Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 26 of 356
Found at i:8890285 original size:11 final size:11
Alignment explanation
Indices: 8890259--8890301 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
8890249 CATTAAAACC
8890259 AAAAA-AAAAA
1 AAAAAGAAAAA
8890269 AAAAAGAAAAA
1 AAAAAGAAAAA
*
8890280 AAAAAGAAGAAG
1 AAAAAGAA-AAA
*
8890292 AAAAGGAAAA
1 AAAAAGAAAA
8890302 CAATCGAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 5 0.17
11 15 0.52
12 9 0.31
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:8896297 original size:15 final size:15
Alignment explanation
Indices: 8896277--8896306 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8896267 TTATAGGCCA
*
8896277 AAACATCAAGTAAAT
1 AAACATCAAATAAAT
8896292 AAACATCAAATAAAT
1 AAACATCAAATAAAT
8896307 TCTAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.20
Consensus pattern (15 bp):
AAACATCAAATAAAT
Found at i:8896762 original size:89 final size:89
Alignment explanation
Indices: 8896611--8896790 Score: 342
Period size: 89 Copynumber: 2.0 Consensus size: 89
8896601 GAAATAGCTG
*
8896611 TTGAACCAAGTCGTATTGCAACAAATGAATCAAGGTTCCAAAGATAGATTGGGGGCAAATTAAGA
1 TTGAACCAAGTCGTATTGCAACAAATGAATCAAGGTTCCAAAGATAGATTGAGGGCAAATTAAGA
8896676 AACAAAGACTAACATTTAGAAGCA
66 AACAAAGACTAACATTTAGAAGCA
8896700 TTGAACCAAGTCGTATTGCAACAAATGAATCAAGGTTCCAAAGATAGATTGAGGGCAAATTAAGA
1 TTGAACCAAGTCGTATTGCAACAAATGAATCAAGGTTCCAAAGATAGATTGAGGGCAAATTAAGA
*
8896765 AACAAAGACTAACATTTAGACGCA
66 AACAAAGACTAACATTTAGAAGCA
8896789 TT
1 TT
8896791 TAGCCAGATA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.22
Consensus pattern (89 bp):
TTGAACCAAGTCGTATTGCAACAAATGAATCAAGGTTCCAAAGATAGATTGAGGGCAAATTAAGA
AACAAAGACTAACATTTAGAAGCA
Found at i:8898480 original size:23 final size:23
Alignment explanation
Indices: 8898441--8898505 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
8898431 CATGACATCT
*
8898441 TAATTTGAT-TTAATTTTTATAAA
1 TAATTT-ATATTATTTTTTATAAA
8898464 TAATTTATATTATTTTTT-TAAA
1 TAATTTATATTATTTTTTATAAA
* * * *
8898486 TTACTAATATCATTTTTTAT
1 TAATTTATATTATTTTTTAT
8898506 GTTGTATCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (23 bp):
TAATTTATATTATTTTTTATAAA
Found at i:8902266 original size:18 final size:18
Alignment explanation
Indices: 8902212--8902266 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
8902202 ATAATTAATA
8902212 TAAAATAATATTT-TTTAT
1 TAAAAT-ATATTTATTTAT
* * *
8902230 TCAAAT-TATTGAATCTAT
1 TAAAATATATT-TATTTAT
8902248 TAAAATATATTTATTTAT
1 TAAAATATATTTATTTAT
8902266 T
1 T
8902267 TAATATTTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
16 4 0.14
18 20 0.71
19 4 0.14
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (18 bp):
TAAAATATATTTATTTAT
Found at i:8902774 original size:8 final size:7
Alignment explanation
Indices: 8902747--8902773 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8902737 AAAGTCTTCT
8902747 TTTTTTC
1 TTTTTTC
8902754 TTTTTTC
1 TTTTTTC
8902761 TTTTTTC
1 TTTTTTC
8902768 TTTTTT
1 TTTTTT
8902774 TGTATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:8904681 original size:19 final size:20
Alignment explanation
Indices: 8904653--8904691 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
8904643 TCCCATTATT
8904653 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
8904672 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
8904692 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:8904709 original size:25 final size:23
Alignment explanation
Indices: 8904672--8904717 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
8904662 TTTGTTTTAA
*
8904672 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
8904695 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
8904718 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:8908441 original size:123 final size:123
Alignment explanation
Indices: 8908279--8908524 Score: 316
Period size: 123 Copynumber: 2.0 Consensus size: 123
8908269 TATATTTTAG
* * * *
8908279 TTTTATTATGCATATTTTATTACTTCCATCAATTATATATCAATATTATTATTTAACCATTAGTT
1 TTTTATCATGCACACTTTATTACTTCCATCAATTATATATCAATATTATTATTTAACCATGA-TT
* * *
8908344 GAGTTAGTGTCA-AGTCAATCGGACACCAACTCAACCAAAACCAATTAAAATTTTATAA
65 GAGTTAGTGTCAGAATCAATCAGACACCAACTCAACCAAAACCAAATAAAATTTTATAA
* * ** *
8908402 TTTTATCATGCACACTTTATTA-TATCTATCAATTGTATATTTATATTATTATTTAACCCTGATT
1 TTTTATCATGCACACTTTATTACT-TCCATCAATTATATATCAATATTATTATTTAACCATGATT
* * *
8908466 GAGTTGGTGTCATGAATCAATCAGACATCAACTCAACCAAAACCAAATATAATTTTATA
65 GAGTTAGTGTCA-GAATCAATCAGACACCAACTCAACCAAAACCAAATAAAATTTTATA
8908525 TATGAAATTT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
122 14 0.13
123 51 0.49
124 40 0.38
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (123 bp):
TTTTATCATGCACACTTTATTACTTCCATCAATTATATATCAATATTATTATTTAACCATGATTG
AGTTAGTGTCAGAATCAATCAGACACCAACTCAACCAAAACCAAATAAAATTTTATAA
Found at i:8917513 original size:16 final size:17
Alignment explanation
Indices: 8917492--8917524 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8917482 AAAAAAGTCC
*
8917492 TCAATT-AGGGGCAAAT
1 TCAATTAAGGGGAAAAT
8917508 TCAATTAAGGGGAAAAT
1 TCAATTAAGGGGAAAAT
8917525 AATAGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (17 bp):
TCAATTAAGGGGAAAAT
Found at i:8924654 original size:15 final size:16
Alignment explanation
Indices: 8924634--8924668 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
8924624 ATTAATTAAA
8924634 AGTATA-GGGGAAAAT
1 AGTATAGGGGGAAAAT
8924649 AGTATAGGGGGAAAAT
1 AGTATAGGGGGAAAAT
8924665 AGTA
1 AGTA
8924669 ATTTTTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (16 bp):
AGTATAGGGGGAAAAT
Found at i:8930476 original size:20 final size:21
Alignment explanation
Indices: 8930424--8930465 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
8930414 TTTAAAAAAT
8930424 GATAAAAATTTAATTTAATTC
1 GATAAAAATTTAATTTAATTC
8930445 GATAAAAATTTAATTTAATTC
1 GATAAAAATTTAATTTAATTC
8930466 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
GATAAAAATTTAATTTAATTC
Found at i:8936895 original size:14 final size:14
Alignment explanation
Indices: 8936869--8936905 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
8936859 TTGTTCCCTG
8936869 CTTTGTTTCTGTTT
1 CTTTGTTTCTGTTT
8936883 CTTTTGTTT-TGTTT
1 C-TTTGTTTCTGTTT
8936897 CTTTGTTTC
1 CTTTGTTTC
8936906 CTTAATTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 7 0.33
15 7 0.33
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.73
Consensus pattern (14 bp):
CTTTGTTTCTGTTT
Found at i:8937238 original size:15 final size:14
Alignment explanation
Indices: 8937220--8937250 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
8937210 TTAATTTATT
8937220 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
8937235 TAATAATAATCTAA
1 TAATAATAATCTAA
8937249 TA
1 TA
8937251 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:8937261 original size:21 final size:20
Alignment explanation
Indices: 8937237--8937305 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
8937227 AATGCTAATA
8937237 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
8937258 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
8937277 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
8937298 ATAATAAT
1 ATAATAAT
8937306 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:8938028 original size:35 final size:34
Alignment explanation
Indices: 8937977--8938049 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
8937967 TGTTACCGGT
*
8937977 TGGTCTGGCTCGTATGAGCAT-TTGTTGTGCTGGA
1 TGGTCTGGCTCGTATGAGCATCTAG-TGTGCTGGA
* *
8938011 TGGTACTGGCTCTTATGAGCATCTAGTGTGTTGGA
1 TGGT-CTGGCTCGTATGAGCATCTAGTGTGCTGGA
8938046 TGGT
1 TGGT
8938050 TAACCGTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 4 0.12
35 28 0.82
36 2 0.06
ACGTcount: A:0.14, C:0.14, G:0.34, T:0.38
Consensus pattern (34 bp):
TGGTCTGGCTCGTATGAGCATCTAGTGTGCTGGA
Found at i:8938206 original size:27 final size:27
Alignment explanation
Indices: 8938176--8938233 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
8938166 TTAAACTGTG
*
8938176 ATTGACAAGG-ACTCTGTTAAGAACCTT
1 ATTG-CAAGGAACCCTGTTAAGAACCTT
* * *
8938203 ATTGCCAGGAACCCTGTTAAGGACTTT
1 ATTGCAAGGAACCCTGTTAAGAACCTT
8938230 ATTG
1 ATTG
8938234 TTGGAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (27 bp):
ATTGCAAGGAACCCTGTTAAGAACCTT
Found at i:8950677 original size:55 final size:53
Alignment explanation
Indices: 8950590--8950791 Score: 200
Period size: 55 Copynumber: 3.8 Consensus size: 53
8950580 ATTAGGGTTT
* * *
8950590 AAGGATACCGTGTAAGACCATG-CTAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAA-TGGTAA-GTTTCTAAGGC
* * * * *
8950645 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCTAAGGC
*
8950700 AAAGG-TCCCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTCTAAGGC
* * *
8950749 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG
8950792 GTACCCGTGT
Statistics
Matches: 124, Mismatches: 18, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
48 4 0.03
49 34 0.27
52 2 0.02
53 4 0.03
54 5 0.04
55 70 0.56
56 5 0.04
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTCTAAGGC
Found at i:8951004 original size:16 final size:16
Alignment explanation
Indices: 8950983--8951013 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8950973 ATAAATTTGA
8950983 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
8950999 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
8951014 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:8952385 original size:25 final size:27
Alignment explanation
Indices: 8952357--8952409 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
8952347 TATGTATACT
8952357 ATATATT-T-AAAAAAGTAGAACCCTA
1 ATATATTATAAAAAAAGTAGAACCCTA
*
8952382 ATATTTTACTAAAAAAAGTAGAACCCTA
1 ATATATTA-TAAAAAAAGTAGAACCCTA
8952410 TGTGTTGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 6 0.25
27 1 0.04
28 17 0.71
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (27 bp):
ATATATTATAAAAAAAGTAGAACCCTA
Found at i:8958009 original size:19 final size:19
Alignment explanation
Indices: 8957985--8958034 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
8957975 CTAAAATAAT
*
8957985 TTAAAATAACATTTATTTA
1 TTAAAATAACATTTACTTA
8958004 TTAAAATAACATTTACTTA
1 TTAAAATAACATTTACTTA
8958023 TTAAAATAACAT
1 TTAAAATAACAT
8958035 GGGTCCTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAAATAACATTTACTTA
Found at i:8961866 original size:45 final size:45
Alignment explanation
Indices: 8961713--8962038 Score: 330
Period size: 46 Copynumber: 7.2 Consensus size: 45
8961703 ATGAAATGTG
* * * *** **
8961713 TAAGACCATAGTTGAAAGACACTATGGCAACATGATATAAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-CGGAAATGAA
* * * *
8961759 TAAGACCATGGTTGAAAGATACCATGGCAACGTAACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-GGAAATGAA
*
8961805 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGAAATGAA
* *
8961850 TAAGACCATGATTGAAAGATACCATGGCAACATGACGGGAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGAAATGAA
** * *
8961895 TAAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-GGAAATGAA
* * * * *
8961941 CAAGACCATGGTTGAAAGATACCATGGCAACCTGATAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-CGGAAATGAA
* * * * * *
8961987 TAAGACCATAGTTGAAAGACACTATGGCATCATGTC-GAAGATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGAA-ATGAA
8962032 TAAGACC
1 TAAGACC
8962039 GTGGATGGGA
Statistics
Matches: 235, Mismatches: 41, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
44 2 0.01
45 92 0.39
46 141 0.60
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGAAATGAA
Found at i:8961958 original size:136 final size:137
Alignment explanation
Indices: 8961713--8962020 Score: 422
Period size: 136 Copynumber: 2.2 Consensus size: 137
8961703 ATGAAATGTG
* **** **
8961713 TAAGACCATAGTTGAAAGACACTATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAACATGA-CGGGAATGAATAAGACCATGGTTGAAAGA
* *
8961778 TACCATGGCAACGTAACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA-CG
65 TACCATGGCAACGTAACATGAAAAGAACAAGACCATGGTTGAAAGATACCATGGCAACATGATAG
**
8961842 GGAATGAA
130 AAAATGAA
*
8961850 TAAGACCAT-GATTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATAG-TTGAAAGACACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGA
* * *
8961914 TACCATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGATAG
65 TACCATGGCAACGTAACATGAAAAGAACAAGACCATGGTTGAAAGATACCATGGCAACATGATAG
*
8961979 AAAATGAG
130 AAAATGAA
* *
8961987 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATAGTTGAAAGACACCATGGCAACATG
8962021 TCGAAGATAA
Statistics
Matches: 149, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
136 82 0.55
137 66 0.44
138 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (137 bp):
TAAGACCATAGTTGAAAGACACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
ACCATGGCAACGTAACATGAAAAGAACAAGACCATGGTTGAAAGATACCATGGCAACATGATAGA
AAATGAA
Found at i:8964381 original size:21 final size:20
Alignment explanation
Indices: 8964318--8964381 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
8964308 CAACTTAAAC
*
8964318 AATAATATTTTAATAAAAATA
1 AATAATATTTTAATTAAAA-A
* * *
8964339 AATAAAATAATTAATTTTAAAA
1 AATAATAT-TTTAA-TTAAAAA
8964361 AATAATATTTTAATGTAAAAA
1 AATAATATTTTAAT-TAAAAA
8964382 GAGGTGAAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 1 0.03
21 16 0.48
22 12 0.36
23 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AATAATATTTTAATTAAAAA
Found at i:8973967 original size:22 final size:21
Alignment explanation
Indices: 8973935--8973995 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
8973925 GGGGTTCGAG
*
8973935 TTTTTTCTATATTTTTTTAAGT
1 TTTTTTTTATATTTTTTT-AGT
*
8973957 TTTTTTTTATA-TTCTTTAGT
1 TTTTTTTTATATTTTTTTAGT
*
8973977 TTTTTTTAATAATTTTTTT
1 TTTTTTTTAT-ATTTTTTT
8973996 TAGATGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.36
21 6 0.18
22 15 0.45
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTTTTTTATATTTTTTTAGT
Found at i:8973977 original size:20 final size:22
Alignment explanation
Indices: 8973935--8973983 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
8973925 GGGGTTCGAG
* *
8973935 TTTTTTCTATATTTTTTTAAGT
1 TTTTTTTTATATTTCTTTAAGT
8973957 TTTTTTTTATA-TTCTTT-AGT
1 TTTTTTTTATATTTCTTTAAGT
8973977 TTTTTTT
1 TTTTTTT
8973984 AATAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 5 0.20
22 10 0.40
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTTTTTATATTTCTTTAAGT
Found at i:8975276 original size:28 final size:28
Alignment explanation
Indices: 8975245--8975301 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
8975235 TAATATTTTA
*
8975245 AACTTATTCAACAAATACATATTTACAC
1 AACTTATTCAACAAATACAGATTTACAC
*
8975273 AACTTATTCAACTAATACAGATTTACAC
1 AACTTATTCAACAAATACAGATTTACAC
8975301 A
1 A
8975302 CATACAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (28 bp):
AACTTATTCAACAAATACAGATTTACAC
Found at i:8975515 original size:22 final size:22
Alignment explanation
Indices: 8975490--8975532 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8975480 GCACTATTGA
*
8975490 ACAGAAAGCACTAAAGTGCTAT
1 ACAGAAAGCACGAAAGTGCTAT
* *
8975512 ACAGAGAGCACGAATGTGCTA
1 ACAGAAAGCACGAAAGTGCTA
8975533 AAAGGAGAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (22 bp):
ACAGAAAGCACGAAAGTGCTAT
Found at i:8978983 original size:2 final size:2
Alignment explanation
Indices: 8978976--8979004 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8978966 TTTCGTGTTT
8978976 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8979005 TTATAGTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8979046 original size:16 final size:16
Alignment explanation
Indices: 8979025--8979072 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
8979015 TCCATGACAG
8979025 GATTTGTGTTTTAATT
1 GATTTGTGTTTTAATT
*
8979041 GATTTG-GAATTTGAATT
1 GATTTGTG--TTTTAATT
*
8979058 AATTTGTGTTTTAAT
1 GATTTGTGTTTTAAT
8979073 GTTATAGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 12 0.46
18 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (16 bp):
GATTTGTGTTTTAATT
Found at i:8983588 original size:43 final size:43
Alignment explanation
Indices: 8983527--8983611 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
8983517 TTCAAATCTG
*
8983527 CATATACAAACCAACATTAATTTAATTGTTCAGATGGAATAGA
1 CATATACAAACCAACATTAATTTAATTGTTCAAATGGAATAGA
*
8983570 CATATAGAAACCAACATTAATTTAATTGTTCAAATGGAATAG
1 CATATACAAACCAACATTAATTTAATTGTTCAAATGGAATAG
8983612 GAGGAGAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (43 bp):
CATATACAAACCAACATTAATTTAATTGTTCAAATGGAATAGA
Found at i:8985465 original size:49 final size:49
Alignment explanation
Indices: 8985362--8985466 Score: 151
Period size: 50 Copynumber: 2.2 Consensus size: 49
8985352 AAAAAACCTC
* *
8985362 CTGGG-TTTTGCCTACAAAACGCTGTCGTTAATTAGTAGGGGAACTTTG
1 CTGGGTTTTTGCCTAAAAAACGCTGTCATTAATTAGTAGGGGAACTTTG
* *
8985410 CAGGGTTTTTGCCTATAAAAACGCTGTCATTAATTCGTAGGGGAACTTTG
1 CTGGGTTTTTGCCTA-AAAAACGCTGTCATTAATTAGTAGGGGAACTTTG
8985460 -TGGGTTT
1 CTGGGTTT
8985467 GGGCCTAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 4 0.08
49 15 0.30
50 31 0.62
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (49 bp):
CTGGGTTTTTGCCTAAAAAACGCTGTCATTAATTAGTAGGGGAACTTTG
Found at i:8988534 original size:22 final size:22
Alignment explanation
Indices: 8988509--8988550 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8988499 TTTCTGAACT
8988509 TTAAAATATTCTAA-TTATATTA
1 TTAAAATATTC-AAGTTATATTA
*
8988531 TTAAATTATTCAAGTTATAT
1 TTAAAATATTCAAGTTATAT
8988551 CAATTAGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAAAATATTCAAGTTATATTA
Found at i:8989755 original size:14 final size:15
Alignment explanation
Indices: 8989736--8989767 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8989726 CCACATTTAG
8989736 ATGGAT-ATTATCAA
1 ATGGATAATTATCAA
8989750 ATGGATAATTATCAA
1 ATGGATAATTATCAA
8989765 ATG
1 ATG
8989768 ATCGCCCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (15 bp):
ATGGATAATTATCAA
Found at i:8990292 original size:24 final size:24
Alignment explanation
Indices: 8990260--8990306 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
8990250 AACCATTTAA
8990260 GCTTAATTCAATGATAAAAAAATT
1 GCTTAATTCAATGATAAAAAAATT
8990284 GCTTAATTCAATGATAAAAAAAT
1 GCTTAATTCAATGATAAAAAAAT
8990307 AGTAATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (24 bp):
GCTTAATTCAATGATAAAAAAATT
Found at i:9007675 original size:46 final size:44
Alignment explanation
Indices: 9007575--9007682 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
9007565 TGTCTTTGAC
** * * * *
9007575 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATATAAT
*
9007619 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATA--TATAAT
9007665 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
9007683 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATATAAT
Found at i:9013084 original size:18 final size:18
Alignment explanation
Indices: 9013061--9013103 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9013051 GAATAATTAT
*
9013061 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
* *
9013079 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAA
9013097 TTATTCA
1 TTATTCA
9013104 ATAATAACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:9013103 original size:36 final size:36
Alignment explanation
Indices: 9013061--9013331 Score: 156
Period size: 36 Copynumber: 7.3 Consensus size: 36
9013051 GAATAATTAT
*
9013061 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* * * **
9013097 TTATTCAATAATA-ACTAGTTATTCAGTATTGATCAATTGATCGG
1 TTATTCAGTAACAGTC-AGTTATTCAGTA---A-C-A---ATCAA
* *
9013141 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCA-A
* * *
9013177 -TATTCAGTAACTATTAAGTTATTCAGTAACAGTC-A
1 TTATTCAGTAAC-AGTCAGTTATTCAGTAACAATCAA
* * * * **
9013212 TTCATTCAGTGACAATTAATTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
* * * *
9013249 TTATTCAATAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATC-AA
* * * * *
9013286 -TATCCAGTAACAGTCAATTATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
9013321 TTATTCAGTAA
1 TTATTCAGTAA
9013332 TAATAAGTTA
Statistics
Matches: 175, Mismatches: 42, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
35 17 0.10
36 111 0.63
37 17 0.10
38 1 0.01
39 1 0.01
40 1 0.01
41 2 0.01
44 24 0.14
45 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
Found at i:9013269 original size:72 final size:71
Alignment explanation
Indices: 9013142--9013343 Score: 246
Period size: 72 Copynumber: 2.8 Consensus size: 71
9013132 ATTGATCGGT
* *
9013142 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAA
1 TATCCAGTAACAATCAATTATTCAGTAATATCA-ATTATTCAGTAA-TATTAAGTTATTCAGTAA
*
9013206 CAGTC-AT
64 CAGTCTAA
* * * * *
9013213 TCATTCAGTGACAATTAATTATTCAGTAATGATCAATTATTCAATAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAAT-ATCAATTATTCAGTAATATTAAGTTATTCAGTAA
9013278 CAGTCTAA
64 CAGTCTAA
* * *
9013286 TATCCAGTAACAGTCAATTATCCAGTAATAGTCAATTATTCAGTAATAATAAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAATA-TCAATTATTCAGTAATATTAAGTTATT
9013344 TTCTACCTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
71 2 0.02
72 93 0.85
73 15 0.14
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAATATCAATTATTCAGTAATATTAAGTTATTCAGTAACA
GTCTAA
Found at i:9013333 original size:18 final size:18
Alignment explanation
Indices: 9013141--9013331 Score: 160
Period size: 18 Copynumber: 10.6 Consensus size: 18
9013131 AATTGATCGG
*
9013141 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
9013159 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
*
9013177 -TATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
9013194 GTTATTCAGTAACAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
9013212 TTCATTCAGTGACAATTAA
1 TT-ATTCAGTAACAGTCAA
*
9013231 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * * *
9013249 TTATTCAATAATATTCAG
1 TTATTCAGTAACAGTCAA
9013267 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
9013286 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
9013303 TTATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAA
9013321 TTATTCAGTAA
1 TTATTCAGTAA
9013332 TAATAAGTTA
Statistics
Matches: 139, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
17 19 0.14
18 103 0.74
19 17 0.12
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:9013582 original size:45 final size:45
Alignment explanation
Indices: 9013522--9013721 Score: 301
Period size: 45 Copynumber: 4.4 Consensus size: 45
9013512 TAACAGTAAC
* *
9013522 AATCGGTAACGGTAACAGTAACAATATTCGACACACACAGTGCCG
1 AATCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
*
9013567 AATCGGTAACAGTAACAGTAACAATATTCGACACACATAGTGCCG
1 AATCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
* * *
9013612 AATCGATAACGGTAACAGTAACAATACTCGACACACAAAGTGCCG
1 AATCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
* * * *
9013657 ATTTGATAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCG
1 AATCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
*
9013702 AATCGGTAACAGTAGCAGTA
1 AATCGGTAACAGTAACAGTA
9013722 GCGTTAACAG
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 141 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (45 bp):
AATCGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCG
Found at i:9014139 original size:5 final size:5
Alignment explanation
Indices: 9014130--9014186 Score: 78
Period size: 5 Copynumber: 11.2 Consensus size: 5
9014120 ATTTAATCAT
* * *
9014130 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AATTC AACTC AATTC
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC
9014180 AAATTC A
1 -AATTC A
9014187 CTTTTCCACT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
5 42 0.89
6 5 0.11
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTC
Found at i:9015563 original size:9 final size:9
Alignment explanation
Indices: 9015545--9015579 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
9015535 TTTCTTTTTC
*
9015545 ATTTCTTTT
1 ATTTCATTT
9015554 ATTTCATTT
1 ATTTCATTT
9015563 ATTTC-TTT
1 ATTTCATTT
9015571 ATTTCATTT
1 ATTTCATTT
9015580 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:9015571 original size:17 final size:18
Alignment explanation
Indices: 9015545--9015591 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
9015535 TTTCTTTTTC
9015545 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
9015563 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
9015580 CTTTATTTTATT
1 ATTTCTTTTATT
9015592 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:9015581 original size:13 final size:13
Alignment explanation
Indices: 9015545--9015587 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
9015535 TTTCTTTTTC
* *
9015545 ATTTCTTTTATTT
1 ATTTCATTTCTTT
9015558 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
9015571 ATTTCATTTCTTT
1 ATTTCATTTCTTT
9015584 ATTT
1 ATTT
9015588 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:9018410 original size:35 final size:35
Alignment explanation
Indices: 9018367--9018461 Score: 183
Period size: 35 Copynumber: 2.7 Consensus size: 35
9018357 AACACAGCAC
9018367 TAAT-ATTTATTAGTCAAAAGCATTAGCAATAATT
1 TAATAATTTATTAGTCAAAAGCATTAGCAATAATT
9018401 TAATAATTTATTAGTCAAAAGCATTAGCAATAATT
1 TAATAATTTATTAGTCAAAAGCATTAGCAATAATT
9018436 TAATAATTTATTAGTCAAAAGCATTA
1 TAATAATTTATTAGTCAAAAGCATTA
9018462 TGCTGACGTG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 4 0.07
35 56 0.93
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (35 bp):
TAATAATTTATTAGTCAAAAGCATTAGCAATAATT
Found at i:9024035 original size:29 final size:29
Alignment explanation
Indices: 9024003--9024061 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
9023993 ATTTATTAGA
*
9024003 TGTTTGTTTTTA-AGTCAAATCTAAATCTT
1 TGTTTGTTTTTAGA-TCAAATCCAAATCTT
*
9024032 TGTTTGTTTTTAGATTAAATCCAAATCTT
1 TGTTTGTTTTTAGATCAAATCCAAATCTT
9024061 T
1 T
9024062 CTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (29 bp):
TGTTTGTTTTTAGATCAAATCCAAATCTT
Found at i:9031559 original size:5 final size:6
Alignment explanation
Indices: 9031543--9031567 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9031533 TTATATTTGA
9031543 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
9031568 GATGTACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:9041298 original size:8 final size:8
Alignment explanation
Indices: 9041285--9041310 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9041275 TCCAGGTTCG
9041285 AACATGAA
1 AACATGAA
9041293 AACATGAA
1 AACATGAA
9041301 AACATGAA
1 AACATGAA
9041309 AA
1 AA
9041311 AAATCTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (8 bp):
AACATGAA
Found at i:9042097 original size:22 final size:22
Alignment explanation
Indices: 9042072--9042116 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9042062 TTATAGCAGA
9042072 TAGCCTACTTCAAGAGCATAAG
1 TAGCCTACTTCAAGAGCATAAG
9042094 TAGCCTACTTCAAGAGCATAAG
1 TAGCCTACTTCAAGAGCATAAG
9042116 T
1 T
9042117 GATAGGTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (22 bp):
TAGCCTACTTCAAGAGCATAAG
Found at i:9043982 original size:18 final size:17
Alignment explanation
Indices: 9043948--9043980 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9043938 TATTTAATTT
9043948 TTTAAAATTAGTTTTTA
1 TTTAAAATTAGTTTTTA
*
9043965 TTTAAAATTAATTTTT
1 TTTAAAATTAGTTTTT
9043981 TAAATATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTAAAATTAGTTTTTA
Found at i:9044113 original size:38 final size:40
Alignment explanation
Indices: 9044047--9044134 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 40
9044037 TAAAAAATAT
* *
9044047 TTATATTAAAAATACTACCATAAATATAATAAAAATTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAAAATTTTA
* *
9044087 TTATATTAAAAACAC-A-AATAAGTATAATAAATATTTTA
1 TTATATTAAAAACACTACAATAAATATAATAAAAATTTTA
*
9044125 TTGTATTAAA
1 TTATATTAAA
9044135 TACCATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 28 0.65
39 1 0.02
40 14 0.33
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (40 bp):
TTATATTAAAAACACTACAATAAATATAATAAAAATTTTA
Found at i:9055222 original size:20 final size:20
Alignment explanation
Indices: 9055189--9055228 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9055179 ATATTCTTTA
** *
9055189 TTTTTTTTCCTTTTTAAGTT
1 TTTTTTTTAATTTTGAAGTT
9055209 TTTTTTTTAATTTTGAAGTT
1 TTTTTTTTAATTTTGAAGTT
9055229 AATCAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.72
Consensus pattern (20 bp):
TTTTTTTTAATTTTGAAGTT
Found at i:9057823 original size:52 final size:52
Alignment explanation
Indices: 9057762--9057915 Score: 220
Period size: 52 Copynumber: 2.9 Consensus size: 52
9057752 GATGGAAAAT
* *
9057762 ATGTGATATGTGTTTCTGTATAAGACCATAGCTGAGCTATGTCATCGGTGCA
1 ATGTGATATGTGTTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
**
9057814 ATGTGATATGTGTTT-TCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGTTTCT-GTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
* * *
9057866 ATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATCGGT
1 ATGTGAT-ATGTGTTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGT
9057916 ATGATATGTG
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
51 1 0.01
52 53 0.58
53 37 0.40
54 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (52 bp):
ATGTGATATGTGTTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
Found at i:9057890 original size:105 final size:98
Alignment explanation
Indices: 9057762--9057964 Score: 244
Period size: 105 Copynumber: 2.0 Consensus size: 98
9057752 GATGGAAAAT
* * *
9057762 ATGTGATATGTGTTTCTGTATAAGACCATAGCTGAGCTATGTCATCGGTGCAATGTGATATGTGT
1 ATGTGATATGTGATTCTGTATAAGACCATAGCTGAGATATGGCATCGGT---A--TGATATGTG-
* * *
9057827 TTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
60 ATCCGTATAAGACCATAGCAGGGCTATGGCATCGGTGTG
* *
9057866 ATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGATCCG
1 ATGTGAT-ATGTGATTCTGTATAAGACCATAGCTGAGATATGGCATCGGTATGATATGTGATCCG
* * *
9057931 TGTAAGACCATAGCAGGGTTATGGCTTCGGTGTG
65 TATAAGACCATAGCAGGGCTATGGCATCGGTGTG
9057965 TGATAAGTGA
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
99 33 0.38
100 9 0.10
102 1 0.01
104 7 0.08
105 37 0.43
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (98 bp):
ATGTGATATGTGATTCTGTATAAGACCATAGCTGAGATATGGCATCGGTATGATATGTGATCCGT
ATAAGACCATAGCAGGGCTATGGCATCGGTGTG
Found at i:9057902 original size:53 final size:51
Alignment explanation
Indices: 9057762--9057964 Score: 218
Period size: 52 Copynumber: 4.0 Consensus size: 51
9057752 GATGGAAAAT
* * **
9057762 ATGTGATATGTGTTTCTGTATAAGACCATAGCTGAGCTATGTCATCGGTGCA
1 ATGTGATATGTG-TTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
*
9057814 ATGTGATATGTGTTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGTTCT-GTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* *
9057866 ATGTGATAATGTGATTCTGTATAAGACCATATCTGGGATATGGCATC-G-GT-
1 ATGTGAT-ATGTG-TTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * * * * *
9057916 A--TGATATGTGATCCGTGTAAGACCATAGCAGGGTTATGGCTTCGGTGTG
1 ATGTGATATGTGTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
9057965 TGATAAGTGA
Statistics
Matches: 130, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
46 26 0.20
47 6 0.05
48 6 0.05
50 1 0.01
51 5 0.04
52 51 0.39
53 32 0.25
54 3 0.02
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (51 bp):
ATGTGATATGTGTTCTGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
Found at i:9061244 original size:16 final size:16
Alignment explanation
Indices: 9061223--9061279 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
9061213 TTTGGTTCGC
*
9061223 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
9061239 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
9061255 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
9061271 TGTAATGGA
1 TGTAATGGA
9061280 AAAACTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:9061546 original size:18 final size:17
Alignment explanation
Indices: 9061525--9061559 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9061515 TTATTATTAA
*
9061525 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9061543 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9061560 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9073242 original size:16 final size:16
Alignment explanation
Indices: 9073211--9073247 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
9073201 TTTTGAATAA
9073211 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
9073227 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
9073243 TATTA
1 TATTA
9073248 AAATAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:9073299 original size:22 final size:22
Alignment explanation
Indices: 9073255--9073314 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
9073245 TTAAAATAGA
*
9073255 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
9073275 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
9073297 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
9073315 TATATGACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:9074365 original size:17 final size:18
Alignment explanation
Indices: 9074338--9074373 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
9074328 TATTAAAATA
*
9074338 TTAAAATAAATTATATAT
1 TTAAAATAAATGATATAT
9074356 TTAAAA-AAATGATATAT
1 TTAAAATAAATGATATAT
9074373 T
1 T
9074374 CAAATCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TTAAAATAAATGATATAT
Found at i:9080691 original size:47 final size:49
Alignment explanation
Indices: 9080569--9080748 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 49
9080559 TGTAACCCGC
* * * *
9080569 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
9080615 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
9080665 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTC-ACAT
*
9080709 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
9080749 TCAACCATCC
Statistics
Matches: 114, Mismatches: 7, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:9080737 original size:94 final size:93
Alignment explanation
Indices: 9080577--9080748 Score: 308
Period size: 94 Copynumber: 1.8 Consensus size: 93
9080567 GCCCATAAGT
* *
9080577 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
9080642 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
9080670 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCG-CATCCATAAGTGAACTCGGACTCAACTCA
9080735 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
9080749 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 32 0.43
94 43 0.57
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:9093870 original size:16 final size:17
Alignment explanation
Indices: 9093849--9093883 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
9093839 TAATGTCTAG
9093849 GAAAATTA-TTAATTGA
1 GAAAATTAGTTAATTGA
9093865 GAAAATTAGTTTAATTGA
1 GAAAATTAG-TTAATTGA
9093883 G
1 G
9093884 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
GAAAATTAGTTAATTGA
Found at i:9101425 original size:176 final size:176
Alignment explanation
Indices: 9101055--9101546 Score: 806
Period size: 176 Copynumber: 2.8 Consensus size: 176
9101045 GTGACATCGG
* *
9101055 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCGAAAATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGCGAGTCTTATC
*
9101120 TCCATGTATCGACTATGGAGCAGATTTTAGCCACCAAGCCTTATCTCTCTGAAGTTGCAGAGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACC-AGCCTTATCTCTCTGAAGTTGCAGAGAGC
9101185 AGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
130 AGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * *
9101232 TGAAAATTACAGATCTTATCTCCATGTATCGGTTATGGAACAGATTGAAAATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGCGAGTCTTATC
* *
9101297 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTTGTAGAGAGCA
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGAGAGCA
9101362 GGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
131 GGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * *
9101408 TGAAAATTACAGATCTTATCTCTATGTATTGGCTATGGAGCAGATAAAAAATGACGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGCGAGTCTTATC
* * * *
9101473 TCCATATATCGGCTATGGAGCAGATTTTAGCCA-CAGACCTTATCTCCCTGAAGTTGCAGTGGAA
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAG-CCTTATCTCTCTGAAGTTGCAG-AGAG
9101537 CAGGTTGAAG
129 CAGGTTGAAG
9101547 TCAAACATTA
Statistics
Matches: 293, Mismatches: 20, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
175 3 0.01
176 183 0.62
177 107 0.37
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (176 bp):
TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATAGAAAATGGCGAGTCTTATC
TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGAGAGCA
GGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
Found at i:9107887 original size:21 final size:20
Alignment explanation
Indices: 9107841--9107888 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
9107831 TTTTTATGAT
* *
9107841 TTTTAAAAAAATTTCATACG
1 TTTTATAAAAATTTAATACG
*
9107861 TATTTATAAAAATTTAAATATG
1 T-TTTATAAAAATTT-AATACG
9107883 TTTTAT
1 TTTTAT
9107889 TAATTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTTATAAAAATTTAATACG
Found at i:9107897 original size:9 final size:9
Alignment explanation
Indices: 9107883--9108025 Score: 50
Period size: 9 Copynumber: 15.4 Consensus size: 9
9107873 TTTAAATATG
9107883 TTTTATTAA
1 TTTTATTAA
*
9107892 TTTTATAAAA
1 TTTTAT-TAA
*
9107902 TTTAATATAA
1 TTTTAT-TAA
9107912 -TTTATTAGA
1 TTTTATTA-A
9107921 TTCATTA-TAA
1 TT--TTATTAA
*
9107931 TTTTA-TAGT
1 TTTTATTA-A
*
9107940 TTTTATTAG
1 TTTTATTAA
9107949 TTTATATTAA
1 TTT-TATTAA
9107959 TTTCGTATT-A
1 TTT--TATTAA
9107969 -TTTA-TAA
1 TTTTATTAA
*
9107976 TATTTAATAA
1 T-TTTATTAA
9107986 TTTTGA-TAA
1 TTTT-ATTAA
* *
9107995 TTTTTTTAT
1 TTTTATTAA
*
9108004 TTTTTTGTAA
1 TTTTAT-TAA
9108014 TTTT-TTAA
1 TTTTATTAA
9108022 TTTT
1 TTTT
9108026 TTTCTGATTT
Statistics
Matches: 107, Mismatches: 11, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
6 1 0.01
7 3 0.03
8 14 0.13
9 44 0.41
10 36 0.34
11 6 0.06
12 3 0.03
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTATTAA
Found at i:9107917 original size:28 final size:30
Alignment explanation
Indices: 9107863--9107918 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
9107853 TTCATACGTA
**
9107863 TTTATAAAAATTTAAATATGTTTTATTAAT
1 TTTATAAAAATTTAAATATAATTTATTAAT
9107893 TTTAT-AAAATTT-AATATAATTTATTA
1 TTTATAAAAATTTAAATATAATTTATTA
9107919 GATTCATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 7 0.29
30 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTATAAAAATTTAAATATAATTTATTAAT
Found at i:9108008 original size:19 final size:19
Alignment explanation
Indices: 9107986--9108039 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
9107976 TATTTAATAA
*
9107986 TTTTGATAATTTTTTTATTT
1 TTTTG-TAATTTTTTAATTT
9108006 TTTTGTAATTTTTTAATTT
1 TTTTGTAATTTTTTAATTT
* *
9108025 TTTTCTGATTTTTTA
1 TTTTGTAATTTTTTA
9108040 TTTGAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 26 0.84
20 5 0.16
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (19 bp):
TTTTGTAATTTTTTAATTT
Found at i:9112302 original size:5 final size:5
Alignment explanation
Indices: 9112274--9112338 Score: 66
Period size: 5 Copynumber: 13.2 Consensus size: 5
9112264 AATTATGTTT
*
9112274 TTATA TTATA --ATA TTATTA ATATA TTATA TTATA TTATA -T-TA TTATA
1 TTATA TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA
9112321 TTATTA TTATA TATATA T
1 TTA-TA TTATA T-TATA T
9112339 GACAAAGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
3 5 0.10
4 2 0.04
5 30 0.59
6 14 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:9112404 original size:40 final size:40
Alignment explanation
Indices: 9112347--9112442 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
9112337 ATGACAAAGA
9112347 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
9112388 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
9112428 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
9112443 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:9113208 original size:29 final size:30
Alignment explanation
Indices: 9113149--9113206 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9113139 TCCGAGCCTT
*
9113149 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
9113179 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
9113207 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:9113436 original size:13 final size:13
Alignment explanation
Indices: 9113418--9113449 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9113408 TTTCCAGCAA
9113418 TTATGAATTTATT
1 TTATGAATTTATT
9113431 TTATGAATTTATT
1 TTATGAATTTATT
*
9113444 TGATGA
1 TTATGA
9113450 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:9113664 original size:50 final size:50
Alignment explanation
Indices: 9113544--9113785 Score: 281
Period size: 50 Copynumber: 4.7 Consensus size: 50
9113534 ATTTGGGTAA
* * *
9113544 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC-GAA-A-C--G
9113600 AGAGGTCTCC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAACG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAACG
* * * *
9113650 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAACG
* * *
9113700 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-AACG
**
9113750 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
9113786 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 17, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
49 3 0.02
50 88 0.53
51 29 0.18
52 1 0.01
53 1 0.01
54 2 0.01
55 2 0.01
56 37 0.22
57 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAACG
Found at i:9113737 original size:100 final size:103
Alignment explanation
Indices: 9113544--9113793 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
9113534 ATTTGGGTAA
*
9113544 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCTC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
*
9113609 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-AACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATAACG
* * *
9113650 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
9113712 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATAACG
* *
9113750 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
9113794 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATAACG
Found at i:9116247 original size:13 final size:13
Alignment explanation
Indices: 9116229--9116256 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9116219 TGATCTCTTC
9116229 TGGGTATTCTATA
1 TGGGTATTCTATA
9116242 TGGGTATTCTATA
1 TGGGTATTCTATA
9116255 TG
1 TG
9116257 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:9118247 original size:5 final size:5
Alignment explanation
Indices: 9118219--9118283 Score: 66
Period size: 5 Copynumber: 13.2 Consensus size: 5
9118209 AATTATGTTT
*
9118219 TTATA TTATA --ATA TTATTA ATATA TTATA TTATA TTATA -T-TA TTATA
1 TTATA TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA
9118266 TTATTA TTATA TATATA T
1 TTA-TA TTATA T-TATA T
9118284 GACAAAGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
3 5 0.10
4 2 0.04
5 30 0.59
6 14 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:9118349 original size:40 final size:40
Alignment explanation
Indices: 9118292--9118387 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
9118282 ATGACAAAGA
9118292 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
9118333 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
9118373 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
9118388 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:9119146 original size:29 final size:30
Alignment explanation
Indices: 9119093--9119149 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9119083 TCCGAGCCTT
9119093 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGTAAAAGTTTA
* *
9119123 GGGGCAAAATTGTAATTTTG-AAAAGTT
1 GGGGCAAAAATGTAATTATGTAAAAGTT
9119150 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGTAAAAGTTTA
Found at i:9119379 original size:13 final size:13
Alignment explanation
Indices: 9119361--9119392 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9119351 TTTCCAGCAA
9119361 TTATGAATTTATT
1 TTATGAATTTATT
9119374 TTATGAATTTATT
1 TTATGAATTTATT
*
9119387 TGATGA
1 TTATGA
9119393 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:9119600 original size:50 final size:50
Alignment explanation
Indices: 9119487--9119728 Score: 270
Period size: 50 Copynumber: 4.7 Consensus size: 50
9119477 ATTTGGGTAA
* * *
9119487 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC-GAA-A-C--G
* *
9119543 AGAGGTCCCCTGTAACACCATGTCTGGGACATGGCATGGGCACCGAAACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAACG
* * * **
9119593 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAACG
* * *
9119643 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-AACG
**
9119693 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
9119729 TTTGGCATGT
Statistics
Matches: 161, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 87 0.54
51 29 0.18
52 1 0.01
53 1 0.01
54 2 0.01
55 2 0.01
56 38 0.24
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAAACG
Found at i:9119683 original size:100 final size:104
Alignment explanation
Indices: 9119487--9119736 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
9119477 ATTTGGGTAA
9119487 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TAAGATCA-GAGAGGTCCC
*
9119552 CTGTAACACCATGTCTGGGACATGGCATGGGCACCGA-AACG
64 CTATAACACCATGTCTGGGACATGGCATGGGCACC-ATAACG
* * *
9119593 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGAT-A-AGAGGTCCCCT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCAGAGAGGTCCCCT
* *
9119654 ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 ATAACACCATGTCTGGGACATGGCATGGGCACCATAACG
* *
9119693 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
9119737 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 47 0.36
101 37 0.28
102 1 0.01
103 4 0.03
105 2 0.02
106 40 0.30
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (104 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCAGAGAGGTCCCCT
ATAACACCATGTCTGGGACATGGCATGGGCACCATAACG
Found at i:9121777 original size:5 final size:5
Alignment explanation
Indices: 9121767--9121799 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
9121757 TTGTGTGTTC
9121767 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9121800 TTCACAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:9124943 original size:47 final size:47
Alignment explanation
Indices: 9124834--9124944 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
9124824 CCGGGATAAG
*
9124834 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACAGTATAGTA
* * *
9124881 CACAAAGTACTTCATCGGAACAAATCTGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACAGTA-TAGTA
9124928 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
9124945 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACAGTATAGTA
Found at i:9128701 original size:5 final size:5
Alignment explanation
Indices: 9128691--9128722 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
9128681 TTGTGTGTTC
9128691 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9128723 TTCACTGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:9128710 original size:14 final size:14
Alignment explanation
Indices: 9128691--9128721 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9128681 TTGTGTGTTC
9128691 TTTATTTTATTTTA
1 TTTATTTTATTTTA
9128705 TTTATTTTATTTTA
1 TTTATTTTATTTTA
9128719 TTT
1 TTT
9128722 TTTCACTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:9134361 original size:27 final size:27
Alignment explanation
Indices: 9134327--9134381 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
9134317 TTTACGTCCT
9134327 AGTTTTTAAAAGAAGTATAATTCCCTA
1 AGTTTTTAAAAGAAGTATAATTCCCTA
9134354 AGTTTTTAAAAGAAGTATAATTCCCTA
1 AGTTTTTAAAAGAAGTATAATTCCCTA
9134381 A
1 A
9134382 TATCGTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (27 bp):
AGTTTTTAAAAGAAGTATAATTCCCTA
Found at i:9137002 original size:17 final size:17
Alignment explanation
Indices: 9136977--9137023 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
9136967 GCTAATTTCT
9136977 AAAAT-TAAATTGAGAA
1 AAAATATAAATTGAGAA
*
9136993 AAAATATAAAATTTAGAA
1 AAAATAT-AAATTGAGAA
*
9137011 AAATAAATAAATT
1 AAA-ATATAAATT
9137024 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 5 0.19
17 1 0.04
18 17 0.65
19 3 0.12
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAATATAAATTGAGAA
Found at i:9138435 original size:16 final size:16
Alignment explanation
Indices: 9138402--9138435 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9138392 AGTTAGTGTT
* *
9138402 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
9138418 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
9138434 AA
1 AA
9138436 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:9141263 original size:21 final size:21
Alignment explanation
Indices: 9141237--9141277 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9141227 AGATGAGCAA
* *
9141237 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
9141258 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
9141278 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9143216 original size:16 final size:16
Alignment explanation
Indices: 9143183--9143216 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9143173 GGAGATTGTT
* *
9143183 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
9143199 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
9143215 AA
1 AA
9143217 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:9156755 original size:39 final size:39
Alignment explanation
Indices: 9156711--9156788 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
9156701 AGTTTCAATC
*
9156711 CTCACTAAACTATAATTGTTAAATTTTGTTATCTTCAAA
1 CTCACTAAACTATAATTCTTAAATTTTGTTATCTTCAAA
*
9156750 CTCACTAAACTATAATTCTTAAATTTTGTTATTTTCAAA
1 CTCACTAAACTATAATTCTTAAATTTTGTTATCTTCAAA
9156789 ATCAGATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (39 bp):
CTCACTAAACTATAATTCTTAAATTTTGTTATCTTCAAA
Found at i:9159041 original size:21 final size:20
Alignment explanation
Indices: 9159007--9159060 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 20
9158997 TTTTTCCCAT
9159007 AAAAATAT-TAAAAAATCAG
1 AAAAATATATAAAAAATCAG
9159026 AAAAATATATATAAAAATCAG
1 AAAAATATATA-AAAAATCAG
9159047 AAAAAT-TATAAAAA
1 AAAAATATATAAAAA
9159061 TAATTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.36
20 6 0.18
21 15 0.45
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
AAAAATATATAAAAAATCAG
Found at i:9159059 original size:9 final size:9
Alignment explanation
Indices: 9159035--9159160 Score: 66
Period size: 9 Copynumber: 14.0 Consensus size: 9
9159025 GAAAAATATA
9159035 TATAAAAAT
1 TATAAAAAT
* *
9159044 CAGAAAAAT
1 TATAAAAAT
9159053 TATAAAAAT
1 TATAAAAAT
* *
9159062 AATTTAAAAT
1 TA-TAAAAAT
*
9159072 TA-AAATAT
1 TATAAAAAT
9159080 T-TAAATAAT
1 TATAAA-AAT
*
9159089 TATTAAAAT
1 TATAAAAAT
*
9159098 TAATATAAACT
1 T-ATA-AAAAT
*
9159109 TATAAATAT
1 TATAAAAAT
9159118 TATAAAAA-
1 TATAAAAAT
*
9159126 TA-ATAAAT
1 TATAAAAAT
*
9159134 CTA-ATAAAT
1 -TATAAAAAT
9159143 TA-AAAAAT
1 TATAAAAAT
9159151 ATATAAAAAT
1 -TATAAAAAT
9159161 CAATTAAAAT
Statistics
Matches: 89, Mismatches: 18, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
7 4 0.04
8 17 0.19
9 42 0.47
10 21 0.24
11 5 0.06
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (9 bp):
TATAAAAAT
Found at i:9159084 original size:26 final size:26
Alignment explanation
Indices: 9159047--9159100 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
9159037 TAAAAATCAG
9159047 AAAAATTATAAA-AATAATTTAAAATT
1 AAAAATTATAAATAATAA-TTAAAATT
*
9159073 AAAATATT-TAAATAATTATTAAAATT
1 AAAA-ATTATAAATAATAATTAAAATT
9159099 AA
1 AA
9159101 TATAAACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAAATTATAAATAATAATTAAAATT
Found at i:9159131 original size:18 final size:18
Alignment explanation
Indices: 9159110--9159160 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
9159100 ATATAAACTT
9159110 ATAAATATTATAAAAATA
1 ATAAATATTATAAAAATA
* * *
9159128 ATAAATCTAAT-AAATTA
1 ATAAATATTATAAAAATA
*
9159145 AAAAATA-TATAAAAAT
1 ATAAATATTATAAAAAT
9159161 CAATTAAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
16 2 0.08
17 14 0.56
18 9 0.36
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATATTATAAAAATA
Found at i:9159851 original size:10 final size:10
Alignment explanation
Indices: 9159832--9159886 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
9159822 TTTTGTAAAA
9159832 ATAA-TTTAT
1 ATAATTTTAT
9159841 ATAATTTTAT
1 ATAATTTTAT
9159851 ATTAATTTTA-
1 A-TAATTTTAT
*
9159861 ATAAATTT-T
1 ATAATTTTAT
9159870 ATAATTTTCA-
1 ATAATTTT-AT
9159880 ATAATTT
1 ATAATTT
9159887 GTTATGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 17 0.44
10 14 0.36
11 8 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (10 bp):
ATAATTTTAT
Found at i:9159858 original size:11 final size:11
Alignment explanation
Indices: 9159836--9159872 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
9159826 GTAAAAATAA
9159836 TTTATA-TAAT
1 TTTATATTAAT
9159846 TTTATATTAAT
1 TTTATATTAAT
*
9159857 TTTA-ATAAAT
1 TTTATATTAAT
9159867 TTTATA
1 TTTATA
9159873 ATTTTCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTATATTAAT
Found at i:9159876 original size:18 final size:20
Alignment explanation
Indices: 9159853--9159897 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
9159843 AATTTTATAT
9159853 TAATTTT-AATAAATT-TTA
1 TAATTTTCAATAAATTGTTA
*
9159871 TAATTTTCAATAATTTGTTA
1 TAATTTTCAATAAATTGTTA
*
9159891 TGATTTT
1 TAATTTT
9159898 TAAAGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 7 0.30
20 9 0.39
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
TAATTTTCAATAAATTGTTA
Found at i:9159957 original size:18 final size:19
Alignment explanation
Indices: 9159924--9159959 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9159914 CTTTTTATAG
9159924 AATTTTAAATTCTTTTATT
1 AATTTTAAATTCTTTTATT
*
9159943 AATTTT-AATTTTTTTAT
1 AATTTTAAATTCTTTTAT
9159960 ATCTTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTAAATTCTTTTATT
Found at i:9162965 original size:9 final size:9
Alignment explanation
Indices: 9162951--9163124 Score: 66
Period size: 9 Copynumber: 19.6 Consensus size: 9
9162941 CTACTTTTAT
9162951 TAAAAATTA
1 TAAAAATTA
9162960 TAAAAA-T-
1 TAAAAATTA
9162967 T-AAAATCTA
1 TAAAAAT-TA
9162976 T-AAAATCTA
1 TAAAAAT-TA
*
9162985 TAAATATTA
1 TAAAAATTA
*
9162994 T-AAAATTT
1 TAAAAATTA
9163002 TAATAAA-TA
1 TAA-AAATTA
*
9163011 TTCAAATATTA
1 -T-AAAAATTA
*
9163022 -AAAATTTA
1 TAAAAATTA
9163030 TTAAAAATTA
1 -TAAAAATTA
* *
9163040 -GAATA-TA
1 TAAAAATTA
*
9163047 TATAAA-TA
1 TAAAAATTA
*
9163055 GAAAAAATATA
1 -TAAAAAT-TA
*
9163066 AAAAAATTA
1 TAAAAATTA
*
9163075 TAAAATTTGA
1 TAAAAATT-A
*
9163085 TAAAAATCA
1 TAAAAATTA
9163094 TAAAAATTA
1 TAAAAATTA
9163103 T-AAAATATA
1 TAAAAAT-TA
*
9163112 TAGAAA-TA
1 TAAAAATTA
9163120 TAAAA
1 TAAAA
9163125 TTTTACAAAA
Statistics
Matches: 125, Mismatches: 22, Indels: 37
0.68 0.12 0.20
Matches are distributed among these distances:
6 4 0.03
7 3 0.02
8 32 0.26
9 46 0.37
10 34 0.27
11 6 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:9163039 original size:18 final size:17
Alignment explanation
Indices: 9162949--9163107 Score: 76
Period size: 18 Copynumber: 9.0 Consensus size: 17
9162939 CCCTACTTTT
9162949 ATTAAAAA-TTATAAAA
1 ATTAAAAATTTATAAAA
*
9162965 ATT-AAAATCTAT-AAA
1 ATTAAAAATTTATAAAA
*
9162980 ATCTATAAATATTATAAAA
1 AT-TAAAAAT-TTATAAAA
* * *
9162999 TTTTAATAAATATT-CAAAT
1 -ATTAA-AAAT-TTATAAAA
9163018 ATTAAAAATTTATTAAAA
1 ATTAAAAATTTA-TAAAA
* * *
9163036 ATTAGAATATATATAAAT
1 ATTA-AAAATTTATAAAA
** * *
9163054 AGAAAAAATATAAAAAA
1 ATTAAAAATTTATAAAA
9163071 ATTATAAAATTTGATAAAA
1 ATTA-AAAATTT-ATAAAA
9163090 ATCATAAAAA-TTATAAAA
1 AT--TAAAAATTTATAAAA
9163108 TATATAGAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
15 9 0.08
16 9 0.08
17 20 0.19
18 32 0.30
19 23 0.21
20 12 0.11
21 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (17 bp):
ATTAAAAATTTATAAAA
Found at i:9163044 original size:26 final size:28
Alignment explanation
Indices: 9162986--9163052 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 28
9162976 TAAAATCTAT
*
9162986 AAATATTATAAAATTTTAATAAATATTC
1 AAATATTATAAAATTTTAATAAAAATTC
*
9163014 AAATATTA-AAAA-TTTATTAAAAATT-
1 AAATATTATAAAATTTTAATAAAAATTC
9163039 AGAATATATATAAA
1 A-AATAT-TATAAA
9163053 TAGAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 16 0.47
27 6 0.18
28 11 0.32
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
AAATATTATAAAATTTTAATAAAAATTC
Found at i:9163089 original size:28 final size:27
Alignment explanation
Indices: 9163058--9163124 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
9163048 ATAAATAGAA
*
9163058 AAAATATAAAAAAATTATAAAATTTGAT
1 AAAATATAAAAAAATTATAAAATAT-AT
*
9163086 AAAA-ATCATAAAAATTATAAAATATAT
1 AAAATAT-AAAAAAATTATAAAATATAT
9163113 AGAAATATAAAA
1 A-AAATATAAAA
9163125 TTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
28 26 0.79
29 2 0.06
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAATATAAAAAAATTATAAAATATAT
Found at i:9163149 original size:46 final size:45
Alignment explanation
Indices: 9163057--9163170 Score: 124
Period size: 46 Copynumber: 2.4 Consensus size: 45
9163047 TATAAATAGA
*
9163057 AAAAATATAAAAAAATTATAAAATTTGATAAAAATCATAAAAATTAT
1 AAAAATATAAAGAAA-TATAAAATTT-ATAAAAATCATAAAAATTAT
* *
9163104 -AAAATATATAGAAATATAAAATTT-TACAAAATCTTAAGAAGATTAT
1 AAAAATATAAAGAAATATAAAATTTATA-AAAATCATAA-AA-ATTAT
*
9163150 ACAAAATGTAAAGAAATATAA
1 A-AAAATATAAAGAAATATAA
9163171 TGTAATACCC
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
43 2 0.04
44 9 0.16
45 12 0.21
46 17 0.30
48 17 0.30
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (45 bp):
AAAAATATAAAGAAATATAAAATTTATAAAAATCATAAAAATTAT
Found at i:9165742 original size:18 final size:17
Alignment explanation
Indices: 9165696--9165750 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
9165686 ATTTTAATTT
9165696 TTTATT-TTTTATTAAAA
1 TTTATTATTTT-TTAAAA
* *
9165713 TTTAATAATTTTCTAAAA
1 TTT-ATTATTTTTTAAAA
*
9165731 TTTATTATTTTTTATAA
1 TTTATTATTTTTTAAAA
9165748 TTT
1 TTT
9165751 TTAATAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 17 0.55
18 10 0.32
19 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATTATTTTTTAAAA
Found at i:9165847 original size:86 final size:87
Alignment explanation
Indices: 9165756--9165965 Score: 237
Period size: 90 Copynumber: 2.4 Consensus size: 87
9165746 AATTTTTAAT
*
9165756 AAAAGCGGGAGCTTAATTGTTTTTTTAAAAAATTTTAAGGGTCTTTT-TGATGCATTTTGAAAAT
1 AAAAGCGGGAGCTTAATTGTTTTTTTAAAAAAGTTTAAGGG-CTTTTCTGATGCATTTTGAAAAT
9165820 TCAAGTACCCAATTGAGTG-AAA
65 TCAAGTACCCAATTGAGTGAAAA
* * * * *
9165842 AAAAGCAGGAGCTTAATTGTTTTTTTTTTTGAAGAAGTTTGAGGGCTTTTCTGATGTATTTTGAA
1 AAAAGCGGGAGCTTAATTG----TTTTTTTAAAAAAGTTTAAGGGCTTTTCTGATGCATTTTGAA
* *
9165907 AGTTCAAGTACTCAATTGAGTGCAAAA
62 AATTCAAGTACCCAATTGAGTG-AAAA
* * *
9165934 AAAATGAGGGA-CTTGATTGCTTTTTTAAAAAA
1 AAAA-GCGGGAGCTTAATTGTTTTTTTAAAAAA
9165966 AAAGTTTGAG
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
86 18 0.18
88 10 0.10
89 5 0.05
90 51 0.50
92 14 0.14
93 4 0.04
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (87 bp):
AAAAGCGGGAGCTTAATTGTTTTTTTAAAAAAGTTTAAGGGCTTTTCTGATGCATTTTGAAAATT
CAAGTACCCAATTGAGTGAAAA
Found at i:9168332 original size:26 final size:26
Alignment explanation
Indices: 9168303--9168384 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
9168293 TGTCCCAGAC
9168303 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
* ** * **
9168329 ATGGTGC--CCATGCCATG-TCCCAGAC
1 ATGGT-CTTACATGGGATGTTCTC-GTG
9168354 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
9168380 ATGGT
1 ATGGT
9168385 GCCCATGCCA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 18 0.46
27 4 0.10
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGGTCTTACATGGGATGTTCTCGTG
Found at i:9168346 original size:25 final size:25
Alignment explanation
Indices: 9168318--9168397 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
9168308 CTTACATGGG
9168318 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
* ** * **
9168343 ATG-TCCCAGACATGGT-CTTACATGGG
1 ATGTTCTC-GTGATGGTGC--CCATGCC
9168369 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
9168394 ATGT
1 ATGT
9168398 CCCAGACATG
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 4 0.11
25 17 0.45
26 13 0.34
27 4 0.11
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (25 bp):
ATGTTCTCGTGATGGTGCCCATGCC
Found at i:9168361 original size:51 final size:51
Alignment explanation
Indices: 9168289--9168573 Score: 335
Period size: 50 Copynumber: 5.5 Consensus size: 51
9168279 ACATGCCAAA
**
9168289 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGGTGCCCAT
**
9168340 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGGTGCCCAT
* * * * * * *
9168391 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
* *
9168441 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
* * *
9168491 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGA---T-AGG-TGCCCAT
9168547 GCCATGTCCCAGACATGGTCTTACATG
1 GCCATGTCCCAGACATGGTCTTACATG
9168574 AGATCTCTTT
Statistics
Matches: 208, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.00
50 93 0.45
51 79 0.38
54 1 0.00
55 2 0.01
56 32 0.15
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.27
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
Found at i:9168408 original size:25 final size:25
Alignment explanation
Indices: 9168329--9168409 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
9168319 TGTTCTCGTG
9168329 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
* ** * **
9168354 ATGGT-CTTACATGGGATGTTCTC-GTG
1 ATGGTGC--CCATGCCATG-TCCCAGAC
9168380 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
9168405 ATGGT
1 ATGGT
9168410 CTTATAGGGG
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 18 0.46
26 13 0.33
27 4 0.10
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGGTGCCCATGCCATGTCCCAGAC
Found at i:9168697 original size:13 final size:13
Alignment explanation
Indices: 9168676--9168707 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9168666 GCTTGGATCA
*
9168676 TCATCAAATAAAT
1 TCATAAAATAAAT
9168689 TCATAAAATAAAT
1 TCATAAAATAAAT
9168702 TCATAA
1 TCATAA
9168708 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:9168955 original size:29 final size:29
Alignment explanation
Indices: 9168919--9168978 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
9168909 CCTCGACTCT
* *
9168919 AACTTTTTCAAAATTATAATTTTGTCCCTA
1 AACTTTTACAAAATTACAATTTTG-CCCTA
* *
9168949 AACTTTTACATAATTACATTTTTGCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCTA
9168978 A
1 A
9168979 GGCTCGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.33, C:0.18, G:0.03, T:0.45
Consensus pattern (29 bp):
AACTTTTACAAAATTACAATTTTGCCCTA
Found at i:9175968 original size:26 final size:26
Alignment explanation
Indices: 9175939--9176020 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
9175929 TGTCCCAGAC
9175939 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
* ** * **
9175965 ATGGTGC--CCATGCCATG-TCCCAGAC
1 ATGGT-CTTACATGGGATGTTCTC-GTG
9175990 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
9176016 ATGGT
1 ATGGT
9176021 GCCCATGCCA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 18 0.46
27 4 0.10
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGGTCTTACATGGGATGTTCTCGTG
Found at i:9175982 original size:25 final size:25
Alignment explanation
Indices: 9175954--9176033 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
9175944 CTTACATGGG
9175954 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
* ** * **
9175979 ATG-TCCCAGACATGGT-CTTACATGGG
1 ATGTTCTC-GTGATGGTGC--CCATGCC
9176005 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
9176030 ATGT
1 ATGT
9176034 CCCAGACATG
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 4 0.11
25 17 0.45
26 13 0.34
27 4 0.11
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (25 bp):
ATGTTCTCGTGATGGTGCCCATGCC
Found at i:9175997 original size:51 final size:51
Alignment explanation
Indices: 9175925--9176209 Score: 335
Period size: 50 Copynumber: 5.5 Consensus size: 51
9175915 ACATGCCAAA
**
9175925 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGGTGCCCAT
**
9175976 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGGTGCCCAT
* * * * * * *
9176027 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
* *
9176077 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
* * *
9176127 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGA---T-AGG-TGCCCAT
9176183 GCCATGTCCCAGACATGGTCTTACATG
1 GCCATGTCCCAGACATGGTCTTACATG
9176210 AGATCTCTTT
Statistics
Matches: 208, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.00
50 93 0.45
51 79 0.38
54 1 0.00
55 2 0.01
56 32 0.15
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.27
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
Found at i:9176044 original size:25 final size:25
Alignment explanation
Indices: 9175965--9176045 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
9175955 TGTTCTCGTG
9175965 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
* ** * **
9175990 ATGGT-CTTACATGGGATGTTCTC-GTG
1 ATGGTGC--CCATGCCATG-TCCCAGAC
9176016 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
9176041 ATGGT
1 ATGGT
9176046 CTTATAGGGG
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 18 0.46
26 13 0.33
27 4 0.10
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGGTGCCCATGCCATGTCCCAGAC
Found at i:9176333 original size:13 final size:13
Alignment explanation
Indices: 9176312--9176343 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9176302 GCTTGGATCA
*
9176312 TCATCAAATAAAT
1 TCATAAAATAAAT
9176325 TCATAAAATAAAT
1 TCATAAAATAAAT
9176338 TCATAA
1 TCATAA
9176344 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:9176591 original size:29 final size:29
Alignment explanation
Indices: 9176555--9176614 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
9176545 CCTCGACTCT
* *
9176555 AACTTTTTCAAAATTATAATTTTGTCCCTA
1 AACTTTTACAAAATTACAATTTTG-CCCTA
* *
9176585 AACTTTTACATAATTACATTTTTGCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCTA
9176614 A
1 A
9176615 GGCTCGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.33, C:0.18, G:0.03, T:0.45
Consensus pattern (29 bp):
AACTTTTACAAAATTACAATTTTGCCCTA
Found at i:9186464 original size:18 final size:18
Alignment explanation
Indices: 9186441--9186479 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9186431 CCCAACTACT
9186441 GTATACGTGAACAATACC
1 GTATACGTGAACAATACC
* *
9186459 GTATACGTGAATAGTACC
1 GTATACGTGAACAATACC
9186477 GTA
1 GTA
9186480 AACGGTCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (18 bp):
GTATACGTGAACAATACC
Done.