Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014333.1 Kokia drynarioides strain JFW-HI SEQ_129370, 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: 1084406
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 65 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:852 original size:37 final size:37
Alignment explanation
Indices: 797--1018 Score: 214
Period size: 37 Copynumber: 6.0 Consensus size: 37
787 CATCTAAGAA
*
797 ATTTAGGCTATGTGCCTAGCAGGCTTTCTGCCGGTGT
1 ATTTGGGCTATGTGCCTAGCAGGCTTTCTGCCGGTGT
* *
834 ATTTGGGCTATGTGCCTAGCAGGCTTTGTGTCGGTGT
1 ATTTGGGCTATGTGCCTAGCAGGCTTTCTGCCGGTGT
* * * * *
871 ATTTGAGCTATATGCCCAGCAGGCTTTGTGTCGGTGT
1 ATTTGGGCTATGTGCCTAGCAGGCTTTCTGCCGGTGT
* * * *
908 ATTCGGGCTATGTACCTAGCATGC-TTCGTGCCAGTGT
1 ATTTGGGCTATGTGCCTAGCAGGCTTTC-TGCCGGTGT
* * *
945 ATTCGAGCTATGTGCGTAGCAGGC-TTCGTGCCGGTGT
1 ATTTGGGCTATGTGCCTAGCAGGCTTTC-TGCCGGTGT
** * * * *
982 AACTGGACTATGTGTCTAGCAAGCCTTTGTGCCGGTG
1 ATTTGGGCTATGTGCCTAGC-AGGCTTTCTGCCGGTG
1019 ATTCAGGAAT
Statistics
Matches: 153, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
36 2 0.01
37 138 0.90
38 11 0.07
39 2 0.01
ACGTcount: A:0.15, C:0.21, G:0.31, T:0.33
Consensus pattern (37 bp):
ATTTGGGCTATGTGCCTAGCAGGCTTTCTGCCGGTGT
Found at i:926 original size:74 final size:74
Alignment explanation
Indices: 803--982 Score: 243
Period size: 74 Copynumber: 2.4 Consensus size: 74
793 AGAAATTTAG
* * * * * *
803 GCTATGTGCCTAGCAGGCTTTCTGCCGGTGTATTTGGGCTATGTGCCTAGCAGGCTTTGTGTCGG
1 GCTATGTGCCTAGCAGGCTTTGTGCCGGTGTATTCGGGCTATGTACCTAGCAGGCTTCGTGCCAG
*
868 TGTATTTGA
66 TGTATTCGA
* * * *
877 GCTATATGCCCAGCAGGCTTTGTGTCGGTGTATTCGGGCTATGTACCTAGCATGCTTCGTGCCAG
1 GCTATGTGCCTAGCAGGCTTTGTGCCGGTGTATTCGGGCTATGTACCTAGCAGGCTTCGTGCCAG
942 TGTATTCGA
66 TGTATTCGA
* *
951 GCTATGTGCGTAGCAGGCTTCGTGCCGGTGTA
1 GCTATGTGCCTAGCAGGCTTTGTGCCGGTGTA
983 ACTGGACTAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
74 90 1.00
ACGTcount: A:0.14, C:0.21, G:0.32, T:0.33
Consensus pattern (74 bp):
GCTATGTGCCTAGCAGGCTTTGTGCCGGTGTATTCGGGCTATGTACCTAGCAGGCTTCGTGCCAG
TGTATTCGA
Found at i:1881 original size:11 final size:12
Alignment explanation
Indices: 1848--1881 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1838 GCGCATGTGA
*
1848 ACACGGGCTGGT
1 ACACGGGCTGTT
1860 ACACGGGCTGTT
1 ACACGGGCTGTT
1872 ACAC-GGCTGT
1 ACACGGGCTGT
1882 GTGACCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.18, C:0.26, G:0.35, T:0.21
Consensus pattern (12 bp):
ACACGGGCTGTT
Found at i:6249 original size:6 final size:6
Alignment explanation
Indices: 6240--6413 Score: 138
Period size: 6 Copynumber: 28.7 Consensus size: 6
6230 ATTAAGATTA
* * * *
6240 TTATTG TTATTG TTATTG TTTTTG TTTTTG TTTTTG TTATTCTTC TTATTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTA---TTG TTATTG
* * * * *
6291 TTATTG TTATTA TTATTA TTATTA TTATTG ---TTG TTGTTG TTGTTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
* * * * * *
6336 TTGTTG TTGTTG TTGTTG TTGTTG TTGTTG TTATTTG TTATTA TTATTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTA-TTG TTATTG TTATTG
*
6385 TTATTG TTATTG TTATTA TTATTTG TTAT
1 TTATTG TTATTG TTATTG TTA-TTG TTAT
6414 GAATATTTTA
Statistics
Matches: 149, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
3 3 0.02
6 130 0.87
7 11 0.07
9 5 0.03
ACGTcount: A:0.13, C:0.01, G:0.17, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:6303 original size:3 final size:3
Alignment explanation
Indices: 6285--6319 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6275 GTTATTCTTC
* *
6285 TTA TTG TTA TTG TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6320 GTTGTTGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6324 original size:3 final size:3
Alignment explanation
Indices: 6318--6367 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
6308 ATTATTATTA
6318 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
6366 TT
1 TT
6368 ATTTGTTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:10141 original size:3 final size:3
Alignment explanation
Indices: 10130--10188 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
10120 CATCATCATC
*
10130 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10178 ATT ATT ATT AT
1 ATT ATT ATT AT
10189 GTTAGTGGAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:14091 original size:2 final size:2
Alignment explanation
Indices: 14080--14109 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14070 GCATTTATTG
14080 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14110 TATTCTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14746 original size:17 final size:17
Alignment explanation
Indices: 14716--14763 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
14706 ACTACAATGC
* *
14716 AAATGTGATAACAAGTA
1 AAATGTAATGACAAGTA
* *
14733 AAATGTAGTGACAATTA
1 AAATGTAATGACAAGTA
14750 AAATGTAATGACAA
1 AAATGTAATGACAA
14764 CTAGATGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.52, C:0.06, G:0.17, T:0.25
Consensus pattern (17 bp):
AAATGTAATGACAAGTA
Found at i:15158 original size:3 final size:3
Alignment explanation
Indices: 15150--15234 Score: 79
Period size: 3 Copynumber: 28.3 Consensus size: 3
15140 TTTATCGGAA
* * *
15150 CTT CTT CTT CTT TTT CTT TTT CCTT CTCT CCT CTT CCTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT -CTT CT-T CTT CTT -CTT CTT CTT CTT
15198 C-T CTT CCTT CTT CTT CTT C-T CTT -TT C-T CTT CTT CTT C
1 CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
15235 AACACCCTCA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
2 8 0.12
3 50 0.74
4 10 0.15
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:15234 original size:18 final size:18
Alignment explanation
Indices: 15150--15232 Score: 91
Period size: 18 Copynumber: 4.6 Consensus size: 18
15140 TTTATCGGAA
* *
15150 CTTCTTCTTCTTTTTCTT
1 CTTCTTCTTCTCTTCCTT
*
15168 TTTCCTTCTCTCCTCTTCCTT
1 CTT-CTTCT-T-CTCTTCCTT
15189 CTTCTTCTTCTCTTCCTT
1 CTTCTTCTTCTCTTCCTT
15207 CTTCTTCTTCTCTT--TT
1 CTTCTTCTTCTCTTCCTT
15223 C-TCTTCTTCT
1 CTTCTTCTTCT
15233 TCAACACCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
15 9 0.16
16 3 0.05
18 25 0.43
19 6 0.10
20 6 0.10
21 9 0.16
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTCTTCTTCTCTTCCTT
Found at i:18716 original size:22 final size:22
Alignment explanation
Indices: 18689--18731 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18679 GCAACAGTAG
18689 GCACACAAAGTGCTAAACAGAA
1 GCACACAAAGTGCTAAACAGAA
* *
18711 GCACACACAGTGCTGAACAGA
1 GCACACAAAGTGCTAAACAGA
18732 GGGCACGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.26, G:0.21, T:0.09
Consensus pattern (22 bp):
GCACACAAAGTGCTAAACAGAA
Found at i:25832 original size:22 final size:22
Alignment explanation
Indices: 25806--25848 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25796 GCAACAGTAG
25806 GCACACAAAGTGCTAAACAGAA
1 GCACACAAAGTGCTAAACAGAA
* *
25828 GCACACACAGTGCTAAGCAGA
1 GCACACAAAGTGCTAAACAGA
25849 GGGCATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.26, G:0.21, T:0.09
Consensus pattern (22 bp):
GCACACAAAGTGCTAAACAGAA
Found at i:30790 original size:9 final size:9
Alignment explanation
Indices: 30776--30808 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
30766 TTAAGAATAC
30776 TGTTGTTGA
1 TGTTGTTGA
30785 TGTTGTTGA
1 TGTTGTTGA
30794 TGTTGTTGA
1 TGTTGTTGA
30803 TGTTGT
1 TGTTGT
30809 CCTTGCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.09, C:0.00, G:0.33, T:0.58
Consensus pattern (9 bp):
TGTTGTTGA
Found at i:34527 original size:27 final size:27
Alignment explanation
Indices: 34497--34554 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
34487 TTGATATGGT
*
34497 TGAATGATGTTGTTGTGTGATTATAAG
1 TGAATGATGTTGTTATGTGATTATAAG
34524 TGAATGATGTTGTTATGTGATTATAAG
1 TGAATGATGTTGTTATGTGATTATAAG
34551 TGAA
1 TGAA
34555 GTAGTTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.28, T:0.43
Consensus pattern (27 bp):
TGAATGATGTTGTTATGTGATTATAAG
Found at i:35152 original size:24 final size:23
Alignment explanation
Indices: 35125--35180 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
35115 CCTCCGATTT
* *
35125 TTTTCATTTTTTAAAATTTATCCC
1 TTTT-ATTTTTTAAAATTAAGCCC
* *
35149 TTTTTTTTTTTTAAATTAAGCCC
1 TTTTATTTTTTAAAATTAAGCCC
35172 TTTTATTTT
1 TTTTATTTT
35181 ATTTTTCTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.21, C:0.12, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTTATTTTTTAAAATTAAGCCC
Found at i:41028 original size:26 final size:23
Alignment explanation
Indices: 40979--41029 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
40969 ACTATATAAA
*
40979 AAAATTAATAAATAAAAATGTAT
1 AAAATTAATAAATAAAAATATAT
*
41002 AAAATTATTAAATATTAAAATAATAT
1 AAAATTAATAAATA--AAAAT-ATAT
41028 AA
1 AA
41030 TATAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 13 0.57
25 5 0.22
26 5 0.22
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAATTAATAAATAAAAATATAT
Found at i:43569 original size:13 final size:14
Alignment explanation
Indices: 43553--43583 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
43543 AAATTTTAAA
43553 TTTAAATTTATT-T
1 TTTAAATTTATTAT
43566 TTTAAATTTATTAT
1 TTTAAATTTATTAT
43580 TTTA
1 TTTA
43584 TCAGCTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTAAATTTATTAT
Found at i:43964 original size:19 final size:20
Alignment explanation
Indices: 43940--43977 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
43930 GCTAAATAAT
43940 AATAAT-TAT-TATTATTTTA
1 AATAATATATATATT-TTTTA
43959 AATAATATATATATTTTTT
1 AATAATATATATATTTTTT
43978 TTAAGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATAATATATATATTTTTTA
Found at i:43965 original size:22 final size:22
Alignment explanation
Indices: 43937--43981 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
43927 TTAGCTAAAT
43937 AATAATA-AT-TATTATTATTTTA
1 AATAATATATATATT-TT-TTTTA
43959 AATAATATATATATTTTTTTTA
1 AATAATATATATATTTTTTTTA
43981 A
1 A
43982 GTATTTACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 13 0.62
23 4 0.19
24 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AATAATATATATATTTTTTTTA
Found at i:44290 original size:30 final size:30
Alignment explanation
Indices: 44246--44318 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
44236 AAATTATTCG
*
44246 TATAATAA--AATTTAATTTAAACTGTTTT
1 TATAATAATTAATTTAATTTAAACTATTTT
44274 TATAATAATTAATTTAATTTAAACTATTTT
1 TATAATAATTAATTTAATTTAAACTATTTT
44304 TATAATAATTAATTT
1 TATAATAATTAATTT
44319 GTACTATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
28 8 0.19
30 34 0.81
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (30 bp):
TATAATAATTAATTTAATTTAAACTATTTT
Found at i:46976 original size:21 final size:22
Alignment explanation
Indices: 46958--46998 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
46948 TTCATAAATA
46958 TAAAATAAAAATAT-TTAAAGT
1 TAAAATAAAAATATATTAAAGT
* *
46979 TGATATAAAAATATATTAAA
1 TAAAATAAAAATATATTAAA
46999 AATGGTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (22 bp):
TAAAATAAAAATATATTAAAGT
Found at i:47492 original size:83 final size:83
Alignment explanation
Indices: 47349--47516 Score: 282
Period size: 83 Copynumber: 2.0 Consensus size: 83
47339 ACATTGCCAA
* * *
47349 CTTAGTAGCTGCAAAAGTCAACTCTCGCCTTTAGTCAATCAAAACACTAATTTTCATCAAGCTTT
1 CTTAGTAGATGCAAAAGTCAACTCTCGCCTTCAGTCAATCAAAACACTAATCTTCATCAAGCTTT
47414 ATACCTTTCCGACCTCGT
66 ATACCTTTCCGACCTCGT
** *
47432 CTTAGTAGATGCCGAAGTCAACTCTCGCCTTCAGTCAATCAAAACACTAATCTTCGTCAAGCTTT
1 CTTAGTAGATGCAAAAGTCAACTCTCGCCTTCAGTCAATCAAAACACTAATCTTCATCAAGCTTT
47497 ATACCTTTCCGACCTCGT
66 ATACCTTTCCGACCTCGT
47515 CT
1 CT
47517 CACCACAGTC
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (83 bp):
CTTAGTAGATGCAAAAGTCAACTCTCGCCTTCAGTCAATCAAAACACTAATCTTCATCAAGCTTT
ATACCTTTCCGACCTCGT
Found at i:52438 original size:19 final size:19
Alignment explanation
Indices: 52414--52459 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
52404 TTTTCAGATA
52414 TTCTATCGTTGATTAAATC
1 TTCTATCGTTGATTAAATC
*
52433 TTCTATTGTTGATTAAATC
1 TTCTATCGTTGATTAAATC
52452 TTCATATC
1 TTC-TATC
52460 TCAACAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
TTCTATCGTTGATTAAATC
Found at i:53370 original size:38 final size:38
Alignment explanation
Indices: 53313--53483 Score: 184
Period size: 38 Copynumber: 4.5 Consensus size: 38
53303 AGTTTGTAAT
* * *
53313 TCGCTCTTATGAG-TCAGTATTACTCTTACGAG-TCAATA
1 TCGCTCTTACGAGCT-AGTATTGCTCTTACGAGCT-AGTA
* * *
53351 TCGCTCCTACGAGCTAGTATTGGTTTTACGAGCTAGTA
1 TCGCTCTTACGAGCTAGTATTGCTCTTACGAGCTAGTA
* * *
53389 TTGCTTTTACGAGCTAATATTGCTCTTACGAGCTAGTA
1 TCGCTCTTACGAGCTAGTATTGCTCTTACGAGCTAGTA
* * * * *
53427 TCGCTCTTACGAACCAGTATCGCTCTTACGAACCAGTA
1 TCGCTCTTACGAGCTAGTATTGCTCTTACGAGCTAGTA
53465 TCGCTCTTACGAGCTAGTA
1 TCGCTCTTACGAGCTAGTA
53484 CAATAATTTC
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
38 107 0.98
39 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (38 bp):
TCGCTCTTACGAGCTAGTATTGCTCTTACGAGCTAGTA
Found at i:53380 original size:19 final size:19
Alignment explanation
Indices: 53358--53483 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
53348 ATATCGCTCC
*
53358 TACGAGCTAGTATTGGTTT
1 TACGAGCTAGTATTGCTTT
53377 TACGAGCTAGTATTGCTTT
1 TACGAGCTAGTATTGCTTT
* *
53396 TACGAGCTAATATTGCTCT
1 TACGAGCTAGTATTGCTTT
* *
53415 TACGAGCTAGTATCGCTCT
1 TACGAGCTAGTATTGCTTT
* * * *
53434 TACGAACCAGTATCGCTCT
1 TACGAGCTAGTATTGCTTT
* * * *
53453 TACGAACCAGTATCGCTCT
1 TACGAGCTAGTATTGCTTT
53472 TACGAGCTAGTA
1 TACGAGCTAGTA
53484 CAATAATTTC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 98 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (19 bp):
TACGAGCTAGTATTGCTTT
Found at i:53419 original size:57 final size:57
Alignment explanation
Indices: 53313--53483 Score: 182
Period size: 57 Copynumber: 3.0 Consensus size: 57
53303 AGTTTGTAAT
* ** * *
53313 TCGCTCTTATGAGTCAGTATTACTCTTACGAG-TCAATATCGCTCCTACGAGCTAGTA
1 TCGCTCTTACGAACCAGTATTGCTCTTACGAGCT-AATATCGCTCTTACGAGCTAGTA
* * * * * * *
53370 TTGGTTTTACGAGCTAGTATTGCTTTTACGAGCTAATATTGCTCTTACGAGCTAGTA
1 TCGCTCTTACGAACCAGTATTGCTCTTACGAGCTAATATCGCTCTTACGAGCTAGTA
* * * *
53427 TCGCTCTTACGAACCAGTATCGCTCTTACGAACCAGTATCGCTCTTACGAGCTAGTA
1 TCGCTCTTACGAACCAGTATTGCTCTTACGAGCTAATATCGCTCTTACGAGCTAGTA
53484 CAATAATTTC
Statistics
Matches: 92, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
57 91 0.99
58 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (57 bp):
TCGCTCTTACGAACCAGTATTGCTCTTACGAGCTAATATCGCTCTTACGAGCTAGTA
Found at i:53752 original size:108 final size:108
Alignment explanation
Indices: 53607--53824 Score: 312
Period size: 108 Copynumber: 2.0 Consensus size: 108
53597 TGTAGTAACA
* * * * *
53607 GCTCAAGTACAGGGGCTACTCGTAAGTAAGTCATCCAAGATTAGCTCCCGCAC-TGTATAGCTCT
1 GCTCAAGTACAGGGGCTACCCATAAGTAAGTCATCCAAGACTAGCTCCCG-ACTTGTATAGCCCC
* *
53671 TAATGACACGTCCTTTGAGTCCCGATTAGTCACGAAGTACATAT
65 TAATGACACGTCCTTTGAGTCCCGATTAGTCACAAAATACATAT
* * *
53715 GCTCAAGTATAGGGGCTACCCATCAGTAAGTCATCCAAGACTAGCTCCTGACTTGTATAGCCCCT
1 GCTCAAGTACAGGGGCTACCCATAAGTAAGTCATCCAAGACTAGCTCCCGACTTGTATAGCCCCT
* *
53780 GATGACACGTCCTTTGTGTCCCGATTAGTCACAAAATACATAT
66 AATGACACGTCCTTTGAGTCCCGATTAGTCACAAAATACATAT
53823 GC
1 GC
53825 GTCATATACC
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
107 2 0.02
108 95 0.98
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (108 bp):
GCTCAAGTACAGGGGCTACCCATAAGTAAGTCATCCAAGACTAGCTCCCGACTTGTATAGCCCCT
AATGACACGTCCTTTGAGTCCCGATTAGTCACAAAATACATAT
Found at i:67063 original size:16 final size:16
Alignment explanation
Indices: 67042--67072 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67032 GTAATGTGAA
67042 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
67058 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
67073 GGATCAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:69172 original size:21 final size:21
Alignment explanation
Indices: 69146--69189 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
69136 CTCCTTATGG
69146 CTCTTTAGTTCTTGAATCAAA
1 CTCTTTAGTTCTTGAATCAAA
69167 CTCTTTAGTTCTTGAATCAAA
1 CTCTTTAGTTCTTGAATCAAA
69188 CT
1 CT
69190 TGCCTCCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.43
Consensus pattern (21 bp):
CTCTTTAGTTCTTGAATCAAA
Found at i:75505 original size:29 final size:29
Alignment explanation
Indices: 75463--75520 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
75453 TCCCATGATG
75463 GTAAGGATTAAATTGTAAAAGTTGTGAAA
1 GTAAGGATTAAATTGTAAAAGTTGTGAAA
75492 GTAAGGATTAAATTGTAAAAGTTGTGAAA
1 GTAAGGATTAAATTGTAAAAGTTGTGAAA
75521 TTTATAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (29 bp):
GTAAGGATTAAATTGTAAAAGTTGTGAAA
Found at i:82624 original size:24 final size:21
Alignment explanation
Indices: 82579--82633 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
82569 CCTACAACTT
*
82579 CTACTGATACAAGTATTCGAA
1 CTACTGATACAACTATTCGAA
82600 CTACTGATACAACTATGATCAGAA
1 CTACTGATACAACTAT--TC-GAA
*
82624 CTACCGATAC
1 CTACTGATAC
82634 TTCAGTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 15 0.52
23 2 0.07
24 12 0.41
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (21 bp):
CTACTGATACAACTATTCGAA
Found at i:83381 original size:241 final size:240
Alignment explanation
Indices: 82952--83429 Score: 704
Period size: 241 Copynumber: 2.0 Consensus size: 240
82942 CAGCCAAATA
* *
82952 TGTCACCACATGAATATTTCTACATTACACCAAGGACTTTATGTTGCTAACATATCCAAAAGCAC
1 TGTCACCACATGAATATTTCTACACTACACCAAGGACTTTATGCTGCTAACATATCCAAAAGCAC
* * * * * *
83017 CAGCGTACGAGAATGTCTAGTTGTCGCAGTAAATAAAATCTTAATTTTAGTCTAGCAATGTCGCG
66 CAGCGCACGAGAAAGTCAAATTGTCGCAGCAAATAAAATCTTAATTTTAGTCCAGCAATGTCGCG
* * *
83082 ATAACCTGCAACTACCTAATGTACAAACCAGATCTGCGTGAGTGTACACCTGGAAATAACCAACT
131 ACAACCTGCAACTACCTAATGCACAAACCAGATCTGCCTGAGTGTACACCTGGAAATAACCAACT
* *
83147 TCTACAACTGTAAAAGGGAGTTAGATTTGAGAAGGGGAAGAGGCC
196 TCTACAACTGCAAAAGGGAGTTAGATCTGAGAAGGGGAAGAGGCC
* * **
83192 TGTCACTACATGAATATTTCTACACTACACCTAGGACTTTATGCTGCTAACATATCCAAAAGTTC
1 TGTCACCACATGAATATTTCTACACTACACCAAGGACTTTATGCTGCTAACATATCCAAAAGCAC
* * *
83257 CAGGGCAGGAGAAAGTCAAATTGTCGCAGCAAATAAAAATCTTAATTTTCGTCCAGCAATGTCGC
66 CAGCGCACGAGAAAGTCAAATTGTCGCAGCAAAT-AAAATCTTAATTTTAGTCCAGCAATGTCGC
* * * **
83322 GACAACCTGTAACTTCCTAATGCACTAACCAGATCTGCCTGAGTGTACAGTTGGAAATAACCAAC
130 GACAACCTGCAACTACCTAATGCACAAACCAGATCTGCCTGAGTGTACACCTGGAAATAACCAAC
* *
83387 TTGTACAGCTGCAAAAGGGAGTTAGATCTGAGAAGGGGAAGAG
195 TTCTACAACTGCAAAAGGGAGTTAGATCTGAGAAGGGGAAGAG
83430 ACTTGTACCT
Statistics
Matches: 210, Mismatches: 27, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
240 86 0.41
241 124 0.59
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (240 bp):
TGTCACCACATGAATATTTCTACACTACACCAAGGACTTTATGCTGCTAACATATCCAAAAGCAC
CAGCGCACGAGAAAGTCAAATTGTCGCAGCAAATAAAATCTTAATTTTAGTCCAGCAATGTCGCG
ACAACCTGCAACTACCTAATGCACAAACCAGATCTGCCTGAGTGTACACCTGGAAATAACCAACT
TCTACAACTGCAAAAGGGAGTTAGATCTGAGAAGGGGAAGAGGCC
Found at i:91887 original size:14 final size:14
Alignment explanation
Indices: 91860--91904 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
91850 TGTTGAATAG
91860 GAAGAAGAGAAAAGA
1 GAAGAAG-GAAAAGA
91875 GAAGAAGGAAAAGA
1 GAAGAAGGAAAAGA
* *
91889 AAAAAAGGAAAA-A
1 GAAGAAGGAAAAGA
91902 GAA
1 GAA
91905 AATGAAGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 3 0.11
14 17 0.63
15 7 0.26
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
GAAGAAGGAAAAGA
Found at i:92992 original size:2 final size:2
Alignment explanation
Indices: 92985--93024 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
92975 ATAAAAAGAA
92985 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
93025 GATAATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97737 original size:18 final size:18
Alignment explanation
Indices: 97699--97733 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
97689 TGTTGAATAG
*
97699 GAAGAAGAGAAAAGAGAA
1 GAAGAAGAGAAAAGAAAA
97717 GAAGAAG-GAAAAGAAAA
1 GAAGAAGAGAAAAGAAAA
97734 AGAAAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAGAAGAGAAAAGAAAA
Found at i:101200 original size:23 final size:24
Alignment explanation
Indices: 101174--101239 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
101164 ATTTAGATCA
*
101174 TACGAGCCCAG-AAGGTTGGCTCT
1 TACGAGCCCAGAAAGGTTAGCTCT
* *
101197 TACGAACCTAGAAAGGTTAGCTCT
1 TACGAGCCCAGAAAGGTTAGCTCT
101221 TACGAGCCCAGAAAGGTTA
1 TACGAGCCCAGAAAGGTTA
101240 ACTAGTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 9 0.24
24 28 0.76
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (24 bp):
TACGAGCCCAGAAAGGTTAGCTCT
Found at i:106071 original size:36 final size:34
Alignment explanation
Indices: 106017--106144 Score: 98
Period size: 34 Copynumber: 3.8 Consensus size: 34
106007 CTGGTCAGAT
* * * *
106017 ATGACATTCTGTTATGATATATGTGCTTCTTAAAAC
1 ATGACATTCTGATCTGATATATGT--TTATGAAAAC
* *
106053 ATGACATTCTAATCTGATATATGTTTATGAAAAT
1 ATGACATTCTGATCTGATATATGTTTATGAAAAC
* * ** *
106087 ATGATATTTTGATCTGATATATG--TCCGAAAAT
1 ATGACATTCTGATCTGATATATGTTTATGAAAAC
* * *
106119 ATGACCTTATGATTTGATATATGTTT
1 ATGACATTCTGATCTGATATATGTTT
106145 CTGCTAATAC
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
32 26 0.35
34 28 0.37
36 21 0.28
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (34 bp):
ATGACATTCTGATCTGATATATGTTTATGAAAAC
Found at i:106107 original size:34 final size:34
Alignment explanation
Indices: 106048--106144 Score: 99
Period size: 32 Copynumber: 2.9 Consensus size: 34
106038 TGTGCTTCTT
* * * *
106048 AAAACATGACATTCTAATCTGATATATGTTTATG
1 AAAATATGACATTATGATCTGATATATGTTTACG
* * *
106082 AAAATATGATATTTTGATCTGATATATG--TCCG
1 AAAATATGACATTATGATCTGATATATGTTTACG
* *
106114 AAAATATGACCTTATGATTTGATATATGTTT
1 AAAATATGACATTATGATCTGATATATGTTT
106145 CTGCTAATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
32 26 0.51
34 25 0.49
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.41
Consensus pattern (34 bp):
AAAATATGACATTATGATCTGATATATGTTTACG
Found at i:112203 original size:25 final size:25
Alignment explanation
Indices: 112148--112203 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
112138 AAATATCCGT
* *
112148 AGAATAATCAGAGTTTAATTGAGAA
1 AGAATAATCAAAGTTTAACTGAGAA
* *
112173 AAAATAAT-AAAGTTTAACTGGGAGA
1 AGAATAATCAAAGTTTAACTGAGA-A
112198 AGAATA
1 AGAATA
112204 CGAGGCATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.52, C:0.04, G:0.20, T:0.25
Consensus pattern (25 bp):
AGAATAATCAAAGTTTAACTGAGAA
Found at i:126079 original size:3 final size:3
Alignment explanation
Indices: 126071--126110 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
126061 TGACAACAGC
126071 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
126111 TTCCTTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:131370 original size:22 final size:23
Alignment explanation
Indices: 131344--131388 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
131334 ATAAAATTAT
131344 TAAATA-TTAAAATAAT-ATAATA
1 TAAATATTTAAAA-AATAATAATA
131366 TAAATATTTAAAAAATAATAATA
1 TAAATATTTAAAAAATAATAATA
131389 ACATGGGCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAATATTTAAAAAATAATAATA
Found at i:132244 original size:144 final size:139
Alignment explanation
Indices: 131925--132342 Score: 520
Period size: 144 Copynumber: 3.0 Consensus size: 139
131915 TCCTAAGACG
* *
131925 ACACTTTTGAGCCGACACTTTCCTAAGTGTTGGGATAGACTT-TTCAACATACGTTTTAGCCAAC
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTT-AACATAC-CTTTAGCCAAC
* * * *
131989 TCTTTGTATAAGGGTTGAGATATTCATGCCTAACGCAATGA-TTAAAT-AGAGTTGGCTTTGTCC
64 TCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAA-CACTTAAATAAGAGTTGGCTTTGTCC
132052 AACACTATGCCA
128 AACACTATGCCA
* * *
132064 ACACTTTTGGGCCAACACTTTCCTATGTGTTGGGATAGACTTGTTGACATACACTTT-GACCAAC
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTTAACATAC-CTTTAG-CCAAC
* * *
132128 TCTTTGTATAAGGGCCAATTGGGATATGCATGCCTAAGGTAACACTTAAATAAGAATTGGTTTTG
64 TCTTTGTATAAGGG----TTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTG
132193 TCCAACACTATGCCA
125 TCCAACACTATGCCA
* * * * * *
132208 ACACTTTTGGGTCGACACCTTCATAAGTGTTGGGATAGACTTGTCAACATACGCTTTAGTCAATT
1 ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTTAACATAC-CTTTAGCCAACT
* ** *
132273 CTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCCATGCTTAAATAAGAGTCGGCTTTGTCCAA
65 CTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTCCAA
132338 CACTA
130 CACTA
132343 CGTCAACTTT
Statistics
Matches: 240, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
138 1 0.00
139 67 0.28
140 52 0.22
142 1 0.00
143 26 0.11
144 92 0.38
145 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (139 bp):
ACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTTAACATACCTTTAGCCAACTC
TTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTTGGCTTTGTCCAAC
ACTATGCCA
Found at i:136719 original size:19 final size:16
Alignment explanation
Indices: 136691--136729 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 16
136681 CTATGTGAAC
136691 CTTTCTCTCTTTCTTTCT
1 CTTTCTCTC-TTCTTT-T
136709 CTTTCCTCTCTTCTTTT
1 CTTT-CTCTCTTCTTTT
136726 CTTT
1 CTTT
136730 GTTGTTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 10 0.50
19 5 0.25
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
CTTTCTCTCTTCTTTT
Found at i:142029 original size:15 final size:17
Alignment explanation
Indices: 142009--142042 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
141999 GTCAATTACA
142009 TATAAT-TTTAATT-GG
1 TATAATATTTAATTAGG
142024 TATAATATTTAATTAGG
1 TATAATATTTAATTAGG
142041 TA
1 TA
142043 ATTGTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
TATAATATTTAATTAGG
Found at i:142271 original size:37 final size:36
Alignment explanation
Indices: 142210--142521 Score: 214
Period size: 37 Copynumber: 8.6 Consensus size: 36
142200 TAGGTGAGTT
142210 TATCCCAACC-TTTTT-AAGGTTGTCTTAGACGGATC
1 TATCCCAACCTTTTTTAAAGGTTGTCTTAGACGG-TC
* **
142245 TATCTCAACCTTTTTTAAAGGTTGTCTTAGACAAAATC
1 TATCCCAACCTTTTTTAAAGGTTGTCTTAGAC--GGTC
** * * *
142283 TATCCCAATATTTTTTAAAAGTTGCCTTAGATGGGTC
1 TATCCCAACCTTTTTTAAAGGTTGTCTTAGA-CGGTC
* * *
142320 TATCCCATCCTTTTTTAAATGTTGTCTTAAACAAGG-C
1 TATCCCAACCTTTTTTAAAGGTTGTCTTAGAC--GGTC
* *
142357 TTATCCTAACC-TTTTT-AAGGTT-TCCTTAGATGGTTC
1 -TATCCCAACCTTTTTTAAAGGTTGT-CTTAGACGG-TC
* ** *
142393 TATCCCAACATTTTTTAATTGTTGTCTTAGACAAGGTT
1 TATCCCAACCTTTTTTAAAGGTTGTCTTAGAC--GGTC
* * *
142431 TATCCAAACC-TTTTT-AAGGTAGTCTTAGATTGGTC
1 TATCCCAACCTTTTTTAAAGGTTGTCTTAGA-CGGTC
* * *
142466 TATCCCAACC-ATTTT-AA-GTTGTCTTAAACGGGTT
1 TATCCCAACCTTTTTTAAAGGTTGTCTTAGAC-GGTC
*
142500 TATCCCAACCTCTTTTAAAGGT
1 TATCCCAACCTTTTTTAAAGGT
142522 AGACCTTGAC
Statistics
Matches: 213, Mismatches: 43, Indels: 40
0.72 0.15 0.14
Matches are distributed among these distances:
34 24 0.11
35 40 0.19
36 34 0.16
37 65 0.31
38 48 0.23
39 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TATCCCAACCTTTTTTAAAGGTTGTCTTAGACGGTC
Found at i:142416 original size:73 final size:71
Alignment explanation
Indices: 142207--142517 Score: 290
Period size: 73 Copynumber: 4.3 Consensus size: 71
142197 TTTTAGGTGA
* * * *
142207 GTTTATCCCAACCTTTTTAAGGTTGTCTTAGACGGATCTATCTCAACCTTTTTTAAAGGTTGTCT
1 GTTTATCCCAACCTTTTTAAGGTT-TCTTAGATGG-TCTATCCCAACATTTTTTAAATGTTGTCT
* *
142272 TAGACAAA
64 TAAACAAG
* * ** * * * *
142280 ATCTATCCCAATATTTTTTAAAAGTTGCCTTAGATGGGTCTATCCCATCCTTTTTTAAATGTTGT
1 GTTTATCCCAA-CCTTTTT-AAGGTT-TCTTAGAT-GGTCTATCCCAACATTTTTTAAATGTTGT
142345 CTTAAACAAG
62 CTTAAACAAG
* * *
142355 GCTTATCCTAACCTTTTTAAGGTTTCCTTAGATGGTTCTATCCCAACATTTTTTAATTGTTGTCT
1 GTTTATCCCAACCTTTTTAAGGTTT-CTTAGATGG-TCTATCCCAACATTTTTTAAATGTTGTCT
*
142420 TAGACAAG
64 TAAACAAG
* *
142428 GTTTATCCAAACCTTTTTAAGGTAGTCTTAGATTGGTCTATCCCAACCA--TTTT-AA-GTTGTC
1 GTTTATCCCAACCTTTTTAAGGT-TTCTTAGA-TGGTCTATCCCAA-CATTTTTTAAATGTTGTC
*
142489 TTAAAC-GG
63 TTAAACAAG
142497 GTTTATCCCAACCTCTTTTAA
1 GTTTATCCCAACCT-TTTTAA
142518 AGGTAGACCT
Statistics
Matches: 198, Mismatches: 31, Indels: 21
0.79 0.12 0.08
Matches are distributed among these distances:
69 14 0.07
70 17 0.09
71 1 0.01
72 6 0.03
73 91 0.46
74 16 0.08
75 51 0.26
76 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (71 bp):
GTTTATCCCAACCTTTTTAAGGTTTCTTAGATGGTCTATCCCAACATTTTTTAAATGTTGTCTTA
AACAAG
Found at i:144589 original size:23 final size:24
Alignment explanation
Indices: 144569--144615 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
144559 ATCATAAATC
*
144569 AAGTAA-TTGTACAATATTAAAAA
1 AAGTAATTTATACAATATTAAAAA
*
144592 AAGTAATTTATACAATATTTAAAA
1 AAGTAATTTATACAATATTAAAAA
144616 TATGGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (24 bp):
AAGTAATTTATACAATATTAAAAA
Found at i:148701 original size:29 final size:29
Alignment explanation
Indices: 148647--148702 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
148637 TCTAATCATA
* *
148647 TAATAAGTTATTAATATAATCTATTATTT
1 TAATAAATTATTAATATAATCAATTATTT
*
148676 TAATAAATTATTTAATAT-TTCAATTAT
1 TAATAAATTA-TTAATATAATCAATTAT
148703 GTACATCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (29 bp):
TAATAAATTATTAATATAATCAATTATTT
Found at i:149594 original size:20 final size:20
Alignment explanation
Indices: 149569--149609 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
149559 GCCTCAGTGT
*
149569 TTTGCCACAAGACTTGAGCA
1 TTTGCCACAAGACATGAGCA
149589 TTTGCCACAAGACATGAGCA
1 TTTGCCACAAGACATGAGCA
149609 T
1 T
149610 ATCCTAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (20 bp):
TTTGCCACAAGACATGAGCA
Found at i:155629 original size:5 final size:5
Alignment explanation
Indices: 155619--155644 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
155609 ATTCACATTT
155619 TAATA TAATA TAATA TAATA TAATA T
1 TAATA TAATA TAATA TAATA TAATA T
155645 TTATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:160496 original size:40 final size:34
Alignment explanation
Indices: 160467--160537 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 34
160457 TTTTAAAAAT
160467 ATAATAATAAATTTAAATTTATACTAAATATTAAA
1 ATAAT-ATAAATTTAAATTTATACTAAATATTAAA
* *
160502 ATCATATAAATTTAAATTTATACTAAACATTCAAA
1 ATAATATAAATTTAAATTTATACTAAATATT-AAA
160537 A
1 A
160538 CTTTTAGTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 25 0.76
35 8 0.24
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (34 bp):
ATAATATAAATTTAAATTTATACTAAATATTAAA
Found at i:160528 original size:17 final size:17
Alignment explanation
Indices: 160474--160528 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
160464 AATATAATAA
160474 TAAATTTAAATTTATAC
1 TAAATTTAAATTTATAC
* *
160491 TAAATATTAAAATCATA-
1 TAAAT-TTAAATTTATAC
160508 TAAATTTAAATTTATAC
1 TAAATTTAAATTTATAC
160525 TAAA
1 TAAA
160529 CATTCAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 9 0.28
17 14 0.44
18 9 0.28
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTATAC
Found at i:161094 original size:191 final size:192
Alignment explanation
Indices: 160765--161134 Score: 478
Period size: 191 Copynumber: 1.9 Consensus size: 192
160755 TCTCATAAAG
* * * ** *
160765 TACTTGGAGTTTGTAGCTAAAATTTTTACAGTGGATGTACATGATGCATATATTCAACAAAATTT
1 TACTTGGAGTTTGAAGCTAAAATTTCTACAGTGAATGTACAAAATGCAGATATTCAACAAAATTT
* * ** *
160830 CTTAGATTTTTCCCATTGGTTGTCGCTAACTTGGACAAAAGAAGTAATAAAAAACATATGAAAAA
66 ATTAGACTTTTCCCATTGGGAGTCGCTAACTTGGACAAAAGAAATAATAAAAAACATATGAAAAA
*
160895 TTACTTCAAAAGATGACAAAGAAGTAGGG-CTAGTAATATATTACTAGCAAGTCCTCGTAACA
131 TGACTTCAAAAGATGACAAAGAAGT-GGGCCTAGTAATATATTACTAGCAAGTCCTCGTAACA
* * *
160957 TACTTGGAGTTTGAAGCT-AAATTTCTACAGTGAATGTAGAAAATGCAGATCTTCAATAAAATTT
1 TACTTGGAGTTTGAAGCTAAAATTTCTACAGTGAATGTACAAAATGCAGATATTCAACAAAATTT
* * * * *
161021 ATT-GAACTTTTCCCTTTGGGAGTCGTTATCTTGGA-AAAAGAAATCATCAAATAACATATGAAA
66 ATTAG-ACTTTTCCCATTGGGAGTCGCTAACTTGGACAAAAGAAATAAT-AAAAAACATATGAAA
* * *
161084 AATGACTTCAAAAGATGAGAAAGAAGTGGGCCTAGTGATTTATTACTAGCA
129 AATGACTTCAAAAGATGACAAAGAAGTGGGCCTAGTAATATATTACTAGCA
161135 TCTCCTTTGC
Statistics
Matches: 152, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
190 14 0.09
191 121 0.80
192 17 0.11
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (192 bp):
TACTTGGAGTTTGAAGCTAAAATTTCTACAGTGAATGTACAAAATGCAGATATTCAACAAAATTT
ATTAGACTTTTCCCATTGGGAGTCGCTAACTTGGACAAAAGAAATAATAAAAAACATATGAAAAA
TGACTTCAAAAGATGACAAAGAAGTGGGCCTAGTAATATATTACTAGCAAGTCCTCGTAACA
Found at i:162816 original size:7 final size:7
Alignment explanation
Indices: 162804--162842 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
162794 TAATTTAGCC
162804 ATTTTTA
1 ATTTTTA
162811 ATTTTTA
1 ATTTTTA
162818 A-TTTTA
1 ATTTTTA
*
162824 ATATTTTT
1 AT-TTTTA
162832 ATTTTTA
1 ATTTTTA
162839 ATTT
1 ATTT
162843 AATTTTTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 6 0.21
7 16 0.57
8 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:162818 original size:22 final size:20
Alignment explanation
Indices: 162793--162844 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
162783 TTTATTTGTA
*
162793 TTAATTTAGCCATTTTTAATTT
1 TTAATTTA-ACATTTTT-ATTT
*
162815 TTAATTTTAATATTTTTATTT
1 TTAA-TTTAACATTTTTATTT
162836 TTAATTTAA
1 TTAATTTAA
162845 TTTTTCTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 8 0.30
22 10 0.37
23 4 0.15
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TTAATTTAACATTTTTATTT
Found at i:162829 original size:15 final size:15
Alignment explanation
Indices: 162811--162840 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
162801 GCCATTTTTA
162811 ATTTTTAATTTTAAT
1 ATTTTTAATTTTAAT
*
162826 ATTTTTATTTTTAAT
1 ATTTTTAATTTTAAT
162841 TTAATTTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTAATTTTAAT
Found at i:162843 original size:20 final size:21
Alignment explanation
Indices: 162804--162854 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
162794 TAATTTAGCC
162804 ATTTTTAATTTTTAATTTTAAT
1 ATTTTT-ATTTTTAATTTTAAT
162826 ATTTTTATTTTTAA-TTTAAT
1 ATTTTTATTTTTAATTTTAAT
162846 -TTTTCTATT
1 ATTTT-TATT
162855 AAAAATTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.14
20 10 0.36
21 8 0.29
22 6 0.21
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTTATTTTTAATTTTAAT
Found at i:165132 original size:52 final size:52
Alignment explanation
Indices: 165053--165247 Score: 248
Period size: 52 Copynumber: 3.7 Consensus size: 52
165043 AATGAAAAAG
*
165053 GGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTACGGATTATGA
1 GGTCCGATGACTAAGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
* * * *
165105 GGTCCGATGACTAAGTTTCATCGTGAGTATATGAAATCCTTTATGGATT-TAAA
1 GGTCCGATGACTAAGTGTCATCATGAGTATATG-AATCCTTTACGGATTAT-GA
* * * *
165158 GGTCCGATGACTAAGTGTTATCATGAGTATATGGATCCTTTACAGATTAAGA
1 GGTCCGATGACTAAGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
** * *
165210 GGTCCGATGACTCGGTGTCATCGTGAGTATACGAATCC
1 GGTCCGATGACTAAGTGTCATCATGAGTATATGAATCC
165248 CTCGTGGACT
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
52 76 0.63
53 45 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (52 bp):
GGTCCGATGACTAAGTGTCATCATGAGTATATGAATCCTTTACGGATTATGA
Found at i:167335 original size:15 final size:15
Alignment explanation
Indices: 167314--167368 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
167304 ACAAAGGACA
167314 TTGTGAGCATTAATG
1 TTGTGAGCATTAATG
* *
167329 CTGTGAGCACTGAA-G
1 TTGTGAGCA-TTAATG
*
167344 TTGTGAGCATTGATG
1 TTGTGAGCATTAATG
167359 TTGTGAGCAT
1 TTGTGAGCAT
167369 GGGTTGAGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 2 0.06
15 28 0.85
16 3 0.09
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.35
Consensus pattern (15 bp):
TTGTGAGCATTAATG
Found at i:171971 original size:10 final size:11
Alignment explanation
Indices: 171950--171974 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
171940 TTCTTTTGGA
171950 TTTTTCATTTT
1 TTTTTCATTTT
171961 TTTTTCATTTT
1 TTTTTCATTTT
171972 TTT
1 TTT
171975 GGCTATTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCATTTT
Found at i:175365 original size:20 final size:20
Alignment explanation
Indices: 175303--175366 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
175293 AACCCCCTTG
* *
175303 GTATCAATATTTTTATATGA
1 GTATCAATATTTTTAAATAA
175323 GTATCAATATTTTTAGAA-AA
1 GTATCAATATTTTTA-AATAA
*
175343 GTATCAATATTTTTAAATCA
1 GTATCAATATTTTTAAATAA
175363 GTAT
1 GTAT
175367 TGATACCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
19 2 0.05
20 36 0.92
21 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (20 bp):
GTATCAATATTTTTAAATAA
Found at i:185616 original size:21 final size:21
Alignment explanation
Indices: 185592--185633 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
185582 TGCTCCAAGA
185592 CAAAAAGTATCAATACCTTTT
1 CAAAAAGTATCAATACCTTTT
*
185613 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCAATACCTTTT
185634 ATCAGATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (21 bp):
CAAAAAGTATCAATACCTTTT
Found at i:195684 original size:15 final size:15
Alignment explanation
Indices: 195664--195712 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
195654 GGACATTACT
195664 AGCACTAATGTTGCG
1 AGCACTAATGTTGCG
*
195679 AGCACTGAA-GTTGTG
1 AGCACT-AATGTTGCG
*
195694 AGCACTACTGTTGCG
1 AGCACTAATGTTGCG
195709 AGCA
1 AGCA
195713 TGGATGGAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 26 0.90
16 2 0.07
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (15 bp):
AGCACTAATGTTGCG
Found at i:197263 original size:5 final size:5
Alignment explanation
Indices: 197253--197286 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
197243 TTATTATTTG
197253 TTATA TTATA TTATA TTATA TTATA TTATTA TTA
1 TTATA TTATA TTATA TTATA TTATA TTA-TA TTA
197287 CTCATACGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:197367 original size:21 final size:21
Alignment explanation
Indices: 197314--197370 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
197304 ATTCTTGTTC
*
197314 TTATCATTATTTAGTATTATA
1 TTATCTTTATTTAGTATTATA
*
197335 TT-TTTTTAATTTA-TATATATA
1 TTATCTTT-ATTTAGTAT-TATA
197356 TTATCTTTATTTAGT
1 TTATCTTTATTTAGT
197371 CGACTGCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 6 0.21
21 18 0.62
22 5 0.17
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (21 bp):
TTATCTTTATTTAGTATTATA
Found at i:211700 original size:21 final size:21
Alignment explanation
Indices: 211682--211774 Score: 100
Period size: 21 Copynumber: 4.4 Consensus size: 21
211672 AGAGTTCTTT
211682 CGATACAACTATAACTTCTAC
1 CGATACAACTATAACTTCTAC
* * *
211703 CGTTACCATTA-AGACTTCTAC
1 CGATACAACTATA-ACTTCTAC
211724 CGATACAACTATAACTTCTAC
1 CGATACAACTATAACTTCTAC
* * *
211745 CGTTACCATTA-AGACTTCTAC
1 CGATACAACTATA-ACTTCTAC
211766 CGATACAAC
1 CGATACAAC
211775 CAACTCCAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.04
21 54 0.95
22 1 0.02
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (21 bp):
CGATACAACTATAACTTCTAC
Found at i:211728 original size:42 final size:42
Alignment explanation
Indices: 211682--211774 Score: 186
Period size: 42 Copynumber: 2.2 Consensus size: 42
211672 AGAGTTCTTT
211682 CGATACAACTATAACTTCTACCGTTACCATTAAGACTTCTAC
1 CGATACAACTATAACTTCTACCGTTACCATTAAGACTTCTAC
211724 CGATACAACTATAACTTCTACCGTTACCATTAAGACTTCTAC
1 CGATACAACTATAACTTCTACCGTTACCATTAAGACTTCTAC
211766 CGATACAAC
1 CGATACAAC
211775 CAACTCCAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (42 bp):
CGATACAACTATAACTTCTACCGTTACCATTAAGACTTCTAC
Found at i:212533 original size:24 final size:24
Alignment explanation
Indices: 212496--212746 Score: 277
Period size: 24 Copynumber: 10.5 Consensus size: 24
212486 GTCTACTGCA
*
212496 TTTACACTCGTCAGCTAATGTACG
1 TTTACGCTCGTCAGCTAATGTACG
* ** * *
212520 TTTATGCTTATCAGTTAATGTACA
1 TTTACGCTCGTCAGCTAATGTACG
* *
212544 TTTACACTCGTCAACTAATGTACG
1 TTTACGCTCGTCAGCTAATGTACG
* * * *
212568 CTTACGCTTGTCAACTAATGTCCG
1 TTTACGCTCGTCAGCTAATGTACG
* *
212592 TTTACTCTCGTCTGCTAATGTACG
1 TTTACGCTCGTCAGCTAATGTACG
* * *
212616 TTTACGCTCATCAACTAATGTATG
1 TTTACGCTCGTCAGCTAATGTACG
*
212640 TTTATGCTCGTCAGCTAATGTACG
1 TTTACGCTCGTCAGCTAATGTACG
* * *
212664 TTTACGCTCATCAACTAGTGTACG
1 TTTACGCTCGTCAGCTAATGTACG
* *
212688 TTTACGCTCATCAGCTAATATACG
1 TTTACGCTCGTCAGCTAATGTACG
* *
212712 TTTACGTTCGTCAGCTAGTGTACG
1 TTTACGCTCGTCAGCTAATGTACG
212736 TTTACGCTCGT
1 TTTACGCTCGT
212747 TAACTATTCA
Statistics
Matches: 183, Mismatches: 44, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 183 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (24 bp):
TTTACGCTCGTCAGCTAATGTACG
Found at i:220121 original size:13 final size:13
Alignment explanation
Indices: 220098--220128 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
220088 AATTTAATTG
220098 AATTA-AAAATAT
1 AATTATAAAATAT
220110 AATTATAAAATAT
1 AATTATAAAATAT
220123 AATTAT
1 AATTAT
220129 GCTTCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATTATAAAATAT
Found at i:230683 original size:19 final size:21
Alignment explanation
Indices: 230651--230690 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
230641 GCACATTGAG
230651 TTAGTTTTTATTTTTA-GCAT
1 TTAGTTTTTATTTTTATGCAT
*
230671 TTAG-TTTTGTTTTTATGCAT
1 TTAGTTTTTATTTTTATGCAT
230691 ATCATATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.65
Consensus pattern (21 bp):
TTAGTTTTTATTTTTATGCAT
Found at i:230746 original size:17 final size:17
Alignment explanation
Indices: 230726--230775 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
230716 CCTACGTTTC
*
230726 TATTGTCATTGCATTTT
1 TATTGTCATTGCATTTA
* *
230743 TATTGTCACTGCATCTA
1 TATTGTCATTGCATTTA
*
230760 CATTGTCATTGCATTT
1 TATTGTCATTGCATTT
230776 CCATATATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (17 bp):
TATTGTCATTGCATTTA
Found at i:234498 original size:6 final size:6
Alignment explanation
Indices: 234487--234529 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
234477 TATAGCAATA
234487 TTTCTT TTTCTT TTCTCTT TTCTCTT TTTC-T TTTCTT TTTCTT
1 TTTCTT TTTCTT TT-TCTT TT-TCTT TTTCTT TTTCTT TTTCTT
234530 ATTCAACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.14
6 17 0.49
7 13 0.37
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:234514 original size:20 final size:19
Alignment explanation
Indices: 234489--234528 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
234479 TAGCAATATT
234489 TCTTTTTCTTTTCTCTTTTC
1 TCTTTTTCTTTTCT-TTTTC
234509 TCTTTTTCTTTTCTTTTTC
1 TCTTTTTCTTTTCTTTTTC
234528 T
1 T
234529 TATTCAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (19 bp):
TCTTTTTCTTTTCTTTTTC
Found at i:252612 original size:14 final size:14
Alignment explanation
Indices: 252593--252623 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
252583 AGAACAGATT
252593 TTTAATTAAATAAA
1 TTTAATTAAATAAA
*
252607 TTTAATTAATTAAA
1 TTTAATTAAATAAA
252621 TTT
1 TTT
252624 TTTAAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAATTAAATAAA
Found at i:256479 original size:17 final size:17
Alignment explanation
Indices: 256457--256515 Score: 118
Period size: 17 Copynumber: 3.5 Consensus size: 17
256447 CTCAACCATT
256457 GCAACAACGAACCGTTG
1 GCAACAACGAACCGTTG
256474 GCAACAACGAACCGTTG
1 GCAACAACGAACCGTTG
256491 GCAACAACGAACCGTTG
1 GCAACAACGAACCGTTG
256508 GCAACAAC
1 GCAACAAC
256516 CATGCTGCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.37, C:0.31, G:0.22, T:0.10
Consensus pattern (17 bp):
GCAACAACGAACCGTTG
Found at i:261292 original size:23 final size:22
Alignment explanation
Indices: 261204--261328 Score: 96
Period size: 24 Copynumber: 5.5 Consensus size: 22
261194 CAATAAAACA
* *
261204 ATGTCACATGTATAGGGGTTCAC
1 ATGTAACATATATA-GGGTTCAC
* *
261227 ATATAATATATATA--GTTCGA-
1 ATGTAACATATATAGGGTTC-AC
*
261247 ATATAACATATATATAGGGTTCAC
1 ATGTAAC--ATATATAGGGTTCAC
261271 ATGTGATACATATA-AGGGTTCAC
1 ATGT-A-ACATATATAGGGTTCAC
*
261294 ATGTAACATATTTATAGGTTTCAC
1 ATGTAACATA--TATAGGGTTCAC
261318 ATGTAACATAT
1 ATGTAACATAT
261329 TTATAAGGTT
Statistics
Matches: 84, Mismatches: 7, Indels: 23
0.74 0.06 0.20
Matches are distributed among these distances:
20 10 0.12
21 6 0.07
22 9 0.11
23 26 0.31
24 30 0.36
25 1 0.01
26 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (22 bp):
ATGTAACATATATAGGGTTCAC
Found at i:261329 original size:24 final size:24
Alignment explanation
Indices: 261250--261339 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 24
261240 AGTTCGAATA
*
261250 TAACATATATATAGGGTTCACATG
1 TAACATATTTATAGGGTTCACATG
261274 TGATACATA--TA-AGGGTTCACATG
1 T-A-ACATATTTATAGGGTTCACATG
*
261297 TAACATATTTATAGGTTTCACATG
1 TAACATATTTATAGGGTTCACATG
*
261321 TAACATATTTATAAGGTTC
1 TAACATATTTATAGGGTTC
261340 GCATACTGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
21 5 0.09
22 1 0.02
23 15 0.26
24 31 0.53
25 1 0.02
26 5 0.09
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (24 bp):
TAACATATTTATAGGGTTCACATG
Found at i:263396 original size:7 final size:7
Alignment explanation
Indices: 263384--263424 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
263374 TGAAACAAAA
263384 TGATAAG
1 TGATAAG
263391 TGATAAG
1 TGATAAG
263398 TGATAAG
1 TGATAAG
263405 TGATAAG
1 TGATAAG
263412 TGATAAG
1 TGATAAG
263419 TGATAA
1 TGATAA
263425 ATTGAGTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (7 bp):
TGATAAG
Found at i:267757 original size:18 final size:18
Alignment explanation
Indices: 267727--267775 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
267717 TTTTAAAATT
267727 TAATTTAATTATAATAAA
1 TAATTTAATTATAATAAA
267745 TAATATTAA-TATAATAATA
1 TAAT-TTAATTATAATAA-A
* *
267764 TATTTTTATTAT
1 TAATTTAATTAT
267776 TTTATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTTAATTATAATAAA
Found at i:269743 original size:12 final size:12
Alignment explanation
Indices: 269728--269753 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
269718 ATATACTTAA
269728 AAATATTAAAAT
1 AAATATTAAAAT
269740 AAATATTAAAAT
1 AAATATTAAAAT
269752 AA
1 AA
269754 CAAACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATATTAAAAT
Found at i:270490 original size:6 final size:6
Alignment explanation
Indices: 270481--270509 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
270471 AAATTAGTAT
270481 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
270510 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:270491 original size:18 final size:18
Alignment explanation
Indices: 270465--270523 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
270455 TTATTATAAG
*
270465 AAAAA-AAAATTAGTATT
1 AAAAATAAAATTAATATT
* * *
270482 AAAAATAAAAATAAAAAT
1 AAAAATAAAATTAATATT
*
270500 AAAAATAAAATTATTATT
1 AAAAATAAAATTAATATT
*
270518 ATAAAT
1 AAAAAT
270524 CTGGATCGGG
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
17 5 0.16
18 27 0.84
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATAAAATTAATATT
Found at i:278818 original size:17 final size:17
Alignment explanation
Indices: 278789--278843 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 17
278779 ATAGCAAATA
278789 TTTTTTCTTCTTTTCATTTC
1 TTTTTTC-T-TTTTC-TTTC
278809 TTTTTTCTTTTTCTTTC
1 TTTTTTCTTTTTCTTTC
278826 TTTTTCTCATTTTTCTTT
1 TTTTT-TC-TTTTTCTTT
278844 TTCAAGTGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.27
18 7 0.21
19 10 0.30
20 7 0.21
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTCTTTTTCTTTC
Found at i:290287 original size:21 final size:21
Alignment explanation
Indices: 290261--290316 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
290251 GCAAGCTGAA
290261 GAAGAAGAAGAAGAAGACCCT
1 GAAGAAGAAGAAGAAGACCCT
* * *
290282 GAAGAAGAAGAAGAGGATCTT
1 GAAGAAGAAGAAGAAGACCCT
*
290303 GAGGAAGAAGAAGA
1 GAAGAAGAAGAAGA
290317 TCCTGAGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.52, C:0.07, G:0.34, T:0.07
Consensus pattern (21 bp):
GAAGAAGAAGAAGAAGACCCT
Found at i:290309 original size:18 final size:18
Alignment explanation
Indices: 290267--290328 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
290257 TGAAGAAGAA
*
290267 GAAGAAGAAGACCCTGAAG
1 GAAGAAGAAGATCCTG-AG
* *
290286 AAGAAGAAGAGGATCTTGAG
1 --GAAGAAGAAGATCCTGAG
290306 GAAGAAGAAGATCCTGAG
1 GAAGAAGAAGATCCTGAG
290324 GAAGA
1 GAAGA
290329 TCCTATGGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 21 0.58
20 2 0.06
21 13 0.36
ACGTcount: A:0.47, C:0.10, G:0.34, T:0.10
Consensus pattern (18 bp):
GAAGAAGAAGATCCTGAG
Found at i:292497 original size:16 final size:16
Alignment explanation
Indices: 292473--292503 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
292463 TTATATATTT
*
292473 AATTCAAATTAAATTG
1 AATTAAAATTAAATTG
292489 AATTAAAATTAAATT
1 AATTAAAATTAAATT
292504 ATAAAGGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (16 bp):
AATTAAAATTAAATTG
Found at i:293137 original size:12 final size:12
Alignment explanation
Indices: 293120--293144 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
293110 TGTTACCATG
293120 ATGAATGCTATT
1 ATGAATGCTATT
293132 ATGAATGCTATT
1 ATGAATGCTATT
293144 A
1 A
293145 ATCTTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:301197 original size:22 final size:22
Alignment explanation
Indices: 301169--301217 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
301159 TGAAGGGTTT
301169 GTCACGACATAGGGGGAGCTAC
1 GTCACGACATAGGGGGAGCTAC
301191 GTCACGACATAGGGGGAGCTAC
1 GTCACGACATAGGGGGAGCTAC
301213 GTCAC
1 GTCAC
301218 AACAAACCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.24, G:0.35, T:0.14
Consensus pattern (22 bp):
GTCACGACATAGGGGGAGCTAC
Found at i:305064 original size:16 final size:16
Alignment explanation
Indices: 305043--305073 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
305033 TTGTGGATCT
305043 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
305059 CATTTTATCTTTATT
1 CATTTTACCTTTATT
305074 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:306825 original size:106 final size:107
Alignment explanation
Indices: 306684--306897 Score: 344
Period size: 106 Copynumber: 2.0 Consensus size: 107
306674 TGTCTCTGTA
* *
306684 CCTGAAGTTGTCGCTGCAACTTTGAAGGTTCTGGCGCTAGATGGAGAAAGTCAAGCGAAAGTTAT
1 CCTGAAGTTGTCGCTGCAACTTTGAAGGTTCTGGCGCAAGATGGAGAAAGTCAAGCGAAAGCTAT
306749 GGATGAAATTAATGAGGACCACAATCCTTGGGTGA-AGTGGT
66 GGATGAAATTAATGAGGACCACAATCCTTGGGTGATAGTGGT
* *
306790 CCTGAAGTTGTGGCTGCAACTTTTG-AGG-TCTTGGCGCAAGATGGAGAAAGTCAGGCGAAAGCT
1 CCTGAAGTTGTCGCTGCAAC-TTTGAAGGTTC-TGGCGCAAGATGGAGAAAGTCAAGCGAAAGCT
*
306853 GTGGATGAAATTAATGAGGACCACAATCCTTGGGTGATAGTGGT
64 ATGGATGAAATTAATGAGGACCACAATCCTTGGGTGATAGTGGT
306897 C
1 C
306898 TATACTGGGC
Statistics
Matches: 100, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
105 2 0.02
106 87 0.87
107 11 0.11
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.25
Consensus pattern (107 bp):
CCTGAAGTTGTCGCTGCAACTTTGAAGGTTCTGGCGCAAGATGGAGAAAGTCAAGCGAAAGCTAT
GGATGAAATTAATGAGGACCACAATCCTTGGGTGATAGTGGT
Found at i:308723 original size:37 final size:37
Alignment explanation
Indices: 308645--308736 Score: 94
Period size: 37 Copynumber: 2.5 Consensus size: 37
308635 CATCCAAATT
* * *
308645 TGCACCTAAAACTGTCACCGCATGAGCACTTCCGAAT
1 TGCACCTAAAACTGTCACCGCAGGAACACTTCCGAAA
* * * * *
308682 TGCACCTAAAATTGTCATCGCAGGAATATTTTCGAAA
1 TGCACCTAAAACTGTCACCGCAGGAACACTTCCGAAA
* *
308719 TGCACCCAAGACTGTCAC
1 TGCACCTAAAACTGTCAC
308737 TGAATAAATA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (37 bp):
TGCACCTAAAACTGTCACCGCAGGAACACTTCCGAAA
Found at i:309658 original size:16 final size:16
Alignment explanation
Indices: 309637--309667 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
309627 TTGTGGATCC
309637 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
309653 CATTTTATCTTTATT
1 CATTTTACCTTTATT
309668 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:311429 original size:55 final size:55
Alignment explanation
Indices: 311363--311472 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
311353 TTGAGGGTAG
311363 GTAGACACATTACGATGGAAGTTGTGAAATAAAAGAGGGAAATCATGATGAAGTA
1 GTAGACACATTACGATGGAAGTTGTGAAATAAAAGAGGGAAATCATGATGAAGTA
311418 GTAGACACATTACGATGGAAGTTGTGAAATAAAAGAGGGAAATCATGATGAAGTA
1 GTAGACACATTACGATGGAAGTTGTGAAATAAAAGAGGGAAATCATGATGAAGTA
311473 TGACTTTTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.44, C:0.07, G:0.27, T:0.22
Consensus pattern (55 bp):
GTAGACACATTACGATGGAAGTTGTGAAATAAAAGAGGGAAATCATGATGAAGTA
Found at i:312825 original size:191 final size:192
Alignment explanation
Indices: 312479--312855 Score: 659
Period size: 191 Copynumber: 2.0 Consensus size: 192
312469 ATTGAGGTAG
* * *
312479 TGACTCACTAAATCAATGAAAGATCAAGAGATCCAACTAGGGTAGTGACTGGTTGATTGCAGGAA
1 TGACTCACTAAATCAACGAAAGATCAAGAGATCCAACTAGGGTAGTGACTAGTTAATTGCAGGAA
*
312544 AATCCTCAAAACCCTACAATTGAGGAAATCATATGGAAATGACCTAATCTCCCCAAAGACGTTTA
66 AATCCTCAAAACCCTACAATTGAGGAAATCATATAGAAATGACCTAATCTCCCCAAAGACGTTTA
* *
312609 TAAGAATTTCTACAACTTATATTTACTTTGTTTTATTTTATTTTGATCTTTTTATTCTCTAA
131 TAAGAATTTCTACAACTCATATTTACTTTGTTTTATTTTATTTTGATATTTTTATTCTCTAA
* *
312671 TGACTCACTAAATCAACGAAA-ATCAAGAGATCCAACTGGGGTAGTGACTAGTTAATTGGAGGAA
1 TGACTCACTAAATCAACGAAAGATCAAGAGATCCAACTAGGGTAGTGACTAGTTAATTGCAGGAA
312735 AATCCTCAAAACCCTACAATTGAGGAAATCATATAGAAATGACCTAATCTCCCCAAAGACGTTTA
66 AATCCTCAAAACCCTACAATTGAGGAAATCATATAGAAATGACCTAATCTCCCCAAAGACGTTTA
312800 TAAGAAATTT-TACAACTCATATTTACTTTGTTTTATTTTATTTTGATATTTTTATT
131 TAAG-AATTTCTACAACTCATATTTACTTTGTTTTATTTTATTTTGATATTTTTATT
312856 TTCATGCCTT
Statistics
Matches: 176, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
191 151 0.86
192 25 0.14
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (192 bp):
TGACTCACTAAATCAACGAAAGATCAAGAGATCCAACTAGGGTAGTGACTAGTTAATTGCAGGAA
AATCCTCAAAACCCTACAATTGAGGAAATCATATAGAAATGACCTAATCTCCCCAAAGACGTTTA
TAAGAATTTCTACAACTCATATTTACTTTGTTTTATTTTATTTTGATATTTTTATTCTCTAA
Found at i:319053 original size:21 final size:21
Alignment explanation
Indices: 319027--319079 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
319017 CAGAGCCCAA
319027 GTCGTGTGGCTCAAGAACATG
1 GTCGTGTGGCTCAAGAACATG
319048 GTCGTGTGGCTCAAGAACATG
1 GTCGTGTGGCTCAAGAACATG
319069 GTCGTGTGGCT
1 GTCGTGTGGCT
319080 AAACCATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.26
Consensus pattern (21 bp):
GTCGTGTGGCTCAAGAACATG
Found at i:319162 original size:55 final size:56
Alignment explanation
Indices: 319071--319175 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 56
319061 AGAACATGGT
* * *
319071 CGTGTGGCTAAACCATTTACAGTTTGAAATAAGGGTCACACGATTGTGTCATAAAC
1 CGTGTGGCTAAACCATGTACAGCTCGAAATAAGGGTCACACGATTGTGTCATAAAC
* * * *
319127 CGTGT-GCTAGACCATGTACAGCTCGAACTAGGGGTCACACGGTTGTGTC
1 CGTGTGGCTAAACCATGTACAGCTCGAAATAAGGGTCACACGATTGTGTC
319176 GCTAGGCCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
55 37 0.88
56 5 0.12
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (56 bp):
CGTGTGGCTAAACCATGTACAGCTCGAAATAAGGGTCACACGATTGTGTCATAAAC
Found at i:327835 original size:18 final size:17
Alignment explanation
Indices: 327810--327843 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
327800 TATTCTTTTT
327810 CTAACTTTTATTGATTA
1 CTAACTTTTATTGATTA
*
327827 CTAATCTTTTGTTGATT
1 CTAA-CTTTTATTGATT
327844 TTCTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTAACTTTTATTGATTA
Found at i:335252 original size:17 final size:17
Alignment explanation
Indices: 335224--335278 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
335214 ATTAAAGCAA
*
335224 AAGAAGAGAAAAGAAATG
1 AAGAA-AGAAAAGAAAAG
335242 AAGAAAGAAAAGAAAAG
1 AAGAAAGAAAAGAAAAG
*
335259 AAGGAAGAAGAAGAAGAAG
1 AAGAAAGAA-AAGAA-AAG
335278 A
1 A
335279 TGTTGCCCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 19 0.58
18 10 0.30
19 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (17 bp):
AAGAAAGAAAAGAAAAG
Found at i:343818 original size:18 final size:17
Alignment explanation
Indices: 343756--343819 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 17
343746 AATATATTAT
343756 AAAA-TAATATCAAGTC
1 AAAATTAATATCAAGTC
*
343772 AAAATTAACTAATC-ATTC
1 AAAATTAA-T-ATCAAGTC
**
343790 AAAAAAAAATATCAAGTC
1 -AAAATTAATATCAAGTC
343808 AAAATTTAATAT
1 AAAA-TTAATAT
343820 AATATTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
16 4 0.11
17 10 0.28
18 13 0.36
19 9 0.25
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAATTAATATCAAGTC
Found at i:353791 original size:25 final size:25
Alignment explanation
Indices: 353763--353813 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
353753 AGTTAGGAAC
353763 ACCACATCTCGAGTACTCGAAAGTA
1 ACCACATCTCGAGTACTCGAAAGTA
353788 ACCACATCTCGAGTACTCGAAAGTA
1 ACCACATCTCGAGTACTCGAAAGTA
353813 A
1 A
353814 GGAACATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.20
Consensus pattern (25 bp):
ACCACATCTCGAGTACTCGAAAGTA
Found at i:354254 original size:29 final size:28
Alignment explanation
Indices: 354206--354265 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
354196 GGGAAAAATT
354206 AAATAAATAGAGGACTTAATAAAAAAAAC
1 AAATAAATAGAGGACTTAAT-AAAAAAAC
*
354235 AAATAAATGAGATGG-C-TAATTAAAAAAC
1 AAATAAAT-AGA-GGACTTAATAAAAAAAC
354263 AAA
1 AAA
354266 AAGAAACTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 10 0.36
29 12 0.43
30 4 0.14
31 2 0.07
ACGTcount: A:0.63, C:0.07, G:0.12, T:0.18
Consensus pattern (28 bp):
AAATAAATAGAGGACTTAATAAAAAAAC
Found at i:362277 original size:31 final size:31
Alignment explanation
Indices: 362221--362295 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
362211 GTAAGAAAAA
* * * *
362221 AATAAATTATTTTATATTTTATTTATTATTAT
1 AATAAATTA-TTTAAATATTATTTATCATCAT
*
362253 ATTAAATTATTTAAATATTATTTATCATCAT
1 AATAAATTATTTAAATATTATTTATCATCAT
362284 AATAAATTATTT
1 AATAAATTATTT
362296 TAGATATCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 29 0.78
32 8 0.22
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
AATAAATTATTTAAATATTATTTATCATCAT
Found at i:363030 original size:31 final size:29
Alignment explanation
Indices: 362985--363044 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
362975 AGCACATATT
*
362985 TTTTTTAAAAAAAAATTAAAATTTTAAAA
1 TTTTTTAAAAAAAAAATAAAATTTTAAAA
*
363014 TTTTTTAAAAGTAAAAAATATAATTTTAAAA
1 TTTTTTAAAA--AAAAAATAAAATTTTAAAA
363045 AAATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
31 17 0.63
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTTTTAAAAAAAAAATAAAATTTTAAAA
Found at i:363962 original size:20 final size:21
Alignment explanation
Indices: 363939--363993 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
363929 TTTTAAAGAG
363939 TTTTTATTTTTTT-TCATAAT
1 TTTTTATTTTTTTATCATAAT
*
363959 TTTTTATTTCTTTTAATTATAAT
1 TTTTTATTT-TTTT-ATCATAAT
*
363982 TTTTTAATTTTT
1 TTTTTATTTTTT
363994 ATGTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 9 0.30
21 4 0.13
22 3 0.10
23 14 0.47
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTATTTTTTTATCATAAT
Found at i:369548 original size:68 final size:68
Alignment explanation
Indices: 369461--369684 Score: 324
Period size: 68 Copynumber: 3.3 Consensus size: 68
369451 TAGTCCAATT
* * * * *
369461 ATGGTCTTATCATTAGAATGCCATAGCCCATCTATGGTCTTACATATATACAATGCCATGTTCTA
1 ATGGTCTTATCATTAGAATGCCATAGCCTAACTATGGTCTTACATATATACAATGTCATGGTCCA
369526 ACC
66 ACC
* * * *
369529 ATGATCTTATCATTAGAATGCCATAGCCTAGCTATTGTCTTACATATATACATTGTCATGGTCCA
1 ATGGTCTTATCATTAGAATGCCATAGCCTAACTATGGTCTTACATATATACAATGTCATGGTCCA
369594 ACC
66 ACC
* * *
369597 ATGGTCTTATCATCAGAATGCCATAGCCTAACTATGGTATTACATATATACACTGTCATGGTCCA
1 ATGGTCTTATCATTAGAATGCCATAGCCTAACTATGGTCTTACATATATACAATGTCATGGTCCA
369662 ACC
66 ACC
*
369665 ATGGTCTTAT-GTTAGAATGC
1 ATGGTCTTATCATTAGAATGC
369685 AACCTATCTC
Statistics
Matches: 140, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
67 8 0.06
68 132 0.94
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (68 bp):
ATGGTCTTATCATTAGAATGCCATAGCCTAACTATGGTCTTACATATATACAATGTCATGGTCCA
ACC
Found at i:369570 original size:33 final size:33
Alignment explanation
Indices: 369427--369634 Score: 138
Period size: 33 Copynumber: 6.2 Consensus size: 33
369417 GTAACCCGGT
* ** * *
369427 TATGGTCTTAACACCAGAATGACATAGTCC-AAT
1 TATGGTCTTATCATTAGAATGCCATAG-CCTAAC
* *
369460 TATGGTCTTATCATTAGAATGCCATAGCCCATC
1 TATGGTCTTATCATTAGAATGCCATAGCCTAAC
* *
369493 TATGGTCTTA-CATATATACAATGCCAT-GTTCTAAC
1 TATGGTCTTATC--AT-TAGAATGCCATAG-CCTAAC
* * *
369528 CATGATCTTATCATTAGAATGCCATAGCCTAGC
1 TATGGTCTTATCATTAGAATGCCATAGCCTAAC
* * * *
369561 TATTGTCTTA-CATATATACATTGTCATGGTCC-AAC
1 TATGGTCTTATCAT-TAGA-A-TGCCATAG-CCTAAC
* *
369596 CATGGTCTTATCATCAGAATGCCATAGCCTAAC
1 TATGGTCTTATCATTAGAATGCCATAGCCTAAC
369629 TATGGT
1 TATGGT
369635 ATTACATATA
Statistics
Matches: 133, Mismatches: 29, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
32 8 0.06
33 72 0.54
34 8 0.06
35 39 0.29
36 6 0.05
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (33 bp):
TATGGTCTTATCATTAGAATGCCATAGCCTAAC
Found at i:372157 original size:29 final size:30
Alignment explanation
Indices: 372125--372183 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
372115 TATGGTTTAA
* *
372125 TGTGCAATTGTATGCATG-AATTTTGATTT
1 TGTGCAATTGTATACACGAAATTTTGATTT
* *
372154 TGTGTAATTTTATACACGAAATTTTGATTT
1 TGTGCAATTGTATACACGAAATTTTGATTT
372184 GATCAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACACGAAATTTTGATTT
Found at i:372399 original size:29 final size:30
Alignment explanation
Indices: 372358--372414 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
372348 TTTGAACCAC
* *
372358 AATTAGAGTTTCACGTATATAATTGTACCG
1 AATTAAAGTTTCACGTATACAATTGTACCG
* *
372388 AATTAAAG-TTCATGTCTACAATTGTAC
1 AATTAAAGTTTCACGTATACAATTGTAC
372415 ATTAAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (30 bp):
AATTAAAGTTTCACGTATACAATTGTACCG
Found at i:372974 original size:13 final size:13
Alignment explanation
Indices: 372956--372980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
372946 AATATAATTT
372956 ATTTTATTTTAAA
1 ATTTTATTTTAAA
372969 ATTTTATTTTAA
1 ATTTTATTTTAA
372981 GTCCCAAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTATTTTAAA
Found at i:375759 original size:3 final size:3
Alignment explanation
Indices: 375753--375816 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
375743 GAAGAAAAAG
375753 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
375801 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
375817 CATGAAAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:382106 original size:16 final size:16
Alignment explanation
Indices: 382087--382117 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
382077 GCAGGTAACA
*
382087 AAGCTAGTGGGATGCG
1 AAGCTAGCGGGATGCG
382103 AAGCTAGCGGGATGC
1 AAGCTAGCGGGATGC
382118 AATGCAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.42, T:0.16
Consensus pattern (16 bp):
AAGCTAGCGGGATGCG
Found at i:383109 original size:66 final size:66
Alignment explanation
Indices: 382964--383119 Score: 159
Period size: 66 Copynumber: 2.4 Consensus size: 66
382954 TCCAGTAATC
* ** * * * *
382964 ACAACGATCGACTTCTGTATTAAAAGAATTTGTGTTTGGGAAAGTAACGGAAGTGGTGCCCTGAC
1 ACAACGGTCGACTTCTCCACTAAAAGAATTTGTATTTGGGAAAGTAACGAAAGTGGCGCCCTGAC
383029 A
66 A
* * * * **
383030 ACAATGGTCGACTTTTCCACTAAAAGAATTTGTATTTGGGAGAGTAATGAAAGTGGCGCTTTGAC
1 ACAACGGTCGACTTCTCCACTAAAAGAATTTGTATTTGGGAAAGTAACGAAAGTGGCGCCCTGAC
*
383095 C
66 A
* * *
383096 ATAACGGTTGACTTCTCCATTAAA
1 ACAACGGTCGACTTCTCCACTAAA
383120 TATACTTTTG
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
66 71 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (66 bp):
ACAACGGTCGACTTCTCCACTAAAAGAATTTGTATTTGGGAAAGTAACGAAAGTGGCGCCCTGAC
A
Found at i:387970 original size:23 final size:24
Alignment explanation
Indices: 387944--387994 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
387934 TAAAATCACT
*
387944 AAAAAATAGA-TTTTTATTTT-TTA
1 AAAAAATAAACTTTTT-TTTTATTA
*
387967 AAAAACTAAACTTTTTTTTTATTA
1 AAAAAATAAACTTTTTTTTTATTA
387991 AAAA
1 AAAA
387995 TCACTGCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAAAATAAACTTTTTTTTTATTA
Found at i:388086 original size:147 final size:146
Alignment explanation
Indices: 387844--388370 Score: 769
Period size: 147 Copynumber: 3.6 Consensus size: 146
387834 TTATTAAAAC
* * * *
387844 AAAATCACTACTTTACTTCAAAATCAAAACTTTTATTTCGAAATAGTTAAAAGAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAAAAGTTAAAAAAAATCAAAACTT
387909 TGTTTAAAAATTTAAACTTTTTTTTTAAAATCACTAAAAAATAGATTTTTATTTTTTAAAAAACT
66 TGTTTAAAAATTTAAACTTTTTTTTTAAAATCACTAAAAAATAGATTTTTATTTTTTAAAAAACT
387974 AAACTTTTTTTTTATTA
131 AAA-TTTTTTTTTATTA
* * *
387991 AAAATCACTGCTTTACTTAAAAATCTAAACTTTTATTTCGAAAAAGTTAAAAGAAATCAAAATTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAAAAGTTAAAAAAAATCAAAACTT
*
388056 TGTTTAAAAATTTAAACTTTTTTTTTAAAATCACTAAAAAATAGATTTTTATTTTTTAAAAATCT
66 TGTTTAAAAATTTAAACTTTTTTTTTAAAATCACTAAAAAATAGATTTTTATTTTTTAAAAAACT
388121 AAATTTTATTATTATTATTA
131 AAA-TTT-TT-TT-TTATTA
388141 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAAAAGTTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAAAAGTTAAAAAAAATCAAAACTT
* * * * *
388206 TATTTAAAAATTTAAACCTTTTTCTTTAAAATAACTAAAAAACATATTTTTA-TTTTT-AAAAA-
66 TGTTTAAAAATTTAAA-CTTTTTTTTTAAAATCACTAAAAAATAGATTTTTATTTTTTAAAAAAC
**
388268 TATAA--TTTTTTTAAAA
130 TA-AATTTTTTTTTATTA
* *
388284 GAAAATCACTA-TTTAACTTAAAAATCTAAACTTTTATATCGAAAGAGTTAAAAAAAATCAAAAC
1 -AAAATCACTACTTT-ACTTAAAAATCTAAACTTTTATTTCGAAAAAGTTAAAAAAAATCAAAAC
*
388348 TTCGTTTAAAAATTTAAACTTTT
64 TTTGTTTAAAAATTTAAACTTTT
388371 CTAAAAAAAT
Statistics
Matches: 351, Mismatches: 22, Indels: 18
0.90 0.06 0.05
Matches are distributed among these distances:
143 12 0.03
144 75 0.21
145 2 0.01
146 1 0.00
147 130 0.37
148 4 0.01
149 8 0.02
150 88 0.25
151 31 0.09
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (146 bp):
AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAAAAGTTAAAAAAAATCAAAACTT
TGTTTAAAAATTTAAACTTTTTTTTTAAAATCACTAAAAAATAGATTTTTATTTTTTAAAAAACT
AAATTTTTTTTTATTA
Found at i:388198 original size:52 final size:51
Alignment explanation
Indices: 387990--388227 Score: 159
Period size: 52 Copynumber: 4.7 Consensus size: 51
387980 TTTTTTTATT
* * *
387990 AAAAATCACTGCTTTACTTAAAAATCTAAACTTTTATTTCGAAAAAGTTAAA
1 AAAAATCAATACTTTATTTAAAAATCTAAACTTTTATTTCGAAAAA-TTAAA
* * * * * ** *
388042 AGAAATCAAAATTTTGTTTAAAAATTTAAACTTTT-TTTTTAAAATCACTAAA
1 AAAAATCAATACTTTATTTAAAAATCTAAACTTTTATTTCGAAAA--ATTAAA
*** ** **
388094 AAATAGATTTTTA-TTT-TTTAAAAATCTAAA-TTTTA-TT---ATTATTATT
1 AAA-A-ATCAATACTTTATTTAAAAATCTAAACTTTTATTTCGAAAAATTAAA
* *
388140 AAAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAAAAGTTAAA
1 AAAAATCAATACTTTATTTAAAAATCTAAACTTTTATTTCGAAAAA-TTAAA
* *
388192 AAAAATCAAAACTTTATTTAAAAATTTAAACCTTTT
1 AAAAATCAATACTTTATTTAAAAATCTAAA-CTTTT
388228 TCTTTAAAAT
Statistics
Matches: 138, Mismatches: 34, Indels: 27
0.69 0.17 0.14
Matches are distributed among these distances:
44 4 0.03
45 4 0.03
46 19 0.14
47 5 0.04
48 3 0.02
51 15 0.11
52 75 0.54
53 10 0.07
54 3 0.02
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (51 bp):
AAAAATCAATACTTTATTTAAAAATCTAAACTTTTATTTCGAAAAATTAAA
Found at i:388902 original size:3 final size:3
Alignment explanation
Indices: 388894--388950 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
388884 AAACCCTAAA
*
388894 AAC AAC AAC AAC AAT AAC AAC AAC AAAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC -AAC AAC AAC AAC AAC AAC AAC
388940 AAC AAC AAC AA
1 AAC AAC AAC AA
388951 TAATTTGGGC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.68, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:400241 original size:25 final size:25
Alignment explanation
Indices: 400213--400260 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
400203 TTTTTAAATA
*
400213 AAGTTTTGATTTCTT-AAAATAAAGG
1 AAGTTTAGATTT-TTAAAAATAAAGG
400238 AAGTTTAGATTTTTAAAAATAAA
1 AAGTTTAGATTTTTAAAAATAAA
400261 AATATGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (25 bp):
AAGTTTAGATTTTTAAAAATAAAGG
Found at i:400290 original size:95 final size:97
Alignment explanation
Indices: 400127--400323 Score: 256
Period size: 94 Copynumber: 2.0 Consensus size: 97
400117 GTAATTTTTT
* *
400127 TTAAAAGAAAGAAAATTTAGATTTTTTTAAAAAATTAAAATCTGTTTTTTAGTCATTCTAAAGGA
1 TTAAAAGAAAGAAAATTTAGA-TTTTTTAAAAAATAAAAATATGTTTTTTAGTCATTCTAAA-GA
* * *
400192 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTC
64 AAAAATTTAAATTTCTAAACAAAGTTTTGATTTC
* * * *
400226 TTAAAATAAAGGAAGTTTAGA-TTTTT-AAAAATAAAAATATG-TTTTTAGTCATTTTAAAGAAA
1 TTAAAAGAAAGAAAATTTAGATTTTTTAAAAAATAAAAATATGTTTTTTAGTCATTCTAAAGAAA
* *
400288 AAATTTAAATTTCTAAACAAAGTTTTTATTTT
66 AAATTTAAATTTCTAAACAAAGTTTTGATTTC
400320 TTAA
1 TTAA
400324 CTATTTTGAA
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
94 35 0.40
95 16 0.18
96 13 0.15
97 5 0.06
99 18 0.21
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (97 bp):
TTAAAAGAAAGAAAATTTAGATTTTTTAAAAAATAAAAATATGTTTTTTAGTCATTCTAAAGAAA
AAATTTAAATTTCTAAACAAAGTTTTGATTTC
Found at i:400498 original size:242 final size:242
Alignment explanation
Indices: 399990--400459 Score: 611
Period size: 242 Copynumber: 2.0 Consensus size: 242
399980 ATTTTTTTTA
* * *
399990 AAAAAAAGTTTAGGT-TTTAAAAATAAAAATTTGTTTTTTATTCATTTTAAAGAAAAAAGTTTAA
1 AAAAAAAGTTTAGATCTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGAAAAAAGTTTAA
* *
400054 ATTTTTAAACAAAGTTTTGATTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAATAAAAGT
66 ATTTCTAAACAAAGTTTTGATTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAGT
* *
400119 AATTTTTTTTAAAAGAAAGAAAATTTAGATTTTTTTAAAAAATTAAAATCTGTTTTTTAGTCATT
131 AATTTTTTTTAAAAGAAAGAAAATTTAGATATTTTTAAAAAA-TAAAATATGTTTTTTAGTCATT
* *
400184 CTAAAGGAAAAAGTTTAAATTTTTAAATAAAGTTTTGATTTCTTAAAAT
195 CTAAA-GAAAAAGTTTAAATTTTTAAACAAAATTTTGATTTCTTAAAAT
** *
400233 AAAGGAAGTTTAGATTTTTAAAAATAAAAATATG-TTTTTAGTCATTTTAAAGAAAAAA-TTTAA
1 AAAAAAAGTTTAGATCTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGAAAAAAGTTTAA
* * *
400296 ATTTCTAAACAAAGTTTTTATTTTTTAACTATTTTGAAATAAAAATTTTGATTTTTAAGAACAGT
66 ATTTCTAAACAAAGTTTTGATTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAG-
** *** *
400361 TGTGTTTTTTTTTTTA-AAAGAAAGTTTA-A-ATTTTTAAAAGAA-AAAATAT-TTTTTTAGTCA
130 T-AATTTTTTTTAAAAGAAAGAAAATTTAGATATTTTTAAAA-AATAAAATATGTTTTTTAGTCA
* *
400421 TT-T-AA-AAAGATTTTAAATTTTTAAACAAAATTTTGATTT
193 TTCTAAAGAAAAAGTTTAAATTTTTAAACAAAATTTTGATTT
400460 TTTTAACTAT
Statistics
Matches: 201, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
235 30 0.15
237 2 0.01
238 1 0.00
239 13 0.06
240 6 0.03
241 9 0.04
242 67 0.33
243 47 0.23
244 26 0.13
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (242 bp):
AAAAAAAGTTTAGATCTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGAAAAAAGTTTAA
ATTTCTAAACAAAGTTTTGATTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAGT
AATTTTTTTTAAAAGAAAGAAAATTTAGATATTTTTAAAAAATAAAATATGTTTTTTAGTCATTC
TAAAGAAAAAGTTTAAATTTTTAAACAAAATTTTGATTTCTTAAAAT
Done.