCTCAAGGTAAGAAGGGTTATCTGTCAACAAA
4865842 GACCTTCGTG
Statistics
Matches: 280, Mismatches: 46, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
165 2 0.01
166 43 0.15
167 132 0.47
168 66 0.24
169 37 0.13
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (166 bp):
TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAAGCTAGAAGGGT
TATCTGTCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATA
GCTCAAGGTAAGAAGGGTTATCTGTCAACAAAAACA
Found at i:4871757 original size:56 final size:58
Alignment explanation
Indices: 4871632--4871763 Score: 159
Period size: 56 Copynumber: 2.3 Consensus size: 58
4871622 ATAGTCTATT
* *
4871632 GATCATTTTGTAACTTCTAATAGTCGGAGGACTCAACAACACAATGTTTTATAGTCGGAG
1 GATCATTTTGTAACTT-TAATAGTC-GAGGACTCAACAAAACAATATTTTATAGTCGGAG
*
4871692 GA-CATTTTGTAACTTTAATAGTC-ATGGACTCAATAAAAC-ATATTTTATAGTCAGG-G
1 GATCATTTTGTAACTTTAATAGTCGA-GGACTCAACAAAACAATATTTTATAGTC-GGAG
4871748 GATCA-TTTGTAA-TTTA
1 GATCATTTTGTAACTTTA
4871764 CCCTAAAATT
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
55 4 0.06
56 23 0.35
57 16 0.24
58 8 0.12
59 13 0.20
60 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (58 bp):
GATCATTTTGTAACTTTAATAGTCGAGGACTCAACAAAACAATATTTTATAGTCGGAG
Found at i:4871966 original size:60 final size:60
Alignment explanation
Indices: 4871839--4871966 Score: 170
Period size: 60 Copynumber: 2.1 Consensus size: 60
4871829 ATAGTCTATT
* *
4871839 GATCATTTTGTAACTTCTAATAGTCGGAGGACTCAACAACACAATGTTTTATAGTCGGAG
1 GATCATTTTGTAACTTCTAATAGTCGGAGGACTCAACAAAACAATATTTTATAGTCGGAG
* * * *
4871899 GACCATTTTGTAACTTTTAATAGTCATGA-GACTCAATAAAACAATATTTTATAGTCAGG-G
1 GATCATTTTGTAACTTCTAATAGTC-GGAGGACTCAACAAAACAATATTTTATAGTC-GGAG
4871959 GATCATTT
1 GATCATTT
4871967 GTATAATTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 55 0.93
61 4 0.07
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (60 bp):
GATCATTTTGTAACTTCTAATAGTCGGAGGACTCAACAAAACAATATTTTATAGTCGGAG
Found at i:4874361 original size:197 final size:190
Alignment explanation
Indices: 4874028--4874399 Score: 442
Period size: 197 Copynumber: 1.9 Consensus size: 190
4874018 TTCTGCTTTT
* * *
4874028 TTTGCAGCTCTGAAATCTAAATATTCATGTAAACGTTTCTAAGAGGCATACATTTACATATTCAT
1 TTTGCAGCTCTGAAATCTAAATATGCATGTAAACGTTTCTAAGAGGCAGACATTTACATAGTCAT
* * *
4874093 ACATTGCAGCTGGTTGACATTGAAATATTGTGCTTAAGTTATGATCAGGAGGTTACTATTGTCCT
66 ACATTGCAGCTGGTTGACATTGAAATATTATGCTTAAATTAAGATCAGGAGGTTACTATTGTCCT
*
4874158 TGGATTTAGTCCTTAATATTATACTTCGTCACTCGTAATCTCATTACATGCATATGAACA
131 TGGATTTAGTCCTTAATATTATACTTCATCACTCGTAATCTCATTACATGCATATGAACA
* * * *
4874218 TTTGTAGCTCTGAAGTCTAAATATGCATGTGAACATTTTCTACA-AGGCAGACATTTACATAGTC
1 TTTGCAGCTCTGAAATCTAAATATGCATGTAAAC-GTTTCTA-AGAGGCAGACATTTACATAGTC
* * * * * *
4874282 ATATATTTGTAGCTGTTTTTGACATTGGAATATTATG-TTAAAATTAGAAAGATCATGTGGTTAC
64 ATACA-TTGCAGCTG--GTTGACATTGAAATATTATGCTT-AAATT---AAGATCAGGAGGTTAC
* * * * * *
4874346 TCTTGTCCTTGGATTTGGTCCTTAATATTGTGCTTCATTACTTGTAATCTCATT
122 TATTGTCCTTGGATTTAGTCCTTAATATTATACTTCATCACTCGTAATCTCATT
4874400 TAAAGGTATT
Statistics
Matches: 150, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
190 30 0.20
191 28 0.19
192 9 0.06
193 2 0.01
194 21 0.14
197 60 0.40
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (190 bp):
TTTGCAGCTCTGAAATCTAAATATGCATGTAAACGTTTCTAAGAGGCAGACATTTACATAGTCAT
ACATTGCAGCTGGTTGACATTGAAATATTATGCTTAAATTAAGATCAGGAGGTTACTATTGTCCT
TGGATTTAGTCCTTAATATTATACTTCATCACTCGTAATCTCATTACATGCATATGAACA
Found at i:4875795 original size:37 final size:37
Alignment explanation
Indices: 4875704--4875784 Score: 162
Period size: 37 Copynumber: 2.2 Consensus size: 37
4875694 ACTCGAGATC
4875704 GACTCGATCAAGGCTCGATAAATACTCGGATCAAATG
1 GACTCGATCAAGGCTCGATAAATACTCGGATCAAATG
4875741 GACTCGATCAAGGCTCGATAAATACTCGGATCAAATG
1 GACTCGATCAAGGCTCGATAAATACTCGGATCAAATG
4875778 GACTCGA
1 GACTCGA
4875785 ATCGAGCTCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (37 bp):
GACTCGATCAAGGCTCGATAAATACTCGGATCAAATG
Found at i:4875918 original size:22 final size:24
Alignment explanation
Indices: 4875868--4875918 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
4875858 GAGCAGTTCG
* *
4875868 AAAATATAATATATTAATATTTTT
1 AAAATATAATATATTAATAATATT
*
4875892 TAAATA-AAT-TATTAATAATATT
1 AAAATATAATATATTAATAATATT
4875914 AAAAT
1 AAAAT
4875919 TTATGTATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.65
23 3 0.13
24 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAATATAATATATTAATAATATT
Done.