Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000903.1 Hibiscus syriacus cultivar Beakdansim tig00001777_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: 256859
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:923 original size:62 final size:68
Alignment explanation
Indices: 794--923 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 68
784 ATTTAAATAA
*
794 TAATTATTAATTTACTAATAGATAATAAGAAATATTTAAATTATTAATTAATATATACTATTAAT
1 TAATTATTAATTTACTAATAAATAATAAGAAATATTTAAATTATTAATTAATATATA-TATTAAT
859 TTAT
65 TTAT
*
863 TAATATATTAATTTTCT-ATAAATAAT-A-AAA-A-TTAAATTATTAATTAATA-AT-TATTAAT
1 TAAT-TATTAATTTACTAATAAATAATAAGAAATATTTAAATTATTAATTAATATATATATTAAT
921 TTA
65 TTA
924 CTACACCAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
62 10 0.17
64 2 0.03
65 18 0.31
66 1 0.02
67 3 0.05
68 1 0.02
69 12 0.21
70 11 0.19
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (68 bp):
TAATTATTAATTTACTAATAAATAATAAGAAATATTTAAATTATTAATTAATATATATATTAATT
TAT
Found at i:1983 original size:142 final size:142
Alignment explanation
Indices: 1748--2046 Score: 360
Period size: 142 Copynumber: 2.1 Consensus size: 142
1738 GATCAGCAAA
*
1748 CCTTCCAAGCAATAGATCCGGGTTCGACTCCGGCAAACACAATTCCTTTTAAATTACTGATAGAA
1 CCTTCCAAGCAATAGATCCGGGTTCGACTCCGGCAAACACAATTCCTTTTAAATTACTGAGAGAA
*
1813 TTAAAATTAAACACAAATAGTAGTGTTAGCTCAGAA-AACCAAAACA-AGCGTTTGTAGTCCAAC
66 TTAAAATTAAACACAAATAGTAGAGTTAGCTCAGAATAACC--AACAGAGCGTTTGTAGTCCAAC
*
1876 GGTTAGGATAATTG
129 GGTTAGGAAAATTG
* * *
1890 CCTTCCAAGCAATAGA-CCGGGTTCGACTCCCGGCAAACGCAGTT-CTTTTAAATTACTGAGCGA
1 CCTTCCAAGCAATAGATCCGGGTTCGACT-CCGGCAAACACAATTCCTTTTAAATTACTGAGAGA
* * * * * *
1953 A-TACACTTAAAACAACAAA-GGTTAGAGTTAGCTCAGAATGACCAACAGAGCGTTTGTGGTTCA
65 ATTAAAATT-AAAC-ACAAATAG-TAGAGTTAGCTCAGAATAACCAACAGAGCGTTTGTAGTCCA
*
2016 ATGGTTAGGAAAATTG
127 ACGGTTAGGAAAATTG
*
2032 TCTT-CAATGCAATAG
1 CCTTCCAA-GCAATAG
2047 GGTTGTGACT
Statistics
Matches: 136, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
140 5 0.04
141 42 0.31
142 86 0.63
143 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (142 bp):
CCTTCCAAGCAATAGATCCGGGTTCGACTCCGGCAAACACAATTCCTTTTAAATTACTGAGAGAA
TTAAAATTAAACACAAATAGTAGAGTTAGCTCAGAATAACCAACAGAGCGTTTGTAGTCCAACGG
TTAGGAAAATTG
Found at i:4658 original size:74 final size:74
Alignment explanation
Indices: 4551--5047 Score: 555
Period size: 74 Copynumber: 6.7 Consensus size: 74
4541 AAATAGGCTA
* ** * * *
4551 GTAAACGGTAAAATAAAATAGGTGCTATATATTATATTAAAATATCTACCGATTTTTTTTAAGGT
1 GTAAACGGTAAAA-AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTTAAGGT
* *
4616 TACTAATGAT
65 TGCTAATAAT
* **
4626 GTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACTGGGGTTTTTTAAGGTT
1 GTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTTAAGGTT
4691 GCTAATAAT
66 GCTAATAAT
* * * * * * *
4700 GTAAACAGTAAAAAAAAAATAGACGCTACCTATTATATTAAACTACATACC-GATTTTTTTAAAG
1 GTAAACGGT--AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTTAAGG
*
4764 TTGTTAATAAT
64 TTGCTAATAAT
* * * * * ** * * *
4775 GTAAACGGTAAAACAAATAGACCCTACTTATTAGATTAAAATACCTATTGGTTTGTTTAAAGATT
1 GTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTTAAGGTT
4840 GCTAATAAT
66 GCTAATAAT
* * * * **
4849 GTAAATGATAAAATAAAATAGGCGTTACCTATTACATTAAAATACATACCGGTTTTTTTTAACAT
1 GTAAACGGTAAAA-AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTTAAGGT
*
4914 TGTTAATAAT
65 TGCTAATAAT
* * * *
4924 CTAAACGGTAAAAAAAATAAGCGCTACCTATTATATTAAAATACCTATCGGTTTTTTTTAAGGTT
1 GTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTTAAGGTT
4989 GCTAATAAT
66 GCTAATAAT
* * * *
4998 GTAAACGGTAAAAAAAATAGGTGATACTTATTACATTAAACTACCTACCG
1 GTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCG
5048 AACATGTTGA
Statistics
Matches: 348, Mismatches: 70, Indels: 9
0.81 0.16 0.02
Matches are distributed among these distances:
73 32 0.09
74 182 0.52
75 99 0.28
76 35 0.10
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (74 bp):
GTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTTAAGGTT
GCTAATAAT
Found at i:4783 original size:149 final size:148
Alignment explanation
Indices: 4580--5048 Score: 538
Period size: 149 Copynumber: 3.2 Consensus size: 148
4570 AGGTGCTATA
* * ** *
4580 TATTATATTAAAATATC-TACCGATTTTTTTTAAGGTTACTAATGATGTAAACGGTAAAAAAAAT
1 TATTACATTAAAATA-CATACCGA-TTTTTTTAAAGTTGTTAATAATGTAAACGGTAAAAAAAAT
4644 AGGCGCTACCTATTACATTAAAATACCTACTGGGGTTTTTTAAGGTTGCTAATAATGTAAACAGT
64 AGGCGCTACCTATTACATTAAAATACCTA-TGGGGTTTTTTAAGGTTGCTAATAATGTAAACAGT
* *
4709 AAAAAAAAAATAGACGCTACC
128 AAAAAAAAAATAGGCGATACC
* * *
4730 TATTATATTAAACTACATACCGATTTTTTTAAAGTTGTTAATAATGTAAACGGTAAAACAAATAG
1 TATTACATTAAAATACATACCGATTTTTTTAAAGTTGTTAATAATGTAAACGGTAAAAAAAATAG
* * * * * * *
4795 ACCCTACTTATTAGATTAAAATACCTAT-TGGTTTGTTTAAAGATTGCTAATAATGTAAA-TG-A
66 GCGCTACCTATTACATTAAAATACCTATGGGGTTT-TTT-AAGGTTGCTAATAATGTAAACAGTA
* *
4857 TAAAATAAAATAGGCGTTACC
129 -AAAAAAAAATAGGCGATACC
* *
4878 TATTACATTAAAATACATACCGGTTTTTTTTAACA-TTGTTAATAATCTAAACGGTAAAAAAAAT
1 TATTACATTAAAATACATACC-GATTTTTTTAA-AGTTGTTAATAATGTAAACGGTAAAAAAAAT
* * ** *
4942 AAGCGCTACCTATTATATTAAAATACCTATCGGTTTTTTTTAAGGTTGCTAATAATGTAAACGGT
64 AGGCGCTACCTATTACATTAAAATACCTAT-GGGGTTTTTTAAGGTTGCTAATAATGTAAACAGT
* *
5007 --AAAAAAAATAGGTGATACT
128 AAAAAAAAAATAGGCGATACC
* *
5026 TATTACATTAAACTACCTACCGA
1 TATTACATTAAAATACATACCGA
5049 ACATGTTGAA
Statistics
Matches: 271, Mismatches: 38, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
147 7 0.03
148 75 0.28
149 161 0.59
150 25 0.09
151 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (148 bp):
TATTACATTAAAATACATACCGATTTTTTTAAAGTTGTTAATAATGTAAACGGTAAAAAAAATAG
GCGCTACCTATTACATTAAAATACCTATGGGGTTTTTTAAGGTTGCTAATAATGTAAACAGTAAA
AAAAAAATAGGCGATACC
Found at i:6389 original size:46 final size:45
Alignment explanation
Indices: 6319--6463 Score: 218
Period size: 45 Copynumber: 3.2 Consensus size: 45
6309 TATAAAATCT
* *
6319 CTTACTATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATA
*
6364 CTTACCATTTAATACCATAAACTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTT-ATACCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
6410 CTTACCATTTGTTCCATAAGCTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATA
*
6455 CTTGCCATT
1 CTTACCATT
6464 ATTTCCATAA
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 48 0.53
46 43 0.47
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATACCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:6404 original size:24 final size:24
Alignment explanation
Indices: 6376--6449 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 24
6366 TACCATTTAA
6376 TACCATAAACTCGTAAGCTTATTT
1 TACCATAAACTCGTAAGCTTATTT
* *
6400 TACCAATATACT--T-A-C-CATTT
1 TACC-ATAAACTCGTAAGCTTATTT
* *
6420 GTTCCATAAGCTCGTAAGCTTATTT
1 -TACCATAAACTCGTAAGCTTATTT
6445 TACCA
1 TACCA
6450 ATACACTTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
20 9 0.25
21 4 0.11
22 2 0.06
23 2 0.06
24 9 0.25
25 10 0.28
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (24 bp):
TACCATAAACTCGTAAGCTTATTT
Found at i:7534 original size:20 final size:20
Alignment explanation
Indices: 7509--7601 Score: 65
Period size: 20 Copynumber: 5.0 Consensus size: 20
7499 TCTGTCAGTT
7509 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGGATCAGTTTTA
* *
7529 ATTAGATAGAATCAATTTT-
1 ATTAGATAGGATCAGTTTTA
* ** *
7548 -TTA-TTCTG-TTAG--TT-
1 ATTAGATAGGATCAGTTTTA
7562 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGGATCAGTTTTA
* *
7582 ATTAGATAGAATCAATTTTA
1 ATTAGATAGGATCAGTTTTA
7602 TTCTGTTGCT
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
14 2 0.04
15 3 0.06
16 4 0.08
17 4 0.08
18 3 0.06
19 2 0.04
20 35 0.66
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.44
Consensus pattern (20 bp):
ATTAGATAGGATCAGTTTTA
Found at i:7556 original size:53 final size:51
Alignment explanation
Indices: 7492--7607 Score: 205
Period size: 53 Copynumber: 2.2 Consensus size: 51
7482 TTAACTAGAT
7492 ATTTTATTCTGTCAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCA
1 ATTTTATTCTGTCAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCA
*
7543 ATTTTTTATTCTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCA
1 A--TTTTATTCTGTCAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCA
7596 ATTTTATTCTGT
1 ATTTTATTCTGT
7608 TGCTAATTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
51 12 0.19
53 50 0.81
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (51 bp):
ATTTTATTCTGTCAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCA
Found at i:12603 original size:20 final size:20
Alignment explanation
Indices: 12578--12669 Score: 81
Period size: 20 Copynumber: 5.0 Consensus size: 20
12568 CTGTCAGTTG
12578 TTAGATAGGATCAGTTTTAA
1 TTAGATAGGATCAGTTTTAA
*
12598 TTAGATAGAATCAGTTTT--
1 TTAGATAGGATCAGTTTTAA
* ** *
12616 TTA-TTCTG-TTAG--TT-A
1 TTAGATAGGATCAGTTTTAA
12631 TTAGATAGGATCAGTTTTAA
1 TTAGATAGGATCAGTTTTAA
*
12651 TTAGATAGAATCAGTTTTA
1 TTAGATAGGATCAGTTTTA
12670 TTCTGTTGCT
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
14 2 0.04
15 3 0.05
16 5 0.09
17 4 0.07
18 3 0.05
19 2 0.04
20 36 0.65
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (20 bp):
TTAGATAGGATCAGTTTTAA
Found at i:12641 original size:53 final size:51
Alignment explanation
Indices: 12561--12676 Score: 196
Period size: 53 Copynumber: 2.2 Consensus size: 51
12551 TAACTAGATA
* *
12561 TTTTATTCTGTCAGTTGTTAGATAGGATCAGTTTTAATTAGATAGAATCAG
1 TTTTATTCTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAG
12612 TTTTTTATTCTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAG
1 --TTTTATTCTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAG
12665 TTTTATTCTGTT
1 TTTTATTCTGTT
12677 GCTAATTTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 12 0.20
53 49 0.80
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (51 bp):
TTTTATTCTGTTAGTTATTAGATAGGATCAGTTTTAATTAGATAGAATCAG
Found at i:13713 original size:90 final size:89
Alignment explanation
Indices: 13591--13763 Score: 283
Period size: 90 Copynumber: 1.9 Consensus size: 89
13581 TAATCCTGAA
* * *
13591 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCCAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATAAATTTGAAATAATAAAA-CCCCAATATGAT
*
13656 TAGGGTAACTTGGATATAAGAGGAT
65 TAGGGTAAATTGGATATAAGAGGAT
*
13681 TATTAAATTCCAATTAATTAAATATAGATTTAATAAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATAAATTTGAAATAATAAAACCCCAATATGATT
*
13746 AGGGTAAATTGGCTATAA
66 AGGGTAAATTGGATATAA
13764 AAGGGTGTGT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 28 0.36
90 49 0.64
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATAAATTTGAAATAATAAAACCCCAATATGATT
AGGGTAAATTGGATATAAGAGGAT
Found at i:19770 original size:16 final size:16
Alignment explanation
Indices: 19745--19786 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
19735 TGAAAAATTA
*
19745 GCAAATTTGAAAGTTG
1 GCAAAATTGAAAGTTG
19761 GCAAAATTGAAAGTTG
1 GCAAAATTGAAAGTTG
*
19777 GCAAAGTTGA
1 GCAAAATTGA
19787 CATCTTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.26, T:0.26
Consensus pattern (16 bp):
GCAAAATTGAAAGTTG
Found at i:24480 original size:16 final size:16
Alignment explanation
Indices: 24455--24528 Score: 103
Period size: 16 Copynumber: 4.6 Consensus size: 16
24445 TGAAAAATTA
*
24455 GCAAAGTTGAAAGTTG
1 GCAAAATTGAAAGTTG
24471 GCAAAATTGAAAGTTG
1 GCAAAATTGAAAGTTG
*
24487 GCAAATTTGAAAGTTG
1 GCAAAATTGAAAGTTG
*
24503 GTAAAATTGAAAGTTG
1 GCAAAATTGAAAGTTG
* *
24519 ACAAAGTTGA
1 GCAAAATTGA
24529 CATCTTTGGT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.27
Consensus pattern (16 bp):
GCAAAATTGAAAGTTG
Found at i:24497 original size:32 final size:32
Alignment explanation
Indices: 24455--24528 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
24445 TGAAAAATTA
24455 GCAAAGTTGAAAGTTGGCAAAATTGAAAGTTG
1 GCAAAGTTGAAAGTTGGCAAAATTGAAAGTTG
* *
24487 GCAAATTTGAAAGTTGGTAAAATTGAAAGTTG
1 GCAAAGTTGAAAGTTGGCAAAATTGAAAGTTG
*
24519 ACAAAGTTGA
1 GCAAAGTTGA
24529 CATCTTTGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.27
Consensus pattern (32 bp):
GCAAAGTTGAAAGTTGGCAAAATTGAAAGTTG
Found at i:26380 original size:24 final size:25
Alignment explanation
Indices: 26310--26385 Score: 68
Period size: 28 Copynumber: 2.9 Consensus size: 25
26300 AATAATATCG
26310 TAATAGTTATGTTTAAAATTAATTACT
1 TAAT-GTTAT-TTTAAAATTAATTACT
26337 TAAAT-TTGAATTAATT-AAATTAATTA-T
1 T-AATGTT--ATT--TTAAAATTAATTACT
26364 TAATGTTATTTTAAAATTAATT
1 TAATGTTATTTTAAAATTAATT
26386 TAATTTAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 17
0.71 0.00 0.29
Matches are distributed among these distances:
23 2 0.05
24 9 0.21
25 3 0.07
26 5 0.12
27 6 0.14
28 15 0.36
29 2 0.05
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (25 bp):
TAATGTTATTTTAAAATTAATTACT
Found at i:26394 original size:16 final size:16
Alignment explanation
Indices: 26362--26404 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
26352 TAAATTAATT
*
26362 ATTAATGTTATTTTAAA
1 ATTAAT-TTAATTTAAA
26379 ATTAATTTAATTTAAA
1 ATTAATTTAATTTAAA
* *
26395 TTTAAATTAA
1 ATTAATTTAA
26405 ATTTTTCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTAATTTAATTTAAA
Found at i:27013 original size:19 final size:20
Alignment explanation
Indices: 26969--27013 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
26959 ATTTGTTTTT
*
26969 AATAAATTTTTATATATGAA
1 AATAAATTTTTATATATCAA
* *
26989 ATTAAATTTTTAT-TTTCAA
1 AATAAATTTTTATATATCAA
27008 AATAAA
1 AATAAA
27014 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTATATATCAA
Found at i:40472 original size:20 final size:20
Alignment explanation
Indices: 40447--40489 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
40437 CCATTATTCC
* *
40447 ATAACCATATACCATAGAAA
1 ATAACCATAAACAATAGAAA
*
40467 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGAAA
40487 ATA
1 ATA
40490 GCCCAATATA
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:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGAAA
Found at i:47147 original size:21 final size:21
Alignment explanation
Indices: 47113--47152 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47103 AATTTTTTTT
*
47113 TAAAAATAGTAAATGATATTA
1 TAAAAATAGTAAATCATATTA
47134 TAAAAATA-TCAAATCATAT
1 TAAAAATAGT-AAATCATAT
47153 AAATTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
TAAAAATAGTAAATCATATTA
Found at i:47802 original size:47 final size:45
Alignment explanation
Indices: 47735--47844 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 45
47725 TATAAAATCC
* *
47735 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATCCCATAAGCTCATAAGATTATTTTACCAAAATA
* *
47780 CTTACCATTTAAATCCCATAAGCTCATAAGATTATTTTATCAATATA
1 CTTACCATTT--ATCCCATAAGCTCATAAGATTATTTTACCAAAATA
* *
47827 CTTGCCA-TTATTCCATAA
1 CTTACCATTTATCCCATAA
47845 CCATATACCA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 8 0.14
45 10 0.18
46 2 0.04
47 37 0.65
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (45 bp):
CTTACCATTTATCCCATAAGCTCATAAGATTATTTTACCAAAATA
Found at i:47869 original size:20 final size:20
Alignment explanation
Indices: 47841--47883 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
47831 CCATTATTCC
* *
47841 ATAACCATATACCATAGAAA
1 ATAACCATAAACAATAGAAA
* *
47861 ATAATCATAAACAATAGACA
1 ATAACCATAAACAATAGAAA
47881 ATA
1 ATA
47884 GCCCAATACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.58, C:0.16, G:0.05, T:0.21
Consensus pattern (20 bp):
ATAACCATAAACAATAGAAA
Found at i:60364 original size:21 final size:20
Alignment explanation
Indices: 60302--60368 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
60292 ATTAGAAATG
*
60302 TAAATTTTTAAAAAATTATAT
1 TAAAATTTT-AAAAATTATAT
60323 TAAAATTTT-AAAA--ATA-
1 TAAAATTTTAAAAATTATAT
*
60339 -CAAATTTTAAGAAATTATAT
1 TAAAATTTTAA-AAATTATAT
60359 TAAAATTTTA
1 TAAAATTTTA
60369 GAAGATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
15 7 0.19
16 1 0.03
17 6 0.16
19 7 0.19
21 16 0.43
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (20 bp):
TAAAATTTTAAAAATTATAT
Found at i:65168 original size:14 final size:14
Alignment explanation
Indices: 65149--65181 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
65139 TTTGATGCAG
65149 GTGATGTTG-ATGA
1 GTGATGTTGCATGA
65162 TGTGATGTTGCATGA
1 -GTGATGTTGCATGA
65177 GTGAT
1 GTGAT
65182 CTCACCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.21, C:0.03, G:0.36, T:0.39
Consensus pattern (14 bp):
GTGATGTTGCATGA
Found at i:66697 original size:23 final size:21
Alignment explanation
Indices: 66645--66697 Score: 52
Period size: 24 Copynumber: 2.3 Consensus size: 21
66635 AAAATTAGAA
* *
66645 TTTAAAATTTGATATTATTTT
1 TTTAAAATTTAAAATTATTTT
66666 TATTAAAAATTTTAAAATTATTATT
1 T-TT-AAAA-TTTAAAATTATT-TT
66691 TTTAAAA
1 TTTAAAA
66698 CGTGAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 1 0.04
22 2 0.08
23 8 0.31
24 12 0.46
25 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTAAAATTTAAAATTATTTT
Found at i:66826 original size:21 final size:20
Alignment explanation
Indices: 66800--66981 Score: 145
Period size: 21 Copynumber: 8.8 Consensus size: 20
66790 AAAATGACCA
66800 ACTATCGCAATGCGAACTTGG
1 ACTATCGCAATGCGAA-TTGG
*
66821 ACTATCGCAATGCGAACTTTG
1 ACTATCGCAATGCGAA-TTGG
*
66842 ACTATCGCAATGCGAATATGT
1 ACTATCGCAATGCGAAT-TGG
* * *
66863 A-AATCGCAATGCGATAGTCG
1 ACTATCGCAATGCGA-ATTGG
* * * *
66883 ACAATCACAATTCGAATATGT
1 ACTATCGCAATGCGAAT-TGG
* *
66904 A-AATCGCAATGCGAATATGT
1 ACTATCGCAATGCGAAT-TGG
* * *
66924 A-AATCGCAATGCGATAGTCG
1 ACTATCGCAATGCGA-ATTGG
66944 ACTATCGCAATGCGAACTTGG
1 ACTATCGCAATGCGAA-TTGG
66965 ACTATCGCAATGCGAAT
1 ACTATCGCAATGCGAAT
66982 ATGTAATCGC
Statistics
Matches: 134, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
20 51 0.38
21 83 0.62
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (20 bp):
ACTATCGCAATGCGAATTGG
Found at i:66870 original size:20 final size:20
Alignment explanation
Indices: 66845--66992 Score: 137
Period size: 20 Copynumber: 7.3 Consensus size: 20
66835 AACTTTGACT
66845 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
66865 ATCGCAATGCG-ATA-GTCGACA
1 ATCGCAATGCGAATATGT--A-A
* *
66886 ATCACAATTCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
66906 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
66926 ATCGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAATATGT--A-A
* *
66947 ATCGCAATGCGAACT-TGGACT
1 ATCGCAATGCGAA-TATGTA-A
66968 ATCGCAATGCGAATATGT-A
1 ATCGCAATGCGAATATGTAA
66987 ATCGCA
1 ATCGCA
66993 TTGTGATTTA
Statistics
Matches: 108, Mismatches: 8, Indels: 25
0.77 0.06 0.18
Matches are distributed among these distances:
18 4 0.04
19 12 0.11
20 44 0.41
21 40 0.37
22 4 0.04
23 4 0.04
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:66917 original size:61 final size:62
Alignment explanation
Indices: 66828--66992 Score: 237
Period size: 61 Copynumber: 2.7 Consensus size: 62
66818 TGGACTATCG
* *
66828 CAATGCGAACTTTGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACAATCA
1 CAATGCGAACTTGGACAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACAATCA
* * * *
66890 CAATTCGAA-TATGTA-AATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACTATCG
1 CAATGCGAACT-TGGACAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACAATCA
*
66951 CAATGCGAACTTGGACTATCGCAATGCGAATATGT-AATCGCA
1 CAATGCGAACTTGGACAATCGCAATGCGAATATGTAAATCGCA
66993 TTGTGATTTA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
61 62 0.68
62 29 0.32
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (62 bp):
CAATGCGAACTTGGACAATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGACAATCA
Found at i:67218 original size:5 final size:5
Alignment explanation
Indices: 67162--67221 Score: 66
Period size: 5 Copynumber: 11.6 Consensus size: 5
67152 CGTATTACCA
* * * *
67162 CGACC ACGACC ACGACA CGACA CGACA CGACA CGACC CGACC CGACC CGACC
1 CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC CGACC CGACC CGACC
67214 CGACC CGA
1 CGACC CGA
67222 GACGAGACGG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
5 42 0.81
6 10 0.19
ACGTcount: A:0.30, C:0.50, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:67218 original size:15 final size:15
Alignment explanation
Indices: 67160--67226 Score: 80
Period size: 15 Copynumber: 4.3 Consensus size: 15
67150 CACGTATTAC
67160 CACGACCACGACCACGA
1 CACGACC-CGACC-CGA
* *
67177 CACGACACGACACGA
1 CACGACCCGACCCGA
67192 CACGACCCGACCCGA
1 CACGACCCGACCCGA
*
67207 CCCGACCCGACCCGA
1 CACGACCCGACCCGA
*
67222 GACGA
1 CACGA
67227 GACGGACGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
15 33 0.77
16 4 0.09
17 6 0.14
ACGTcount: A:0.31, C:0.48, G:0.21, T:0.00
Consensus pattern (15 bp):
CACGACCCGACCCGA
Found at i:67801 original size:21 final size:22
Alignment explanation
Indices: 67763--68022 Score: 163
Period size: 21 Copynumber: 12.2 Consensus size: 22
67753 AATATCACAA
67763 CGAACTTGGAATAAATCGCAACG
1 CGAACTTGGAAT-AATCGCAACG
*
67786 CGAACTTGGACT-ATCGCAA--
1 CGAACTTGGAATAATCGCAACG
* *
67805 CGAATTTGGAATAAATCGCAACA
1 CGAACTTGGAAT-AATCGCAACG
* * *
67828 CAAACTTCGACT-ATCGCAA--
1 CGAACTTGGAATAATCGCAACG
* **
67847 CGAATTTGGAATAAATTACAACG
1 CGAACTTGGAAT-AATCGCAACG
* *
67870 CGAACTTCGACT-ATCGCAA--
1 CGAACTTGGAATAATCGCAACG
*
67889 CGAATTTGGAATAAATCGCAACG
1 CGAACTTGGAAT-AATCGCAACG
**
67912 TAAACTTGGAATAAATCGCAA--
1 CGAACTTGGAAT-AATCGCAACG
*
67933 CGAATTTGGAATAAATCGCAACG
1 CGAACTTGGAAT-AATCGCAACG
* *
67956 CGAACTTCGACT-ATCGCAA--
1 CGAACTTGGAATAATCGCAACG
*
67975 CGAACTCGGAATAAATCGCAACG
1 CGAACTTGGAAT-AATCGCAACG
* * *
67998 TGAACTTGGACT-ATCGCAATG
1 CGAACTTGGAATAATCGCAACG
68019 CGAA
1 CGAA
68023 TATGTAAATC
Statistics
Matches: 181, Mismatches: 38, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
19 36 0.20
21 81 0.45
23 64 0.35
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (22 bp):
CGAACTTGGAATAATCGCAACG
Found at i:67808 original size:42 final size:42
Alignment explanation
Indices: 67749--68016 Score: 374
Period size: 42 Copynumber: 6.3 Consensus size: 42
67739 CATTGCGATT
* * *
67749 TTGGAATATCACAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* *
67791 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACACAAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* **
67833 TTCGACTATCGCAACGAATTTGGAATAAATTACAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* **
67875 TTCGACTATCGCAACGAATTTGGAATAAATCGCAACGTAAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
*
67917 TTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * * *
67961 TTCGACTATCGCAACGAACTCGGAATAAATCGCAACGTGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
68003 TTGGACTATCGCAA
1 TTGGACTATCGCAA
68017 TGCGAATATG
Statistics
Matches: 200, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
42 162 0.81
44 38 0.19
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:68566 original size:50 final size:50
Alignment explanation
Indices: 68507--68617 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 50
68497 GTAACAGTAA
** * * *
68507 AGCGCGCCCCCTGAATCGTGTTATACGCTGATTTGGCACCACGTGGGTAT
1 AGCGCGCCCCCTGAATCACGATATACGCTGATCTGGCACCACATGGGTAT
** * * *
68557 AGCGCGCCCCCTGCCTCACGATATACGGTGATCTGGCGCCACATTGGTAT
1 AGCGCGCCCCCTGAATCACGATATACGCTGATCTGGCACCACATGGGTAT
68607 AGCGCGCCCCC
1 AGCGCGCCCCC
68618 AGATCCGCGC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.17, C:0.34, G:0.27, T:0.22
Consensus pattern (50 bp):
AGCGCGCCCCCTGAATCACGATATACGCTGATCTGGCACCACATGGGTAT
Found at i:69243 original size:111 final size:111
Alignment explanation
Indices: 68911--69230 Score: 595
Period size: 111 Copynumber: 2.9 Consensus size: 111
68901 TGAAAATCAT
* *
68911 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
* *
68976 TATTTAGTTGATTTATTTAATGCATGATTATTTGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
69022 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
69087 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
69133 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACCTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
69198 TAATTAGTTGATTTATTTAATGCATGATTATTA
66 TAATTAGTTGATTTATTTAATGCATGATTATTA
69231 AAGTAAAAAT
Statistics
Matches: 204, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 204 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:72289 original size:12 final size:12
Alignment explanation
Indices: 72272--72309 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
72262 ATTTATAAGA
72272 GAGGAGAGATGC
1 GAGGAGAGATGC
*
72284 GA-G-GAGATGT
1 GAGGAGAGATGC
72294 GAGGAGAGATGC
1 GAGGAGAGATGC
72306 GAGG
1 GAGG
72310 TATTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 8 0.36
11 2 0.09
12 12 0.55
ACGTcount: A:0.32, C:0.05, G:0.53, T:0.11
Consensus pattern (12 bp):
GAGGAGAGATGC
Found at i:77784 original size:12 final size:12
Alignment explanation
Indices: 77755--77795 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
77745 GATACTGAAA
*
77755 TGATATTATTTT
1 TGATAATATTTT
*
77767 T-TTAATATTTT
1 TGATAATATTTT
77778 TGATAATATTTT
1 TGATAATATTTT
77790 TGATAA
1 TGATAA
77796 AAAATTACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (12 bp):
TGATAATATTTT
Found at i:79887 original size:113 final size:113
Alignment explanation
Indices: 79762--79997 Score: 337
Period size: 113 Copynumber: 2.1 Consensus size: 113
79752 TATTCATTTC
* * * * *
79762 AATAAAAAATATCAATTTAATTTATGTCGGGACAATGATTCCGTTGAAAATTTTGTTCAACTTTA
1 AATAAAAAATATCAATTTAATTTATGACGGGACAATGATTCCATCGAAAATTCTGTTAAACTTTA
* * * *
79827 ATTAAAATATACTAATTTAATTTGTGATGGAATAATCATTCTATCGGA
66 ATTAAAATATACCAATTTAATTTATGATAGAATAATCATTCTATCGAA
*
79875 AATAAAAAATATCAATTTAATTTATGACGGGACAATGATTCTATCGAAAATTCTGTTAAACTTTA
1 AATAAAAAATATCAATTTAATTTATGACGGGACAATGATTCCATCGAAAATTCTGTTAAACTTTA
* * * *
79940 ATTAAAATCTACCAATTTAATTTATGATAGATTAGTCATTCTGTCGAA
66 ATTAAAATATACCAATTTAATTTATGATAGAATAATCATTCTATCGAA
79988 AATTAAAAAA
1 AA-TAAAAAA
79998 AAAACTACAT
Statistics
Matches: 108, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 101 0.94
114 7 0.06
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (113 bp):
AATAAAAAATATCAATTTAATTTATGACGGGACAATGATTCCATCGAAAATTCTGTTAAACTTTA
ATTAAAATATACCAATTTAATTTATGATAGAATAATCATTCTATCGAA
Found at i:79897 original size:48 final size:50
Alignment explanation
Indices: 79830--79925 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 50
79820 AACTTTAATT
* * * *
79830 AAAATATACTAATTTAATTTGTGATGGAATAATCATTCTATCGGAAATAA
1 AAAATATACTAATTTAATTTATGACGGAACAATCATTCTATCGAAAATAA
* *
79880 AAAATAT-C-AATTTAATTTATGACGGGACAATGATTCTATCGAAAAT
1 AAAATATACTAATTTAATTTATGACGGAACAATCATTCTATCGAAAAT
79926 TCTGTTAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 32 0.80
49 1 0.03
50 7 0.17
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (50 bp):
AAAATATACTAATTTAATTTATGACGGAACAATCATTCTATCGAAAATAA
Found at i:87673 original size:31 final size:31
Alignment explanation
Indices: 87638--87696 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
87628 TGATGGGATG
* *
87638 TGTGGACCCATCAGAAATTTGTGACAGAATA
1 TGTGGACCCATCACAAATTTATGACAGAATA
* *
87669 TGTGGATCCGTCACAAATTTATGACAGA
1 TGTGGACCCATCACAAATTTATGACAGA
87697 TTTACCTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (31 bp):
TGTGGACCCATCACAAATTTATGACAGAATA
Found at i:92121 original size:26 final size:25
Alignment explanation
Indices: 92070--92122 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
92060 TATGACTAAA
*
92070 TTAAATGAAAATTAAACTTTATAAT
1 TTAAATGAAAATTAAACTTTAGAAT
*
92095 TTAAATTAAGAATTAAA-TTATAGAAT
1 TTAAATGAA-AATTAAACTT-TAGAAT
92121 TT
1 TT
92123 TAAAAAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.42
Consensus pattern (25 bp):
TTAAATGAAAATTAAACTTTAGAAT
Found at i:101390 original size:2 final size:2
Alignment explanation
Indices: 101379--101450 Score: 66
Period size: 2 Copynumber: 38.5 Consensus size: 2
101369 TTTTCATAAA
*
101379 AT AT -T AT AT AT AT AT AT AT AT AT AT AT A- AT -T CAT AT A- AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* *
101418 AA AT AT A- AA AT AT -T AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101451 ATCGGGGCTG
Statistics
Matches: 61, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
1 6 0.10
2 54 0.89
3 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:103321 original size:786 final size:786
Alignment explanation
Indices: 102116--103636 Score: 2146
Period size: 785 Copynumber: 1.9 Consensus size: 786
102106 TGACTGACCA
* ** *
102116 TTGACTTGAACGTTGACTTTAACTAGAGTTGACCGTTAACTTTGACTTTGGCAAAAAAGTTTTAA
1 TTGACTTGAACGTTGACTTTAACTAGAGTTGACCATTAACTTTGACTTTGAAAAAAAAGTCTTAA
** * * *
102181 CACCCCAAATTATTGGTTAAATTACGAGTTTTGAAACTTATGGATAATTTAAGAAATTGCATAAA
66 CACCCCAAATTAGGGGTAAAATTACGAGTTTTGAAACTTATGGATAATTTAAGAAAGTGCAGAAA
102246 ATTCAGGGACCTAGTCCTGAATTTGCCCATTTTTTTTAATGGTGAAAATTTAACTCCCTTGAGCA
131 ATTCAGGGACCTAGTCCTGAATTTGCCCATTTTTTTTAATGGTGAAAATTTAACTCCCTTGAGCA
**
102311 ATCTAATTTTTCCCCAATTCAAAAACCCTAAATTCGTAACTCGTCAACCCTTTTTTGTCACTCAG
196 ATCTAATTTTTCCCCAATTCAAAAACCCTAAATTCCCAACTCGTCAACCCTTTTTTGTCACTCAG
* * *
102376 ATTCTCTACCATCCGACCACTGTTAGTCCTCCAATACCACCAATAGACTCACCATCGAATGGTGA
261 ATTCTCTACCATCCGACCACCGTTAGTACTCCAACACCACCAATAGACTCACCATCGAATGGTGA
* *
102441 ACAAAACCTAACCTTTAACTCGTCGTGAATCGGCATCGTTCGCCGTAAAACTCGATGTGAAGCTT
326 AC-AAA-C-AACCTTTAACTCGTCATGAATCGGCATCGTTCGCCGTAAAACTCGATGTAAAGCTT
*
102506 CGTCATTTTTAACCCGACCACCACATGTTTT-TCATCGATTCGGGTCAATCAACCCATCCGTTCA
388 CATCATTTTTAACCCGACCACCACATGTTTTCT-ATCGATTC-GGTCAATCAACCCATCCGTTCA
* * *
102570 CCTCACCGCATGCACCATTGGACTCACCGTCACCGTGCGCTCAAAACCCGACCGAAATCGTTGCA
451 CCTCACCGCATGCACCATTGGACTCACCGTCACCGTGAGCTCAAAACCCGACCGAAATCATCGCA
* * * *
102635 TCGTTGTTGCTCCGTCATCGTCACTCGCCGGCAATCCTTGAAGAAGTTTGTACATTTTAAAATTC
516 CCGTTGTTGCTCCATCATCGTCACTCACCAGCAATCCTTGAAGAAGTTTGTACATTTTAAAATTC
** *
102700 TGAAATCTATTATGTTTTGTTGAAAAATAACACTTGAACGAGAATCCTGAGGTCTCGATCTAGCA
581 TGAAATCTATTATGTTTCATTGAAAAATAACACTTGAACGAGAATCCCGAGGTCTCGATCTAGCA
* * *
102765 ATCTGAAAAATTTCGTGTCGAAACGAC-ACC-GAAGCCGCCACACGTGCCTCT-CCTTGCGCGTC
646 ATCTGAAAAATTTCGTGCCAAAACGACAACCAG-AGCCGCCACACGCGCCTCTGCC-TGCGCGTC
*
102827 GGCGTCGTCTGCCAGCCTGGGAGTGTGCTGACCGGCTGAACTGGTCTGGACCGAGCCGTCTAACC
709 GGCGTCGTCTGCCAACCTGGGAGTGTGCTGACCGGCTGAACTGGTCTGGACCGAGCCGTCTAACC
102892 GTTGACTTGATAG
774 GTTGACTTGATAG
* * * *
102905 TTGACTTGAACGTTGA-TTTGACTAGAGTTGATCATTGACTTTGCCTTT-AAAAAATAAGTCTTA
1 TTGACTTGAACGTTGACTTTAACTAGAGTTGACCATTAACTTTGACTTTGAAAAAA-AAGTCTTA
* * * ** *
102968 ACACCTCAAATTAGGGGTAAAATTATGAGTTTCTGAAACTTATGGATAGTTTTTTGAAAGTGTAG
65 ACACCCCAAATTAGGGGTAAAATTACGAGTTT-TGAAACTTATGGATA-ATTTAAGAAAGTGCAG
* * * * *
103033 GAAATTTAGGGTCCTAGTCCTGAATTTGCCCATTTTTATGTTATTGTTGAAAATTTAACTCCCTT
128 AAAATTCAGGGACCTAGTCCTGAATTTGCCCATTTTT-T-TTAATGGTGAAAATTTAACTCCCTT
* *
103098 GAGCAATCTAA-TTTTCCCCAATTTAAAAACCCTAAATTCCCAAC-CGTCGATCCC-TTTTTGTC
191 GAGCAATCTAATTTTTCCCCAATTCAAAAACCCTAAATTCCCAACTCGTC-AACCCTTTTTTGTC
* * * * *
103160 GCTCCGATTCTCTACCATCCGGCCACCGTTCGTTACTCCGACACCACCAATAGACTCACCATCGA
255 ACTCAGATTCTCTACCATCCGACCACCGTTAG-TACTCCAACACCACCAATAGACTCACCATCGA
**
103225 ATGGTGAAC-AA-AACCTTTAACTCGTCATGAATCGGTGTCGTTCGCCGTAAAACTCGATGTAAA
319 ATGGTGAACAAACAACCTTTAACTCGTCATGAATCGGCATCGTTCGCCGTAAAACTCGATGTAAA
* * * *
103288 GCTTCATCATTTTTAACCCGACCTCCGCATGTTTTCTGTCGATTCGGTCGATCAACCCATCCGTT
384 GCTTCATCATTTTTAACCCGACCACCACATGTTTTCTATCGATTCGGTCAATCAACCCATCCGTT
* * *
103353 CACCTCACCGCCTGCACCATTGGACTCAGCGTCATCGTGAGCTCAAAACCCGACCGAAATCATCG
449 CACCTCACCGCATGCACCATTGGACTCACCGTCACCGTGAGCTCAAAACCCGACCGAAATCATCG
* ** * *
103418 CGCCGTTGTTGCTCCATCATCGTCACTCATTAGCCATCCTTGAAGAAGTTTGTACGTTTTAAAAT
514 CACCGTTGTTGCTCCATCATCGTCACTCACCAGCAATCCTTGAAGAAGTTTGTACATTTTAAAAT
* * *
103483 TCTGCAATCTATTATGTTTCATTGAAAAATAACACTTGCACGAGAATCCCGAGGTCTCGATTTAG
579 TCTGAAATCTATTATGTTTCATTGAAAAATAACACTTGAACGAGAATCCCGAGGTCTCGATCTAG
* * * * **
103548 CAATCTGGAAAATTTTGTGCCAAAACGACAATCAGAGCCTCTGCACGCGCCTCTGCCTGCGCGTC
644 CAATCTGAAAAATTTCGTGCCAAAACGACAACCAGAGCCGCCACACGCGCCTCTGCCTGCGCGTC
*
103613 GGCGTCGTCTGCTAACCTGGGAGT
709 GGCGTCGTCTGCCAACCTGGGAGT
103637 ATACTAACCA
Statistics
Matches: 644, Mismatches: 77, Indels: 25
0.86 0.10 0.03
Matches are distributed among these distances:
785 218 0.34
786 134 0.21
787 8 0.01
788 61 0.09
789 33 0.05
790 83 0.13
791 73 0.11
792 34 0.05
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (786 bp):
TTGACTTGAACGTTGACTTTAACTAGAGTTGACCATTAACTTTGACTTTGAAAAAAAAGTCTTAA
CACCCCAAATTAGGGGTAAAATTACGAGTTTTGAAACTTATGGATAATTTAAGAAAGTGCAGAAA
ATTCAGGGACCTAGTCCTGAATTTGCCCATTTTTTTTAATGGTGAAAATTTAACTCCCTTGAGCA
ATCTAATTTTTCCCCAATTCAAAAACCCTAAATTCCCAACTCGTCAACCCTTTTTTGTCACTCAG
ATTCTCTACCATCCGACCACCGTTAGTACTCCAACACCACCAATAGACTCACCATCGAATGGTGA
ACAAACAACCTTTAACTCGTCATGAATCGGCATCGTTCGCCGTAAAACTCGATGTAAAGCTTCAT
CATTTTTAACCCGACCACCACATGTTTTCTATCGATTCGGTCAATCAACCCATCCGTTCACCTCA
CCGCATGCACCATTGGACTCACCGTCACCGTGAGCTCAAAACCCGACCGAAATCATCGCACCGTT
GTTGCTCCATCATCGTCACTCACCAGCAATCCTTGAAGAAGTTTGTACATTTTAAAATTCTGAAA
TCTATTATGTTTCATTGAAAAATAACACTTGAACGAGAATCCCGAGGTCTCGATCTAGCAATCTG
AAAAATTTCGTGCCAAAACGACAACCAGAGCCGCCACACGCGCCTCTGCCTGCGCGTCGGCGTCG
TCTGCCAACCTGGGAGTGTGCTGACCGGCTGAACTGGTCTGGACCGAGCCGTCTAACCGTTGACT
TGATAG
Found at i:104462 original size:27 final size:28
Alignment explanation
Indices: 104431--104489 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
104421 AAAATAAATG
* * *
104431 AATACCCTTGAACTGTAAAATGA-CCAA
1 AATACCCCTGAACAGTAAAATAATCCAA
*
104458 AATACCCCTGAAGAGTAAAATAATCCAA
1 AATACCCCTGAACAGTAAAATAATCCAA
104486 AATA
1 AATA
104490 TCTCTAAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.20
Consensus pattern (28 bp):
AATACCCCTGAACAGTAAAATAATCCAA
Found at i:108533 original size:36 final size:36
Alignment explanation
Indices: 108486--108557 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
108476 TGAAAGATAA
108486 AACATCGACCTATGGTTCCACGGTAACCATCTATTT
1 AACATCGACCTATGGTTCCACGGTAACCATCTATTT
108522 AACATCGACCTATGGTTCCACGGTAACCATCTATTT
1 AACATCGACCTATGGTTCCACGGTAACCATCTATTT
108558 GCCTTTGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (36 bp):
AACATCGACCTATGGTTCCACGGTAACCATCTATTT
Found at i:109561 original size:182 final size:182
Alignment explanation
Indices: 108827--109614 Score: 1204
Period size: 182 Copynumber: 4.3 Consensus size: 182
108817 TTGTCGGTTT
* * * *
108827 GTGTTGATACTGTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGCCAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATT
* * * *
108892 GGTCTATAAATGACAAAACTGACAAAGCGCTACCGGATATGTTGAAAGTGTCGATACATTAATAT
66 GGTCTATAAATAACAAAACCGATAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATAT
* * * *
108957 AAGTATCAACACCTTTGGAATTTAAAAGAGGAGCAGTAATGGCGCCTATAAA
131 AAGTATCGACACCTTTGGAATTTAAAAGAGGAACAATAATAGCGCCTATAAA
* * *
109009 GTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATAACAAAACT
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATT
* * * * * * * * *
109073 GGTCTACAAATGACAAAATCGGTAAAGCGCTATCGGATATGTGGAAGGTATCGATACATTAATAT
66 GGTCTATAAATAACAAAACCGATAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATAT
* **
109138 AAGTATCGACACTTTTGGAATTTAAAAGAGGAACAATAATAGCGTTTATAAA
131 AAGTATCGACACCTTTGGAATTTAAAAGAGGAACAATAATAGCGCCTATAAA
*
109190 GTGTCTATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAATT
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATT
109254 -GTCTATAAATAACAAAACCGATAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATAT
66 GGTCTATAAATAACAAAACCGATAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATAT
* **
109318 AAGTATCGACACTTTTGGAATTTAAAAGAGGAACAATAATAGCGTTTATAAA
131 AAGTATCGACACCTTTGGAATTTAAAAGAGGAACAATAATAGCGCCTATAAA
109370 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATT
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATT
109435 GGTCTATAAATAACAAAACCGATAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATAT
66 GGTCTATAAATAACAAAACCGATAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATAT
* * * *
109500 AAGTATCGACACCTTTAGAATTTAAAAGAGGAGCAGTAATGGCGCCTATAAA
131 AAGTATCGACACCTTTGGAATTTAAAAGAGGAACAATAATAGCGCCTATAAA
* * * *
109552 GTATCGATACTTTATAAAATTGTATCAATCCATAACAATATAACAGGCAAAAAAATGACAAAA
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAA
109615 CCGGTAAAGC
Statistics
Matches: 557, Mismatches: 47, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
180 154 0.28
181 190 0.34
182 213 0.38
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAATT
GGTCTATAAATAACAAAACCGATAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATAT
AAGTATCGACACCTTTGGAATTTAAAAGAGGAACAATAATAGCGCCTATAAA
Found at i:109714 original size:162 final size:161
Alignment explanation
Indices: 109442--109958 Score: 545
Period size: 162 Copynumber: 3.1 Consensus size: 161
109432 ATTGGTCTAT
* *
109442 AAATAACAAAACCGATAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATATAAGTATC
1 AAATGACAAAACCGGTAAAGCGCTA-CAGATATGTTGAAAGTGTCGATACATTAATATAAGTATC
* * * *
109507 GACACCTTTAGAATTTAAAAGAGGAGCAGTAATGGCGCCTATAAAGTATCGATACTTTATAAAAT
65 GACACCTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAA
109572 TGTATCAATCCATAACAATATAACAGGCAAAA
130 TGTATCAATCCATAACAATATAACAGGCAAAA
*
109604 AAATGACAAAACCGGTAAAGCGCTATCAGATATGTTGAAGGTGTCGATACATTAATATAAGTATC
1 AAATGACAAAACCGGTAAAGCGCTA-CAGATATGTTGAAAGTGTCGATACATTAATATAAGTATC
* * * *
109669 GACACTTTTGGAATTTAAAAGGGGAACAATAATAGCGCCTATAAAGTGTCGATACTTTATAAAAA
65 GACACCTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAA
* * * *
109734 TATATCGATCCATAATAATATAACAGGTAAACA
130 TGTATCAATCCATAACAATATAACAGGCAAA-A
* * * * *
109767 AAATGCCAAAATCGGTCTATAAATGACAAAACCGGC-AAAGCGCTACCAGATATGTTAAAAGTGT
1 AAATGACAAAACCGG----TAAA-G-------C-GCTACA--GATA--TG-T-TG---AAAGTGT
* *
109831 TGATACATTAATATAAGTATCGACACCTTTGGAATTTAAAAGAGGAGCAGTAATGGCGCCTAT--
44 CGATACATTAATATAAGTATCGACACCTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAA
* * * *
109894 AGTGTCGACAATTTATAAAAATGTATCAATCCATAACGATATAACAGGTAAAA
109 AGTGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGCAAAA
*
109947 ATATGACAAAAC
1 AAATGACAAAAC
109959 TGGTCTAAAA
Statistics
Matches: 295, Mismatches: 37, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
162 145 0.49
163 14 0.05
167 4 0.01
168 1 0.00
174 1 0.00
175 2 0.01
176 5 0.02
178 1 0.00
179 1 0.00
180 12 0.04
181 46 0.16
183 63 0.21
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (161 bp):
AAATGACAAAACCGGTAAAGCGCTACAGATATGTTGAAAGTGTCGATACATTAATATAAGTATCG
ACACCTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAAT
GTATCAATCCATAACAATATAACAGGCAAAA
Found at i:110209 original size:180 final size:181
Alignment explanation
Indices: 109604--110205 Score: 897
Period size: 180 Copynumber: 3.3 Consensus size: 181
109594 ACAGGCAAAA
* *
109604 AAATGACAAAACCGGTAAAGCGCTATCAGATATGTTGAAGGTGTCGATACATTAATATAAGTATC
1 AAATGACAAAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATATAAGTATC
* * *
109669 GACACTTTTGGAATTTAAAAGGGGAACAATAATAGCGCCTATAAAGTGTCGATACTTTATAAAAA
66 GACACTTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAA
* * *
109734 TATATCGATCCATAATAATATAACAGGTAAACAAAATGCCAAAATCGGTCTAT
131 TGTATCGATCCATAACAATATAACAGGTAAA-AAAATG-CAAAAACGGTCTAT
* * *
109787 AAATGACAAAACCGGCAAAGCGCTACCAGATATGTTAAAAGTGTTGATACATTAATATAAGTATC
1 AAATGACAAAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATATAAGTATC
* * * *
109852 GACACCTTTGGAATTTAAAAGAGGAGCAGTAATGGCGCCTAT--AGTGTCGACAATTTATAAAAA
66 GACACTTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAA
* * * *
109915 TGTATCAATCCATAACGATATAACAGGTAAAAATATG-ACAAAACTGGTCTAA
131 TGTATCGATCCATAACAATATAACAGGTAAAAAAATGCA-AAAAC-GGTCTAT
* *
109967 AAATGACAAAACCGGTAAAGCGCTACC-GAATATATTGAAGGTGTCGATACATTAATATAAGTAT
1 AAATGACAAAACCGGTAAAGCGCTACCAG-ATATGTTGAAAGTGTCGATACATTAATATAAGTAT
*
110031 CGACACTTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCTTATAAAGTGTCGATACTTTATAAAA
65 CGACACTTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAA
110096 ATGTATCGATCCATAACAATATAACAGGTAAAAAAATTGCAAAAACGGTCTAT
130 ATGTATCGATCCATAACAATATAACAGGTAAAAAAA-TGCAAAAACGGTCTAT
* * *
110149 AAATGACAAAATCGGTAAAGCGCTATCGGATATGTTGAAAGTGTCGATACATTAATA
1 AAATGACAAAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATA
110206 AGTAGGCGTA
Statistics
Matches: 374, Mismatches: 37, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
178 1 0.00
179 5 0.01
180 108 0.29
181 46 0.12
182 108 0.29
183 105 0.28
184 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (181 bp):
AAATGACAAAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACATTAATATAAGTATC
GACACTTTTGGAATTTAAAAGAGGAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAA
TGTATCGATCCATAACAATATAACAGGTAAAAAAATGCAAAAACGGTCTAT
Found at i:111555 original size:200 final size:200
Alignment explanation
Indices: 111081--111816 Score: 1201
Period size: 201 Copynumber: 3.7 Consensus size: 200
111071 AGGCTGAGAT
111081 TCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATAGGTAATTTTGCAATGTAACCGGTA
1 TCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATAGGTAATTTTGCAATGTAACCGGTA
* *
111146 TAAATATACCAGTTTAATTAGAAAACAGGTCAATATAATGTATCGACACTTTTTAAATTTGTGGC
66 TAAATATACCAGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTC
* * *
111211 GGTACTTTTTGTCCAGAATGTATGCCCAAACTAGATGCACCCATAAAGTGTTGATACATTTATAA
131 GGTA-TTTTTGTCTAGAATGTATGCCCAAACTAGGTGCACCCATAAAGTGTCGATACATTTATAA
111276 AAAGTA
195 AAAGTA
*
111282 TCGATCCCAAAAACATCGAAACCTATAATTTTAATGTAATAGGTAATTTTGCAATGTAACCGGTA
1 TCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATAGGTAATTTTGCAATGTAACCGGTA
* *
111347 TAAATATATCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTC
66 TAAATATACCAGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTC
* *
111412 AGTATTTCTTGTCTAGAATGTATGCCCAAACTAGGTGTA-CCATAAAGTGTCGATACATTTATAA
131 GGTATTT-TTGTCTAGAATGTATGCCCAAACTAGGTGCACCCATAAAGTGTCGATACATTTATAA
111476 AAAGTA
195 AAAGTA
111482 TCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATAGGTAATTTTGCAATGTAACCGGTA
1 TCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATAGGTAATTTTGCAATGTAACCGGTA
* * * *
111547 TAAATATATCAGTTTAATTAGAAAAGCA-GTCAACTTAATGTATCGACACTTTTTAATTTTGTTT
66 TAAATATACCAGTTTAATTAGAAAA-CAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGT
* * *
111611 CGGTACTTATTGTCTAGAATCTGTGCCCAAACTAGGTGCACCCATAAAGTGTCGATACATTTATA
130 CGGTA-TTTTTGTCTAGAATGTATGCCCAAACTAGGTGCACCCATAAAGTGTCGATACATTTATA
111676 AAAAGTA
194 AAAAGTA
*
111683 TCGATCCCAAAAACATCAAAACCCATAATTTTAATGTAATAGGTAATTTTGCAATGTAACCGGTA
1 TCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATAGGTAATTTTGCAATGTAACCGGTA
* * *
111748 TAAATATACCAGTTTAATTA-AAAAAACGGTCAACATAATGTATCGACACATGTGT-AATTTGTG
66 TAAATATACCAGTTTAATTAGAAAACA-GGTCAACATAATGTATCGACAC-TTTTTAAATTTGTG
111811 TCGGTA
129 TCGGTA
111817 CCTTTTTAAA
Statistics
Matches: 500, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
199 1 0.00
200 190 0.38
201 306 0.61
202 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (200 bp):
TCGATCCCAAAAACATCGAAACCCATAATTTTAATGTAATAGGTAATTTTGCAATGTAACCGGTA
TAAATATACCAGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTC
GGTATTTTTGTCTAGAATGTATGCCCAAACTAGGTGCACCCATAAAGTGTCGATACATTTATAAA
AAGTA
Found at i:114696 original size:24 final size:24
Alignment explanation
Indices: 114645--114697 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
114635 TTTCATATGT
* * *
114645 AATTGGAGTTTAAATTTCAATTTC
1 AATTTGAGTTTAAATTTCAATATA
*
114669 AATTTGAGTTTCAATTTCAATATA
1 AATTTGAGTTTAAATTTCAATATA
114693 AATTT
1 AATTT
114698 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTAAATTTCAATATA
Found at i:114698 original size:18 final size:18
Alignment explanation
Indices: 114655--114698 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
114645 AATTGGAGTT
*
114655 TAAATTTCAATTTCAATT
1 TAAATTTCAATTTCAATA
* *
114673 TGAGTTTCAATTTCAATA
1 TAAATTTCAATTTCAATA
114691 TAAATTTC
1 TAAATTTC
114699 GGCTCCACTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (18 bp):
TAAATTTCAATTTCAATA
Found at i:116262 original size:193 final size:195
Alignment explanation
Indices: 115930--116878 Score: 1204
Period size: 193 Copynumber: 4.9 Consensus size: 195
115920 GCCCAACCAA
* ** * * *
115930 GGTGCACACATAAAGTGTCGATACATTTATTAAA-AATATTGATCCCAAAAACACCAAATAAGTT
1 GGTGCACTCATAAAGTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAATAAGTT
* * * * *
115994 AATTATAATGTAATAGGTAAATTTACAATGTAACCAGTATACATATACCGATTAATTCCAAAATA
64 AATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATA
* **
116059 GGTCTACATAATGTATCAACACTTGTTTAACTTGTGTCGATAATTTTTGTCCAG-A-G-CCCAAA
129 GGTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATAATTTTTGTCCAGAATGACCC-AA
116121 AGG
193 AGG
* *
116124 GGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATCCTAGAAACATCGAATAAGTTAA
1 GGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAATAAGTTAA
*
116189 TTATAATGTAATATGTAAATTTA-AGATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAG
66 TTATAATGTAATAGGTAAATTTACA-ATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAG
* * *
116253 GTTTACATAATGTATCGACACTTG-GGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCA
130 GTCTACATAATGTATCGACACTTGTGG-AACTTGTGTCGATAATTTTTGTCCAGAATG-A-CCCA
116317 AA-G
192 AAGG
* *
116320 GGTGCACTCATAAAGTGTCGATATATTT-AAATTGTATCGATCCCAGAAACATCGAATAAGTTAA
1 GGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAATAAGTTAA
*
116384 TTATAATGTAATAGGTAAATTTA-AGATGTAACCGGTA-AAATATACCGGTTAATTCGAAAATAA
66 TTATAATGTAATAGGTAAATTTACA-ATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAG
* *
116447 G--TACATAATGTAT-GACACTTGT-GAACTTGTGTTGATAGTTTTTGTCCAGAATGAATGCCCA
130 GTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATAATTTTTGTCCAGAATG-A--CCC-
116508 AAAGG
191 AAAGG
* *
116513 GGTGCACTC--AAAGTGTCGATACATTTAAATTTGTATCGATCCCAAAAAAATCGAA-AAGTTAA
1 GGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAATAAGTTAA
* *
116575 TTATAATGTAATATGTAAATTTACAATGTAACCGGTCG-AATATACCGGTTAATTCGAAAATAGG
66 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAGG
* * * * * * * *
116639 TATACATAATGTATCAACACTTATGGAATTTGTATTGA-AACTTTTTGTCCAGAATGAATGCC-T
131 TCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATAA-TTTTTGTCCAGAATG-A-CCCAA
**
116702 TTG
193 AGG
* *
116705 GGTGCACTCATAAAGTGTCGATATATTTAAAATTGTATCGATCCCAACAACATCGAATAAGTTAA
1 GGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAATAAGTTAA
* * *
116770 TTATAA--TAATAGGTAAATTTACAATGTAACCGGTAGAAATATACTGGTTAATTCAAAAATAGA
66 TTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAGG
*
116833 TCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTT
131 TCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATAATTTTT
116879 TAAATTACGC
Statistics
Matches: 669, Mismatches: 61, Indels: 50
0.86 0.08 0.06
Matches are distributed among these distances:
190 30 0.04
191 92 0.14
192 55 0.08
193 178 0.27
194 167 0.25
195 114 0.17
196 28 0.04
197 3 0.00
198 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (195 bp):
GGTGCACTCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAATAAGTTAA
TTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGGTTAATTCGAAAATAGG
TCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATAATTTTTGTCCAGAATGACCCAAAGG
Found at i:121202 original size:176 final size:178
Alignment explanation
Indices: 120900--121218 Score: 543
Period size: 176 Copynumber: 1.8 Consensus size: 178
120890 ACCTAAATAC
*
120900 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
120965 AGTAAATTTTCAATGTAACCGGTATAAATTTACCGGTTTTATGAGAAAATAGGTTTACATAATGT
66 AGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTTATGAAAAAATAGGTCTACATAATGT
121030 ATCGACACTTGTTCTCCAGAATGAATGCCTAAAGGGTGCACGTATAAA
131 ATCGACACTTGTTCTCCAGAATGAATGCCTAAAGGGTGCACGTATAAA
121078 GTGTCGATACATTTATAAAAAGTATCGAT-CCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
121142 GGT-AATTTACAATGTAATCGGTAGAAATTTATCTGTTTTATGAAAAAATAGGTCTACATAATGT
66 AGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTTATGAAAAAATAGGTCTACATAATGT
121206 ATCGACACTTGTT
131 ATCGACACTTGTT
121219 TAACTTGTGT
Statistics
Matches: 132, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
176 67 0.51
177 37 0.28
178 28 0.21
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (178 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
AGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTTATGAAAAAATAGGTCTACATAATGT
ATCGACACTTGTTCTCCAGAATGAATGCCTAAAGGGTGCACGTATAAA
Found at i:121414 original size:199 final size:200
Alignment explanation
Indices: 121044--121545 Score: 691
Period size: 199 Copynumber: 2.5 Consensus size: 200
121034 ACACTTGTTC
*
121044 TCCAGAATGAATGCCTAAA--GGGTGCACGTATAAAGTGTCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATGAATGCC-AAACGGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * *
121107 -CCAAAAACATCGAAACCCATAATTATAATGTAATAGGT-AATTTACAATGTAATCGGTAGAAAT
65 CCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATAGAAAT
* * *
121170 TTATCTGTTTTATGAAAAAATAGGTCTACATAATGTATCGACACTTGTTTAA-CTTGTGTCGATA
130 ATATCCGTTTTATGAAAAAATAGGTCTACAAAATGTATCGACACTT-TTTAAGCTTGTGTCGATA
121234 CTTTTTT
194 CTTTTTT
* *
121241 TCCAGAATGAATGCCAAACGGGGTGCACGCATAAAGTGTCTATACATTTATTAAAAGTATCGATC
1 TCCAGAATGAATGCCAAACGGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* * *
121306 CCAAAAACATCGAAACCAATAATTATAATATAATAGATAAATTTACAATGTACCCGATAGAAATA
66 CCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATA
* * * *
121371 TA-CCGATTTTATGAGAAAATA-TTCTCCAAAATGTATCGACACTTTTTAAGTTTGTGTCGATAC
131 TATCCG-TTTTATGAAAAAATAGGTCTACAAAATGTATCGACACTTTTTAAGCTTGTGTCGATAC
121434 TTTTTT
195 TTTTTT
* * * * * **
121440 TCCATAATGAATGCC-CACGAGGTGCATGCATAAAGTGTCGATACATTTACAATTA-TATCGATC
1 TCCAGAATGAATGCCAAACGGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATC
*
121503 CCAAAAA-ATCGAAACCGATAATTATAATGTAATAGGTAAATTT
66 CCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTT
121546 GTAGTGTTAC
Statistics
Matches: 271, Mismatches: 28, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
196 36 0.13
197 30 0.11
198 78 0.29
199 89 0.33
200 38 0.14
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (200 bp):
TCCAGAATGAATGCCAAACGGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATC
CCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATA
TATCCGTTTTATGAAAAAATAGGTCTACAAAATGTATCGACACTTTTTAAGCTTGTGTCGATACT
TTTTT
Found at i:121698 original size:87 final size:87
Alignment explanation
Indices: 121593--121755 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
121583 AAATAGGTCA
*
121593 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
121658 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
** * *
121680 ATATAAGCGCTATTTATTACATTATATAAGTGCTACTTAATATGTTATTATACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
121745 CCGGTTAAATG
66 CCGGTTAAATG
121756 ATATAATATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:121727 original size:23 final size:23
Alignment explanation
Indices: 121677--121721 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
121667 TGCCTATTTT
* *
121677 ATTATATAAGCGCTATTTATTAC
1 ATTATATAAGCGCTACTTAATAC
*
121700 ATTATATAAGTGCTACTTAATA
1 ATTATATAAGCGCTACTTAATA
121722 TGTTATTATA
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:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (23 bp):
ATTATATAAGCGCTACTTAATAC
Found at i:146757 original size:685 final size:684
Alignment explanation
Indices: 145447--146821 Score: 2536
Period size: 685 Copynumber: 2.0 Consensus size: 684
145437 TTTCCCCCAC
145447 AGGCTCTTCCAGAAACGACTGATGAACTTAGTATCACGATCTGAAGTGATGGATCGAGGAACACC
1 AGGCTCTTCCAGAAACGACTGATGAACTTAGTATCACGATCTGAAGTGATGGATCGAGGAACACC
* *
145512 ATGTAAATGCATAATCTCCTTGAAATAGAGATGGGTAATCCGGTCAGCATCCATAGTCTTTCTGC
66 ATGTAAACGCATAATCTCCTTGAAATAGAGATGGGCAATCCGGTCAGCATCCATAGTCTTTCTGC
145577 AAGCTACAAAATGAGCCATCTTGGAAAACCTGTCAACCACAACAAAGATAGAATCCGAGGCCCTT
131 AAGCTACAAAATGAGCCATCTTGGAAAACCTGTCAACCACAACAAAGATAGAATCCGAGGCCCTT
*
145642 TGGGTGCGGGGTAAGCCTAGTGGTTATCCTGCAAGCGCTCCAACAGATGATTCACAAGAGAAAAT
196 TGGGTGCGGGGTAAGCCTAGTGATTATCCTGCAAGCGCTCCAACAGATGATTCACAAGAGAAAAT
145707 TCGCCCAAAAAAATCCAGAGAAAAAGTCTCTAGGGTTTAATAAAATCTATCAAATCAAACAATGC
261 TCGCCCAAAAAAATCCAGAGAAAAAGTCTCTAGGGTTTAATAAAATCTATCAAATCAAACAATGC
* *
145772 CAAAATCAGTCCACAAGCCGTACTGTTATAGCAAAAAATCGTCTTTATTCGAATTTTGCCAAAAA
326 CAAAATCAGTCCACAAGCCGGACTGTTATAGCAAAAAATCGTCTTTATTCGAATTTTACCAAAAA
* *
145837 TAAAAAAATCCCGAAAATCACTCTAAATTGAAATTCGAAATAAGATAAGCAATCTCCTAAAAATT
391 TAAAAAAATCCCGAAAATCACTCTAAATTGAAATTCGAAATAAGATAAGCAATCTCCAAAAAATC
*
145902 CGGCCTAAATCGGATTTAAATTGACTTCCTAATTGACAATCGAAATATTACAATAAATAGTAAAA
456 CGACCTAAATCGGATTTAAATTGACTTCCTAATTGACAATCGAAATATTACAATAAATAGTAAAA
145967 AATATCTAATTCTAGTGATTCGGAGGGGAAAACGGCAGAATTTGAGGTTGAAAGAAAGGCCATAT
521 AATATCTAATTCTAGTGATTCGGAGGGGAAAACGGCAGAATTTGAGGTTGAAAGAAAGGCCATAT
146032 GGAGCATAGCTCAATGTGGAGAGCGTGCGCGTCGAAAAGAGCTTTCCGAATTGGGGTCTTATGCG
586 GGAGCATAGCTCAATGTGGAGA-CGTGCGCGTCGAAAAGAGCTTTCCGAATTGGGGTCTTATGCG
146097 CGATTCTGACACATGTAGCCAAAGTTATGGCCAAA
650 CGATTCTGACACATGTAGCCAAAGTTATGGCCAAA
*
146132 AGGCTCTTCCAGAAATGACTGATGAACTTAGTATCACGATCTGAAGTGATGGATCGAGGAACACC
1 AGGCTCTTCCAGAAACGACTGATGAACTTAGTATCACGATCTGAAGTGATGGATCGAGGAACACC
*
146197 ATGTAAACGCATAATCTCCTTGAAATAGAGATGGGCAATCCGGTTAGCATCCATAGTCTTTCTGC
66 ATGTAAACGCATAATCTCCTTGAAATAGAGATGGGCAATCCGGTCAGCATCCATAGTCTTTCTGC
146262 AAGCTACAAAATGAGCCATCTTGGAAAACCTGTCAACCACAACAAAGATAGAATCCGAGGCCCTT
131 AAGCTACAAAATGAGCCATCTTGGAAAACCTGTCAACCACAACAAAGATAGAATCCGAGGCCCTT
146327 TGGGTGCGGGGTAAGCCTAGTGATTATCCTGCAAGCGCTCCAACAGATGATTCACAAGAGAAAAT
196 TGGGTGCGGGGTAAGCCTAGTGATTATCCTGCAAGCGCTCCAACAGATGATTCACAAGAGAAAAT
* *
146392 TCGCCCAAAAAAATCTAGAGAAAAAGTCTCTAGGGTTTAATAAAATATTATCAAATCAAACAATG
261 TCGCCCAAAAAAATCCAGAGAAAAAGTCTCTAGGGTTTAATAAAAT-CTATCAAATCAAACAATG
146457 CCAAAATCAGTCCACAAGCCGGACTGTTATAGCAAAAAATCGTCTTTATTCGAATTTTACCAAAA
325 CCAAAATCAGTCCACAAGCCGGACTGTTATAGCAAAAAATCGTCTTTATTCGAATTTTACCAAAA
**
146522 ATAGCAAAATCCCGAAAATCACTCTAAATTGAAATTCGAAATAAGATAAGCAATCTCCAAAAAAA
390 ATAAAAAAATCCCGAAAATCACTCTAAATTGAAATTCGAAATAAGATAAGCAATCTCC-AAAAAA
*
146587 TCCGACCTAAATCGGATTTAAATTGACTTCTTAATTGACAATCGAAATATTACAATAAATAGTAA
454 TCCGACCTAAATCGGATTTAAATTGACTTCCTAATTGACAATCGAAATATTACAATAAATAGTAA
*
146652 AAAATATCTAATTCTAGTGATTCGGAGGGGAAAACGGCAGAATTTGAGGTTGAAAGAAAGTCCAT
519 AAAATATCTAATTCTAGTGATTCGGAGGGGAAAACGGCAGAATTTGAGGTTGAAAGAAAGGCCAT
* * *
146717 ATGGAGCATATCTCAATGTGGAGA-GTGTGCGTCGAAAAGAGCTTTCTGAATTGGGGTCTTATGC
584 ATGGAGCATAGCTCAATGTGGAGACGTGCGCGTCGAAAAGAGCTTTCCGAATTGGGGTCTTATGC
*
146781 GCGATTCTGACACCTGTAGCCAAAGTTATGGCCAAA
649 GCGATTCTGACACATGTAGCCAAAGTTATGGCCAAA
146817 AGGCT
1 AGGCT
146822 GAAACATACT
Statistics
Matches: 668, Mismatches: 20, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
685 378 0.57
686 136 0.20
687 154 0.23
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (684 bp):
AGGCTCTTCCAGAAACGACTGATGAACTTAGTATCACGATCTGAAGTGATGGATCGAGGAACACC
ATGTAAACGCATAATCTCCTTGAAATAGAGATGGGCAATCCGGTCAGCATCCATAGTCTTTCTGC
AAGCTACAAAATGAGCCATCTTGGAAAACCTGTCAACCACAACAAAGATAGAATCCGAGGCCCTT
TGGGTGCGGGGTAAGCCTAGTGATTATCCTGCAAGCGCTCCAACAGATGATTCACAAGAGAAAAT
TCGCCCAAAAAAATCCAGAGAAAAAGTCTCTAGGGTTTAATAAAATCTATCAAATCAAACAATGC
CAAAATCAGTCCACAAGCCGGACTGTTATAGCAAAAAATCGTCTTTATTCGAATTTTACCAAAAA
TAAAAAAATCCCGAAAATCACTCTAAATTGAAATTCGAAATAAGATAAGCAATCTCCAAAAAATC
CGACCTAAATCGGATTTAAATTGACTTCCTAATTGACAATCGAAATATTACAATAAATAGTAAAA
AATATCTAATTCTAGTGATTCGGAGGGGAAAACGGCAGAATTTGAGGTTGAAAGAAAGGCCATAT
GGAGCATAGCTCAATGTGGAGACGTGCGCGTCGAAAAGAGCTTTCCGAATTGGGGTCTTATGCGC
GATTCTGACACATGTAGCCAAAGTTATGGCCAAA
Found at i:149980 original size:679 final size:672
Alignment explanation
Indices: 149056--150320 Score: 2127
Period size: 679 Copynumber: 1.9 Consensus size: 672
149046 GTTTCCCTAC
149056 AGGCTCTTCCAGAAACGACTGATGAACTTAGTATCACGATCTGAAGTGATGGATCGAGGACACCA
1 AGGCTCTTCCAGAAACGACTGATGAACTTAGTATCACGATCTGAAGTGATGGATCGAGGACACCA
* *
149121 TGTAATGCATAATCTCCTTGAAATAGAGATGGGTAATCCGGTCAGCATCCATAGTCTTTCTGCAA
66 TGTAACGCATAATCTCCTTGAAATAGAGATGGGCAATCCGGTCAGCATCCATAGTCTTTCTGCAA
149186 GCTACAAAATGAGCCATCTTGGAAACCTGTCAACCACAACAAAGATGAATCCGAGGCCCTTTGGG
131 GCTACAAAATGAGCCATCTTGGAAACCTGTCAACCACAACAAAGATGAATCCGAGGCCCTTTGGG
*
149251 TGCGGGGTAAGCCTAGTGGTTATCCTGCAAGCGCTCCAACAGATGATTCACAAGAGAAAATTCGC
196 TGCGGGGTAAGCCTAGTGATTATCCTGCAAGCGCTCCAACAGATGATTCAC-A-AGAAAATTCGC
149316 CCAAAAAAATCCAGAGAAAAAGTCTCTAGGGTTTAATAAAAT-CTATCAAATCAAACAATGCCAA
259 CC--AAAAATCCAGAGAAAAAGTCTCTAGGGTTTAATAAAATACTATCAAATCAAACAATGCC-A
* *
149380 AATCAGTCCACAAGCCGTACTG-TTATAGCAAAAAATCGTCTTTATTCGAATTTTGCCAAAAATA
321 AATCAGTCCACAAGCCGGACTGTTTATAGCAAAAAATCGTC-TTATTCGAATTTTACCAAAAATA
* *
149444 AAAAAATCCCGAAAATCACTCTAAATTGAAATTCGAAATAAGATAAGCAATCTCCTAAAAATTCG
385 AAAAAATCCCG-AAA-CACTCTAAATTGAAATTCGAAATAAGATAAGCAATCT-CAAAAAATCCG
* *
149509 GCCTAAATCGGATTTAAATTGACTTCCTAA-TGACAATCGAAATATTATAATAAATAGTAAAAAA
447 ACCTAAATCGGATTTAAATTGACTTCCTAATTGACAATCGAAA-ATTACAATAAATAGT-AAAAA
149573 TATCTAATTCTAGTGATTCGGA-GGGGAAAACGGCAGAATTTGAGGTTGAAAG-AAGGCCATAT-
510 TATCTAATTCTAGTGATTCGGAGGGGGAAAACGGCAGAATTTGAGGTTGAAAGAAAGGCCATATG
149635 GAGCATAGCTCAATGGGAGAGCGTGCGCGTCGAAAAGAGCTTTCCGAATTGGGGTCTTATGCGCG
575 GAGCATAGCTCAATGGGAGAGCGTGCGCGTCGAAAAGAGCTTTCCGAATTGGGGTCTTATGCGCG
149700 ATTCTGACACATGTAGCCAAAGTTATGGCCAAA
640 ATTCTGACACATGTAGCCAAAGTTATGGCCAAA
*
149733 AGGCTCTT-CAGAAATGACTGATGAACTTAGTATCACGATCTGACAGTGATGGATCGAGGAACAC
1 AGGCTCTTCCAGAAACGACTGATGAACTTAGTATCACGATCTGA-AGTGATGGATCGAGG-ACAC
*
149797 CATGTAAACGCATAATCTCCTTGAAATAGAG-TGGGCAATCCGGTTAGCATCCATAGTCTTTCTG
64 CATGT-AACGCATAATCTCCTTGAAATAGAGATGGGCAATCCGGTCAGCATCCATAGTCTTTCTG
149861 CAAGCTAC-AAATGAGCCATCTTGGAAAAACCTGTCAACCACAACAAAGATAGAATCCGAGGCCC
128 CAAGCTACAAAATGAGCCATCTTGG--AAACCTGTCAACCACAACAAAGAT-GAATCCGAGGCCC
149925 TTT-GGTGCGGGGTAAGCCTAGTGATTATCCTGCAAGCGCTCCAACAGATGATTCACAAGAAAAT
190 TTTGGGTGCGGGGTAAGCCTAGTGATTATCCTGCAAGCGCTCCAACAGATGATTCACAAGAAAAT
* *
149989 TCGCCCAAAAATCTAGAGAAAAAGTCTCTAGGGTTTAATAAAATATTATCAAATCAAACAATGCC
255 TCGCCCAAAAATCCAGAGAAAAAGTCTCTAGGGTTTAATAAAATACTATCAAATCAAACAATGCC
150054 AAATCAGTCCACAAGCCGGACTGTTTATAGCAAAAAATCGTCTTATTCGAATTTTACCAAAAATA
320 AAATCAGTCCACAAGCCGGACTGTTTATAGCAAAAAATCGTCTTATTCGAATTTTACCAAAAATA
** *
150119 GCAAAATCCCGAAACACTCTAAATTGAAATTCGAAATAAGATAATCAATCTCAAAAAATCCGACC
385 AAAAAATCCCGAAACACTCTAAATTGAAATTCGAAATAAGATAAGCAATCTCAAAAAATCCGACC
*
150184 TAAATCGGATTTAAATTGACTTCTTAATTGACAATCGAAAATTACAATAAATAGTAAAAATATCT
450 TAAATCGGATTTAAATTGACTTCCTAATTGACAATCGAAAATTACAATAAATAGTAAAAATATCT
* *
150249 AATTCTAGTGATTCGGAGGGGGGAAACGGCAGAATTTGAGGTTGAAAGAAAGTCCATATGGAGCA
515 AATTCTAGTGATTCGGAGGGGGAAAACGGCAGAATTTGAGGTTGAAAGAAAGGCCATATGGAGCA
*
150314 TATCTCA
580 TAGCTCA
150321 CTGACAGCTC
Statistics
Matches: 556, Mismatches: 20, Indels: 27
0.92 0.03 0.04
Matches are distributed among these distances:
671 27 0.05
672 80 0.14
673 57 0.10
674 14 0.03
675 90 0.16
676 71 0.13
677 52 0.09
678 49 0.09
679 100 0.18
680 16 0.03
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (672 bp):
AGGCTCTTCCAGAAACGACTGATGAACTTAGTATCACGATCTGAAGTGATGGATCGAGGACACCA
TGTAACGCATAATCTCCTTGAAATAGAGATGGGCAATCCGGTCAGCATCCATAGTCTTTCTGCAA
GCTACAAAATGAGCCATCTTGGAAACCTGTCAACCACAACAAAGATGAATCCGAGGCCCTTTGGG
TGCGGGGTAAGCCTAGTGATTATCCTGCAAGCGCTCCAACAGATGATTCACAAGAAAATTCGCCC
AAAAATCCAGAGAAAAAGTCTCTAGGGTTTAATAAAATACTATCAAATCAAACAATGCCAAATCA
GTCCACAAGCCGGACTGTTTATAGCAAAAAATCGTCTTATTCGAATTTTACCAAAAATAAAAAAA
TCCCGAAACACTCTAAATTGAAATTCGAAATAAGATAAGCAATCTCAAAAAATCCGACCTAAATC
GGATTTAAATTGACTTCCTAATTGACAATCGAAAATTACAATAAATAGTAAAAATATCTAATTCT
AGTGATTCGGAGGGGGAAAACGGCAGAATTTGAGGTTGAAAGAAAGGCCATATGGAGCATAGCTC
AATGGGAGAGCGTGCGCGTCGAAAAGAGCTTTCCGAATTGGGGTCTTATGCGCGATTCTGACACA
TGTAGCCAAAGTTATGGCCAAA
Found at i:175438 original size:19 final size:19
Alignment explanation
Indices: 175395--175438 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
175385 TATTGATTGA
*
175395 AAATTATTTAAAAATTAAT
1 AAATTATTTAAAAATAAAT
175414 ATAATTATTTAAAAA-AAATT
1 A-AATTATTTAAAAATAAA-T
175434 AAATT
1 AAATT
175439 TTGCAGACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATTATTTAAAAATAAAT
Found at i:176821 original size:18 final size:18
Alignment explanation
Indices: 176764--176824 Score: 95
Period size: 18 Copynumber: 3.3 Consensus size: 18
176754 GCGAGAGTTG
*
176764 TTGCATTCTTCCCGTTAGC
1 TTGC-TTCTCCCCGTTAGC
*
176783 TTACTTCTCCCCGTTAGC
1 TTGCTTCTCCCCGTTAGC
176801 TTGCTTCTCCCCGTTAGC
1 TTGCTTCTCCCCGTTAGC
176819 TTGCTT
1 TTGCTT
176825 TGGAACTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 36 0.92
19 3 0.08
ACGTcount: A:0.08, C:0.34, G:0.15, T:0.43
Consensus pattern (18 bp):
TTGCTTCTCCCCGTTAGC
Found at i:178537 original size:31 final size:31
Alignment explanation
Indices: 178499--178558 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
178489 TAAATTTTAT
* * *
178499 GCATTAGGCGATAGTTTCAGTTATGCATCCA
1 GCATTAGGCGATAATATCAATTATGCATCCA
*
178530 GCATTAGGGGATAATATCAATTATGCATC
1 GCATTAGGCGATAATATCAATTATGCATC
178559 TAGAACTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (31 bp):
GCATTAGGCGATAATATCAATTATGCATCCA
Found at i:181149 original size:15 final size:15
Alignment explanation
Indices: 181129--181159 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
181119 CAACAGATAA
181129 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
181144 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
181159 A
1 A
181160 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:188535 original size:19 final size:19
Alignment explanation
Indices: 188508--188554 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
188498 AAAATTAGAG
* *
188508 CAAAGATCAGAGATCATAA
1 CAAATATCAGAGATCAGAA
* *
188527 CAAATATCATATATCAGAA
1 CAAATATCAGAGATCAGAA
188546 CAAATATCA
1 CAAATATCA
188555 AAGTCTCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.17, G:0.09, T:0.21
Consensus pattern (19 bp):
CAAATATCAGAGATCAGAA
Found at i:194080 original size:3 final size:3
Alignment explanation
Indices: 194072--194111 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
194062 ATTTATCTGG
194072 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA G
194112 AAAGAAGAGG
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:0.33, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:194121 original size:18 final size:18
Alignment explanation
Indices: 194082--194134 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
194072 GGAGGAGGAG
* * *
194082 GAGGAGGAGGAGGAGGAG
1 GAGGAGGAGGAGAAAGAA
194100 GAGGAGGAGGAGAAAGAA
1 GAGGAGGAGGAGAAAGAA
194118 GAGGA-GAGGGAGAAAGA
1 GAGGAGGA-GGAGAAAGA
194135 GGAGATACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 2 0.06
18 29 0.94
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (18 bp):
GAGGAGGAGGAGAAAGAA
Found at i:195257 original size:2 final size:2
Alignment explanation
Indices: 195250--195307 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
195240 TAAAGCTCTC
195250 AT AT AT AT AT AT AT AT AT AT -T 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
195291 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
195308 AAGTTTGTGT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:197256 original size:126 final size:129
Alignment explanation
Indices: 197024--197283 Score: 490
Period size: 126 Copynumber: 2.0 Consensus size: 129
197014 CATTTGGGTT
197024 TCCAAACTATTAAATTAGTTCTAATAATAATTTTTATCACGAGGAGAATTATATTGGATTCAAGT
1 TCCAAACTATTAAATTAGTTCTAATAATAATTTTTATCACGAGGAGAATTATATTGGATTCAAGT
197089 TCGTATATTTGATGGTACGGGTTCGTTAGAGAAGAAAACTGGAATCTCGACCCAGTACCTTCTG-
66 TCG-ATATTTGATGGTACGGGTTCGTTAGAGAAGAAAACTGGAATCTCGACCCAGTACCTTCTGA
197153 TCCAAACTATTAAATTAGTTCTAATAATAATTTTTATCACGAGG-GAATTATATTGGATTCAAGT
1 TCCAAACTATTAAATTAGTTCTAATAATAATTTTTATCACGAGGAGAATTATATTGGATTCAAGT
197217 TCG-TATTTGATGGTACGGGTTCGTTAGAGAAGAAAACTGGAATCTCGACCCAGTACCTTCTGA
66 TCGATATTTGATGGTACGGGTTCGTTAGAGAAGAAAACTGGAATCTCGACCCAGTACCTTCTGA
197280 TCCA
1 TCCA
197284 TTTGTATGCT
Statistics
Matches: 130, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
126 59 0.45
127 4 0.03
128 23 0.18
129 44 0.34
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (129 bp):
TCCAAACTATTAAATTAGTTCTAATAATAATTTTTATCACGAGGAGAATTATATTGGATTCAAGT
TCGATATTTGATGGTACGGGTTCGTTAGAGAAGAAAACTGGAATCTCGACCCAGTACCTTCTGA
Found at i:198189 original size:18 final size:18
Alignment explanation
Indices: 198163--198197 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
198153 TCGAAAGGAC
*
198163 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
198181 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
198198 CGGATGGAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:206526 original size:62 final size:59
Alignment explanation
Indices: 206439--206560 Score: 151
Period size: 59 Copynumber: 2.0 Consensus size: 59
206429 GTATTTGATA
*
206439 ATAAAAGATAGTTTTTTTAGAAAAAATATAAATAAGT-TATTTAATTA-AATAATACTTTAATT
1 ATAAAAGATAGTTTTTCTA-AAAAAA-AT-AATAA-TAT-TTTAATTATAATAATACTTTAATT
*
206501 ATAAAATGATAG-TTTTCTAAAAAAAATAATAATATTTTAATTATAATAATATTTTAATT
1 ATAAAA-GATAGTTTTTCTAAAAAAAATAATAATATTTTAATTATAATAATACTTTAATT
206560 A
1 A
206561 AACAACTTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
58 9 0.16
59 21 0.38
60 2 0.04
61 6 0.11
62 12 0.22
63 5 0.09
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (59 bp):
ATAAAAGATAGTTTTTCTAAAAAAAATAATAATATTTTAATTATAATAATACTTTAATT
Found at i:206548 original size:17 final size:17
Alignment explanation
Indices: 206526--206560 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
206516 TCTAAAAAAA
206526 ATAATAATATTTTAATT
1 ATAATAATATTTTAATT
206543 ATAATAATATTTTAATT
1 ATAATAATATTTTAATT
206560 A
1 A
206561 AACAACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATAATAATATTTTAATT
Found at i:207370 original size:44 final size:46
Alignment explanation
Indices: 207300--207404 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 46
207290 GGCAAGACCT
* * *
207300 GGGTCACACAACATC-AGCATCTCCCAAAAACCTCAGGCGAGGTCC
1 GGGTCACACAACATCGAGCACCACCCAAAAACCTCAAGCGAGGTCC
* * *
207345 GGGTCACAC-ACATCGA-CACCACCCAAATACCTTAAGCTAGGTCC
1 GGGTCACACAACATCGAGCACCACCCAAAAACCTCAAGCGAGGTCC
* *
207389 GAGTGACACAACATCG
1 GGGTCACACAACATCG
207405 GTACCTTGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
44 34 0.68
45 16 0.32
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.14
Consensus pattern (46 bp):
GGGTCACACAACATCGAGCACCACCCAAAAACCTCAAGCGAGGTCC
Found at i:208056 original size:2 final size:2
Alignment explanation
Indices: 208049--208086 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
208039 TATGATAAGG
208049 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
208087 GGGGATAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:209574 original size:31 final size:31
Alignment explanation
Indices: 209536--209747 Score: 345
Period size: 31 Copynumber: 6.8 Consensus size: 31
209526 TGAGGGTTAC
209536 CTATGTTCTTCGGGACATATGGACTGATTAT
1 CTATGTTCTTCGGGACATATGGACTGATTAT
209567 CTATGTTCTTCGGGACATATGGACTGATTAT
1 CTATGTTCTTCGGGACATATGGACTGATTAT
*
209598 CTATGTTCTTCGGGATATATGGACTGATTAT
1 CTATGTTCTTCGGGACATATGGACTGATTAT
*
209629 CTATGTTCTTCGGGACATATGGACTGATTAC
1 CTATGTTCTTCGGGACATATGGACTGATTAT
*
209660 CTATATTCTTCGGGACATATGGACTGATTA-
1 CTATGTTCTTCGGGACATATGGACTGATTAT
* *
209690 CTTATGTTCTTTGGGACATATGGACTGATTAC
1 C-TATGTTCTTCGGGACATATGGACTGATTAT
* *
209722 CTATGTTCTTCGGAATATATGGACTG
1 CTATGTTCTTCGGGACATATGGACTG
209748 GTCATTCGGG
Statistics
Matches: 170, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
30 1 0.01
31 168 0.99
32 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (31 bp):
CTATGTTCTTCGGGACATATGGACTGATTAT
Found at i:212760 original size:13 final size:13
Alignment explanation
Indices: 212757--212817 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
212747 CCGTTGACCC
*
212757 GACCCGACCCATT
1 GACCCGACCCGTT
*
212770 TACCCGACCCGTT
1 GACCCGACCCGTT
212783 GACCTGACCCGACCCGTT
1 G-----ACCCGACCCGTT
*
212801 GACTCGACCCGTT
1 GACCCGACCCGTT
212814 GACC
1 GACC
212818 GTTGACCGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
13 25 0.66
18 13 0.34
ACGTcount: A:0.18, C:0.44, G:0.20, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:212782 original size:31 final size:31
Alignment explanation
Indices: 212739--212817 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
212729 GTCACAACCC
*
212739 GACCGGACCCGTTGACCCGACCCGACCCATT
1 GACCCGACCCGTTGACCCGACCCGACCCATT
* * *
212770 TACCCGACCCGTTGACCTGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCATT
*
212801 GACTCGACCCGTTGACC
1 GACCCGACCCGTTGACC
212818 GTTGACCGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.18, C:0.44, G:0.22, T:0.16
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCATT
Found at i:212809 original size:18 final size:18
Alignment explanation
Indices: 212738--212811 Score: 70
Period size: 18 Copynumber: 4.4 Consensus size: 18
212728 GGTCACAACC
* *
212738 CGACCGGACCCGTTGACC
1 CGACCCGACCCGTTGACT
*
212756 CGACCCGACCCATT---T
1 CGACCCGACCCGTTGACT
212771 --ACCCGACCCGTTGAC-
1 CGACCCGACCCGTTGACT
212786 CTGACCCGACCCGTTGACT
1 C-GACCCGACCCGTTGACT
212805 CGACCCG
1 CGACCCG
212812 TTGACCGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
13 11 0.24
18 33 0.73
19 1 0.02
ACGTcount: A:0.18, C:0.46, G:0.22, T:0.15
Consensus pattern (18 bp):
CGACCCGACCCGTTGACT
Found at i:216807 original size:31 final size:31
Alignment explanation
Indices: 216769--216891 Score: 174
Period size: 31 Copynumber: 4.0 Consensus size: 31
216759 GAGTCGAGGG
*
216769 TTACCTATGTTATTCGGGACATATGAACTGA
1 TTACCTATGTTCTTCGGGACATATGAACTGA
*
216800 TTACCTATGTTCTTCGGGACATATGAACTAA
1 TTACCTATGTTCTTCGGGACATATGAACTGA
* * *
216831 TTTCCTATGTTCTTCGGGAGATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGAACTGA
* * *
216862 TTACTTATGTTCTTCGGAACATATGGACTG
1 TTACCTATGTTCTTCGGGACATATGAACTG
216892 GTCTTTCAGG
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 82 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGAACTGA
Found at i:223496 original size:10 final size:10
Alignment explanation
Indices: 223481--223525 Score: 63
Period size: 10 Copynumber: 4.3 Consensus size: 10
223471 GTCCGATGGT
*
223481 TATATTAATA
1 TATATTATTA
223491 TATATTATTA
1 TATATTATTA
223501 TATATGTATTAA
1 TATAT-TATT-A
223513 TATATTATTA
1 TATATTATTA
223523 TAT
1 TAT
223526 TATTTATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 18 0.56
11 8 0.25
12 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
TATATTATTA
Found at i:223502 original size:8 final size:8
Alignment explanation
Indices: 223480--223529 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
223470 CGTCCGATGG
223480 TTATATTAA
1 TTATATT-A
223489 TATATATTA
1 T-TATATTA
223498 TTATA-TA
1 TTATATTA
*
223505 -TGTATTA
1 TTATATTA
*
223512 ATATATTA
1 TTATATTA
223520 TTATATTA
1 TTATATTA
223528 TT
1 TT
223530 TATGATTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
6 3 0.09
7 4 0.11
8 19 0.54
9 3 0.09
10 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
TTATATTA
Found at i:224060 original size:25 final size:25
Alignment explanation
Indices: 224027--224080 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
224017 GCAACAAAAT
* *
224027 AAGAGAAAGGAGAGTAAGAGACAAC
1 AAGAGAAAGGAGAGCAAGAAACAAC
*
224052 AAGAGAAAGGAGAGCAAGAAACAGC
1 AAGAGAAAGGAGAGCAAGAAACAAC
224077 AAGA
1 AAGA
224081 ACGACGTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.31, T:0.02
Consensus pattern (25 bp):
AAGAGAAAGGAGAGCAAGAAACAAC
Found at i:232985 original size:22 final size:22
Alignment explanation
Indices: 232960--233011 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
232950 TACATTTTGT
* *
232960 AAAGATTATAGATTCTCTTTTC
1 AAAGATGATAGATTATCTTTTC
232982 AAAGATGATAGATTATCTTTTC
1 AAAGATGATAGATTATCTTTTC
233004 AAAGATGA
1 AAAGATGA
233012 AGGCTTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (22 bp):
AAAGATGATAGATTATCTTTTC
Found at i:233581 original size:21 final size:21
Alignment explanation
Indices: 233557--233714 Score: 175
Period size: 21 Copynumber: 7.7 Consensus size: 21
233547 CGAAGAAAAT
*
233557 TAAATCCTTCGGGTAGTTTTG
1 TAAAGCCTTCGGGTAGTTTTG
233578 TAAAGCCTTCGGGTCA--TTTG
1 TAAAGCCTTCGGGT-AGTTTTG
* *
233598 TAAAGCCTTTGAGTCA--TTTG
1 TAAAGCCTTCGGGT-AGTTTTG
*
233618 TAAAGCCTTCAGGTAGTTTTG
1 TAAAGCCTTCGGGTAGTTTTG
**
233639 TAAAGCCTTCACGTAGTTTTG
1 TAAAGCCTTCGGGTAGTTTTG
*
233660 TAAAGCCTTCAGGTCA--TTTG
1 TAAAGCCTTCGGGT-AGTTTTG
*
233680 TAAATCCTTCGGGTAGTTTTG
1 TAAAGCCTTCGGGTAGTTTTG
233701 TAAAGCCTTCGGGT
1 TAAAGCCTTCGGGT
233715 CATTAGTATT
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.02
20 49 0.41
21 67 0.56
22 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (21 bp):
TAAAGCCTTCGGGTAGTTTTG
Found at i:233680 original size:41 final size:40
Alignment explanation
Indices: 233569--233718 Score: 180
Period size: 41 Copynumber: 3.7 Consensus size: 40
233559 AATCCTTCGG
* *
233569 GTAGTTTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTT-T
1 GTAGTTTTGTAAAGCCTTCAGGTCATTTGTAAAGCCTTCC
233608 G-AGTCATTTGTAAAGCCTTCAGGT-AGTTTTGTAAAGCCTTCAC
1 GTAGT--TTTGTAAAGCCTTCAGGTCA--TTTGTAAAGCCTTC-C
* *
233651 GTAGTTTTGTAAAGCCTTCAGGTCATTTGTAAATCCTTCGG
1 GTAGTTTTGTAAAGCCTTCAGGTCATTTGTAAAGCCTTC-C
*
233692 GTAGTTTTGTAAAGCCTTCGGGTCATT
1 GTAGTTTTGTAAAGCCTTCAGGTCATT
233719 AGTATTCCTC
Statistics
Matches: 97, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.03
39 2 0.02
40 17 0.18
41 52 0.54
42 18 0.19
43 2 0.02
44 3 0.03
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.39
Consensus pattern (40 bp):
GTAGTTTTGTAAAGCCTTCAGGTCATTTGTAAAGCCTTCC
Found at i:233683 original size:62 final size:61
Alignment explanation
Indices: 233557--233710 Score: 222
Period size: 62 Copynumber: 2.5 Consensus size: 61
233547 CGAAGAAAAT
** *
233557 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTTTGAGTCATTTG
1 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCACGTCATTTGTAAAGCCTTAGAGTCATTTG
* *
233618 TAAAGCCTTCAGGTAGTTTTGTAAAGCCTTCACGT-AGTTTTGTAAAGCCTTCAG-GTCATTTG
1 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCACGTCA--TTTGTAAAGCCTT-AGAGTCATTTG
233680 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTC
1 TAAATCCTTCGGGTAGTTTTGTAAAGCCTTC
233711 GGGTCATTAG
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
60 1 0.01
61 31 0.37
62 50 0.60
63 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (61 bp):
TAAATCCTTCGGGTAGTTTTGTAAAGCCTTCACGTCATTTGTAAAGCCTTAGAGTCATTTG
Found at i:234060 original size:89 final size:93
Alignment explanation
Indices: 233954--234150 Score: 260
Period size: 95 Copynumber: 2.1 Consensus size: 93
233944 CAAATTCAGT
* * * *
233954 CTTCACGGAAGAGTAGTG-AAGCG-AGAA-CAAGATCCAAATTCTCTCTCCAC-AGAAGAGTAGT
1 CTTCACGGAAGAATAGTGAAAGAGCAGAAGCAAGATCAAAATTCGCTCTCCACGA-AAGAGTAGT
*
234015 GGAACGTA-TTTTCAGCAAAGTATGAAAC
65 GGAACGGATTTTTCAGCAAAGTATGAAAC
234043 CTTCACGGAAGAATAGTGAAACAAGAGCAGAAGCAAGATCAAAATTCGCTCTCCACGAAAGAGTA
1 CTTCACGGAAGAATAGTG--A-AAGAGCAGAAGCAAGATCAAAATTCGCTCTCCACGAAAGAGTA
* *
234108 GTGGAATGGATTTTTCAGCAAAGTATTAAAC
63 GTGGAACGGATTTTTCAGCAAAGTATGAAAC
234139 CTTCACGGAAGA
1 CTTCACGGAAGA
234151 GTAATGAACC
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
89 17 0.18
93 4 0.04
94 4 0.04
95 36 0.39
96 32 0.34
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (93 bp):
CTTCACGGAAGAATAGTGAAAGAGCAGAAGCAAGATCAAAATTCGCTCTCCACGAAAGAGTAGTG
GAACGGATTTTTCAGCAAAGTATGAAAC
Found at i:234096 original size:95 final size:95
Alignment explanation
Indices: 233977--234150 Score: 271
Period size: 95 Copynumber: 1.8 Consensus size: 95
233967 TAGTGAAGCG
* * *
233977 AGAACAAGATCCAAATTCTCTCTCCAC-AGAAGAGTAGTGGAACGTA-TTTTCAGCAAAGTATGA
1 AGAACAAGATCAAAATTCGCTCTCCACGA-AAGAGTAGTGGAACGGATTTTTCAGCAAAGTATGA
234040 AACCTTCACGGAAGAATAGTGAAACAAGAGC
65 AACCTTCACGGAAGAATAGTGAAACAAGAGC
* *
234071 AGAAGCAAGATCAAAATTCGCTCTCCACGAAAGAGTAGTGGAATGGATTTTTCAGCAAAGTATTA
1 AGAA-CAAGATCAAAATTCGCTCTCCACGAAAGAGTAGTGGAACGGATTTTTCAGCAAAGTATGA
234136 AACCTTCACGGAAGA
65 AACCTTCACGGAAGA
234151 GTAATGAACC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
94 4 0.06
95 36 0.50
96 32 0.44
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (95 bp):
AGAACAAGATCAAAATTCGCTCTCCACGAAAGAGTAGTGGAACGGATTTTTCAGCAAAGTATGAA
ACCTTCACGGAAGAATAGTGAAACAAGAGC
Found at i:234487 original size:8 final size:8
Alignment explanation
Indices: 234465--234522 Score: 59
Period size: 8 Copynumber: 7.4 Consensus size: 8
234455 CGTCCGAGTG
234465 TTATATTAA
1 TTATATT-A
234474 TATATATTA
1 T-TATATTA
234483 TTATA-TA
1 TTATATTA
*
234490 -TGTATTA
1 TTATATTA
*
234497 ATATATTA
1 TTATATTA
234505 TTATATTA
1 TTATATTA
234513 TT-TATTA
1 TTATATTA
234520 TTA
1 TTA
234523 CAATGGAGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
6 3 0.07
7 11 0.26
8 19 0.45
9 3 0.07
10 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TTATATTA
Found at i:234503 original size:22 final size:23
Alignment explanation
Indices: 234475--234519 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
234465 TTATATTAAT
234475 ATATATTATTATA-TATGTATTA
1 ATATATTATTATATTATGTATTA
*
234497 ATATATTATTATATTATTTATTA
1 ATATATTATTATATTATGTATTA
234520 TTACAATGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
ATATATTATTATATTATGTATTA
Found at i:234522 original size:10 final size:10
Alignment explanation
Indices: 234466--234520 Score: 65
Period size: 10 Copynumber: 5.1 Consensus size: 10
234456 GTCCGAGTGT
*
234466 TATATTAATA
1 TATATTATTA
234476 TATATTATTA
1 TATATTATTA
234486 TATATGTATTAA
1 TATAT-TATT-A
234498 TATATTATTA
1 TATATTATTA
234508 TATTATTTATTA
1 TA-TA-TTATTA
234520 T
1 T
234521 TACAATGGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
10 17 0.43
11 10 0.25
12 13 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TATATTATTA
Found at i:235034 original size:15 final size:15
Alignment explanation
Indices: 235014--235044 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
235004 ACAGAATAAA
*
235014 AGAAAGGAGAGCAAG
1 AGAAAGGAGAACAAG
235029 AGAAAGGAGAACAAG
1 AGAAAGGAGAACAAG
235044 A
1 A
235045 AACAGCAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.35, T:0.00
Consensus pattern (15 bp):
AGAAAGGAGAACAAG
Found at i:236799 original size:45 final size:45
Alignment explanation
Indices: 236724--236809 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
236714 CAGGACCTGG
* *
236724 GTCACACAACATCAACATCTCCCAAGTACCTTAGGCAAGGTTTGC
1 GTCACACAACATCAACACCTCCCAAATACCTTAGGCAAGGTTTGC
* ** *
236769 GTCACACAACATCAATACCTCTTAAATACCTTAGGCTAGGT
1 GTCACACAACATCAACACCTCCCAAATACCTTAGGCAAGGT
236810 CTGGGTCGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (45 bp):
GTCACACAACATCAACACCTCCCAAATACCTTAGGCAAGGTTTGC
Found at i:242799 original size:21 final size:21
Alignment explanation
Indices: 242766--242809 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
242756 TTTATTAAAT
242766 CTTACAAAGGTAGTACCGATA
1 CTTACAAAGGTAGTACCGATA
242787 CTTATCAAA-GTAGTACCGATA
1 CTTA-CAAAGGTAGTACCGATA
242808 CT
1 CT
242810 ACCTGTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (21 bp):
CTTACAAAGGTAGTACCGATA
Found at i:244000 original size:28 final size:28
Alignment explanation
Indices: 243936--244027 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 28
243926 AACTTATTAG
**
243936 ATATATTTTATTCTT-TTCATAAGCTAAAA
1 ATATATTTTATTCTTATT--TAAATTAAAA
*
243965 ATATATTTTATTCTTATTTAATTTAAAA
1 ATATATTTTATTCTTATTTAAATTAAAA
*
243993 ATATATTTTAATCTTATTTTAAATTAAAA
1 ATATATTTTATTCTTA-TTTAAATTAAAA
244022 ATATAT
1 ATATAT
244028 AATTTTTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
28 23 0.40
29 32 0.56
30 2 0.04
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.52
Consensus pattern (28 bp):
ATATATTTTATTCTTATTTAAATTAAAA
Found at i:244036 original size:24 final size:27
Alignment explanation
Indices: 243960--244043 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 27
243950 TTTCATAAGC
* *
243960 TAAAAATATATTTTATTCTTA-TTTAATT
1 TAAAAATATA--TTAATCTTATTTTAAAT
243988 TAAAAATATATTTTAATCTTATTTTAAAT
1 TAAAAATATA--TTAATCTTATTTTAAAT
*
244017 TAAAAATATA-TAAT-TT-TTTTATAT
1 TAAAAATATATTAATCTTATTTTAAAT
244041 TAA
1 TAA
244044 CTTAAGTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
24 10 0.19
25 2 0.04
26 4 0.08
28 20 0.38
29 16 0.31
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
TAAAAATATATTAATCTTATTTTAAAT
Found at i:244038 original size:29 final size:28
Alignment explanation
Indices: 243960--244062 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 28
243950 TTTCATAAGC
*
243960 TAAAAATATATTTTATTCTTA-TTTAATT
1 TAAAAATATATTTTATT-TTATTTTAAAT
*
243988 TAAAAATATATTTTAATCTTATTTTAAAT
1 TAAAAATATATTTT-ATTTTATTTTAAAT
* *
244017 TAAAAATATATAATTT-TTTTATATTAACT
1 TAAAAATATAT--TTTATTTTATTTTAAAT
* *
244046 TAAGTATTATATTTTAT
1 TAA-AAATATATTTTAT
244063 ATGATAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
28 20 0.32
29 33 0.53
30 6 0.10
31 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TAAAAATATATTTTATTTTATTTTAAAT
Found at i:244175 original size:30 final size:29
Alignment explanation
Indices: 244093--244389 Score: 291
Period size: 29 Copynumber: 10.3 Consensus size: 29
244083 AGAAATATAT
* *
244093 AATATATTTTTTAGTTAAGATAAAAATAA
1 AATATATTTTTAAGTTAAGATAAGAATAA
*
244122 AATATATTTTT-AGTT-A-A-AA-TA-AA
1 AATATATTTTTAAGTTAAGATAAGAATAA
*
244145 AATATATTTTTAATTTAAGATAAGAATAA
1 AATATATTTTTAAGTTAAGATAAGAATAA
* * * *
244174 AAGATATGTTTAAGTTAAAATAAGAATTA
1 AATATATTTTTAAGTTAAGATAAGAATAA
* * * * *
244203 ATTATATTTAATAATTTAAGGTAAGAATAT
1 AATATATTT-TTAAGTTAAGATAAGAATAA
* * * *
244233 AATATATTTTATAATTTAAGTTAAGCATAT
1 AATATATTTT-TAAGTTAAGATAAGAATAA
* **
244263 AATTTATGTAATAAGTTAAGATAAGAATAA
1 AATATAT-TTTTAAGTTAAGATAAGAATAA
244293 AATATATTTTTAAGTTAAGATAAAGAATAA
1 AATATATTTTTAAGTTAAGAT-AAGAATAA
*
244323 AATATATTTTTAAGTTAAAATAAGAATAA
1 AATATATTTTTAAGTTAAGATAAGAATAA
* * * *
244352 AATATATTTTTAGGTCAAGACAATAATAA
1 AATATATTTTTAAGTTAAGATAAGAATAA
244381 AATATATTT
1 AATATATTT
244390 AATAAATCAA
Statistics
Matches: 221, Mismatches: 37, Indels: 20
0.79 0.13 0.07
Matches are distributed among these distances:
23 13 0.06
24 4 0.02
25 3 0.01
26 2 0.01
27 3 0.01
28 5 0.02
29 96 0.43
30 94 0.43
31 1 0.00
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.40
Consensus pattern (29 bp):
AATATATTTTTAAGTTAAGATAAGAATAA
Found at i:244282 original size:60 final size:59
Alignment explanation
Indices: 244105--244363 Score: 268
Period size: 59 Copynumber: 4.5 Consensus size: 59
244095 TATATTTTTT
* *
244105 AGTTAAGATAAAAATAAAATATATTTTT-AGTTAAAATAAA-AATAT-ATTT-TTAAT-
1 AGTTAAGATAAGAATAAAATATATTTTTAAGTTAAGATAAAGAATATAATTTATTAATA
* * *
244159 --TTAAGATAAGAATAAAAGATATGTTTAAGTTAAAAT-AAGAAT-TAATTATATTTAATA
1 AGTTAAGATAAGAATAAAATATATTTTTAAGTTAAGATAAAGAATATAATT-TA-TTAATA
* * * * * *
244216 ATTTAAGGTAAGAATATAATATATTTTATAATTTAAG-TTAAGCATATAATTTATGTAATA
1 AGTTAAGATAAGAATAAAATATATTTT-TAAGTTAAGATAAAGAATATAATTTAT-TAATA
* * **
244276 AGTTAAGATAAGAATAAAATATATTTTTAAGTTAAGATAAAGAATAAAATATATTTTTA
1 AGTTAAGATAAGAATAAAATATATTTTTAAGTTAAGATAAAGAATATAATTTATTAATA
*
244335 AGTTAAAATAAGAATAAAATATATTTTTA
1 AGTTAAGATAAGAATAAAATATATTTTTA
244364 GGTCAAGACA
Statistics
Matches: 170, Mismatches: 21, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
52 26 0.15
53 15 0.09
54 1 0.01
56 5 0.03
59 62 0.36
60 56 0.33
61 5 0.03
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.39
Consensus pattern (59 bp):
AGTTAAGATAAGAATAAAATATATTTTTAAGTTAAGATAAAGAATATAATTTATTAATA
Found at i:246353 original size:2 final size:2
Alignment explanation
Indices: 246346--246403 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
246336 ATAAATAATG
246346 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
246387 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
246404 GTCTATGTGA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:249532 original size:35 final size:33
Alignment explanation
Indices: 249465--249557 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 33
249455 AATATAATTT
*
249465 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATA-AACAAAATTACAATAAGTATTAAATGG
249499 TAAATAAA-AAAATTACAATAACTGATATTAAATGG
1 TAAATAAACAAAATTACAATAA--G-TATTAAATGG
*
249534 T-AATAAACAAAATTAACAAAAAGT
1 TAAATAAACAAAATT-ACAATAAGT
249558 CCAACAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
32 12 0.23
33 3 0.06
34 14 0.27
35 17 0.33
36 6 0.12
ACGTcount: A:0.58, C:0.09, G:0.08, T:0.26
Consensus pattern (33 bp):
TAAATAAACAAAATTACAATAAGTATTAAATGG
Found at i:249564 original size:21 final size:21
Alignment explanation
Indices: 249539--249599 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 21
249529 AATGGTAATA
249539 AACAAAATTAACAAAAAGTCC
1 AACAAAATTAACAAAAAGTCC
249560 AACAAAATAAATTAA-AAAAAGTCC
1 AAC---A-AAATTAACAAAAAGTCC
* *
249584 AACCAAATTAGCAAAA
1 AACAAAATTAACAAAA
249600 TAAAGTAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
20 6 0.18
21 7 0.21
24 13 0.39
25 7 0.21
ACGTcount: A:0.64, C:0.16, G:0.05, T:0.15
Consensus pattern (21 bp):
AACAAAATTAACAAAAAGTCC
Found at i:249583 original size:24 final size:25
Alignment explanation
Indices: 249543--249591 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
249533 GTAATAAACA
249543 AAATTAACAAAAAGTCCAACAAAAT
1 AAATTAACAAAAAGTCCAACAAAAT
*
249568 AAATTAA-AAAAAGTCCAACCAAAT
1 AAATTAACAAAAAGTCCAACAAAAT
249592 TAGCAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.63, C:0.16, G:0.04, T:0.16
Consensus pattern (25 bp):
AAATTAACAAAAAGTCCAACAAAAT
Found at i:251291 original size:29 final size:30
Alignment explanation
Indices: 251256--251326 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
251246 AAAAAAATTA
251256 ATTAAATAAAATATTAA-AAAAT-TTAAAT
1 ATTAAATAAAATATTAACAAAATATTAAAT
*
251284 AGTTAAATAAAATACTAACAAAATATTAAAT
1 A-TTAAATAAAATATTAACAAAATATTAAAT
251315 A-T-AATAAAATAT
1 ATTAAATAAAATAT
251327 ACATTAACGA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 10 0.26
29 16 0.42
30 5 0.13
31 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (30 bp):
ATTAAATAAAATATTAACAAAATATTAAAT
Found at i:251325 original size:17 final size:18
Alignment explanation
Indices: 251293--251326 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
251283 TAGTTAAATA
251293 AAATACTAACAAAATATT
1 AAATACTAACAAAATATT
*
251311 AAATA-TAATAAAATAT
1 AAATACTAACAAAATAT
251327 ACATTAACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATACTAACAAAATATT
Found at i:253732 original size:30 final size:32
Alignment explanation
Indices: 253689--253751 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 32
253679 TATTTTATAT
253689 TAATATATTATATAAATATGT-TTT-TTTAAAA
1 TAATATATTATATAAATAT-TATTTATTTAAAA
*
253720 TAATAT-TTATATAATTATTATTTATTTAAAA
1 TAATATATTATATAAATATTATTTATTTAAAA
253751 T
1 T
253752 TATTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 1 0.03
30 14 0.48
31 14 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (32 bp):
TAATATATTATATAAATATTATTTATTTAAAA
Done.