Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 32 of 145
Found at i:11609161 original size:19 final size:19
Alignment explanation
Indices: 11609113--11609168 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
11609103 TTAACAATAT
*
11609113 ATTTAGTTAATTTATTTTTA
1 ATTTATTTAATTT-TTTTTA
*
11609133 ATTTAGTTTAATTTTTTTTG
1 ATTTA-TTTAATTTTTTTTA
*
11609153 TTTTATTTAATTTTTT
1 ATTTATTTAATTTTTT
11609169 CACATAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.34
20 14 0.44
21 7 0.22
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
ATTTATTTAATTTTTTTTA
Found at i:11610019 original size:25 final size:25
Alignment explanation
Indices: 11609962--11610013 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11609952 CCCAAGTAAG
11609962 TTCATATGAAACTTACTATATTCTA
1 TTCATATGAAACTTACTATATTCTA
11609987 TTCATATGAAACTTACTATATTCTA
1 TTCATATGAAACTTACTATATTCTA
11610012 TT
1 TT
11610014 ATTATGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (25 bp):
TTCATATGAAACTTACTATATTCTA
Found at i:11614459 original size:32 final size:33
Alignment explanation
Indices: 11614418--11614530 Score: 113
Period size: 33 Copynumber: 3.5 Consensus size: 33
11614408 GATACATGTG
*
11614418 TAAGACCATAGCTGGGCTATGGCATTC-GATGA
1 TAAGACCATAACTGGGCTATGGCATTCAGATGA
* * *
11614450 TAAGACCATAACTGGGTTATGGCACTACAAATG-
1 TAAGACCATAACTGGGCTATGGCA-TTCAGATGA
* ** * * *
11614483 TAAGATCATGGCTGGGCCATGACATTCTGATGA
1 TAAGACCATAACTGGGCTATGGCATTCAGATGA
11614516 TAAGACCATAACTGG
1 TAAGACCATAACTGG
11614531 TTTACGGCAC
Statistics
Matches: 62, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
32 27 0.44
33 32 0.52
34 3 0.05
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (33 bp):
TAAGACCATAACTGGGCTATGGCATTCAGATGA
Found at i:11614487 original size:104 final size:105
Alignment explanation
Indices: 11614311--11614503 Score: 266
Period size: 104 Copynumber: 1.8 Consensus size: 105
11614301 AATTTTTAAA
* **
11614311 TGTAAGACCATAGCTGGGCTATGGCATTTTAATGAAAAGACCATAACTGGATTATGGCACATTGA
1 TGTAAGACCATAGCTGGGCTATGGCATTTCAATGAAAAGACCATAACTGGATTATGGCACATACA
*
11614376 ACATAAGACCATGGTTGGACCATGGCAGTATAGATACATG
66 ACATAAGACCATGGCTGGACCATGGCAGTATAGATACATG
* * *
11614416 TGTAAGACCATAGCTGGGCTATGGCA-TTCGATGATAAGACCATAACTGGGTTATGGCAC-TACA
1 TGTAAGACCATAGCTGGGCTATGGCATTTCAATGAAAAGACCATAACTGGATTATGGCACATACA
* *
11614479 A-ATGTAAGATCATGGCTGGGCCATG
66 ACA--TAAGACCATGGCTGGACCATG
11614504 ACATTCTGAT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
102 1 0.01
103 3 0.04
104 47 0.61
105 26 0.34
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (105 bp):
TGTAAGACCATAGCTGGGCTATGGCATTTCAATGAAAAGACCATAACTGGATTATGGCACATACA
ACATAAGACCATGGCTGGACCATGGCAGTATAGATACATG
Found at i:11614509 original size:65 final size:66
Alignment explanation
Indices: 11614416--11614569 Score: 231
Period size: 66 Copynumber: 2.3 Consensus size: 66
11614406 TAGATACATG
* * * *
11614416 TGTAAGACCATAGCTGGGCTATGGCATTC-GATGATAAGACCATAACTGGGTTATGGCACTACAA
1 TGTAAGACCATGGCTGGGCCATGACATTCTGATGATAAGACCATAACTGGGTTACGGCACTACAA
11614480 A
66 A
* *
11614481 TGTAAGATCATGGCTGGGCCATGACATTCTGATGATAAGACCATAACTGGTTTACGGCACTACAA
1 TGTAAGACCATGGCTGGGCCATGACATTCTGATGATAAGACCATAACTGGGTTACGGCACTACAA
11614546 A
66 A
11614547 TGTAAGACCATGG-TAGGGCCATG
1 TGTAAGACCATGGCT-GGGCCATG
11614570 GCAATGCATG
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
65 26 0.32
66 54 0.68
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (66 bp):
TGTAAGACCATGGCTGGGCCATGACATTCTGATGATAAGACCATAACTGGGTTACGGCACTACAA
A
Found at i:11614586 original size:66 final size:66
Alignment explanation
Indices: 11614416--11614591 Score: 216
Period size: 66 Copynumber: 2.7 Consensus size: 66
11614406 TAGATACATG
* * * * *
11614416 TGTAAGACCATAGCTGGGCTATGGCATTC-GATGATAAGACCATAACTGGGTTATGGCACTACAA
1 TGTAAGACCATGGCTGGGCCATGACATGCTGATGATAAGACCATAACTGGGTTACGGCACTACAA
11614480 A
66 A
* * *
11614481 TGTAAGATCATGGCTGGGCCATGACATTCTGATGATAAGACCATAACTGGTTTACGGCACTACAA
1 TGTAAGACCATGGCTGGGCCATGACATGCTGATGATAAGACCATAACTGGGTTACGGCACTACAA
11614546 A
66 A
*
11614547 TGTAAGACCATGG-TAGGGCCATGGCAATGCATG-TG-TAAGACCATA
1 TGTAAGACCATGGCT-GGGCCATGAC-ATGC-TGATGATAAGACCATA
11614592 GTTGGACTAT
Statistics
Matches: 98, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
65 26 0.27
66 65 0.66
67 5 0.05
68 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (66 bp):
TGTAAGACCATGGCTGGGCCATGACATGCTGATGATAAGACCATAACTGGGTTACGGCACTACAA
A
Found at i:11618418 original size:51 final size:51
Alignment explanation
Indices: 11618363--11618465 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
11618353 AAATTCCAAA
* *
11618363 TATAGGAAGAATACAAGGACTTGAAATATTTGTAATTTTTAAAATTGTACT
1 TATAGGAAGAAGACAAGGACTTGAAATATTTGTAATTTTTAAAATCGTACT
11618414 TATAGGAAGAAGACAAGGACTTGAAATATTTGTAATTTTTAAAATCGTACT
1 TATAGGAAGAAGACAAGGACTTGAAATATTTGTAATTTTTAAAATCGTACT
11618465 T
1 T
11618466 TATAATTTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.36
Consensus pattern (51 bp):
TATAGGAAGAAGACAAGGACTTGAAATATTTGTAATTTTTAAAATCGTACT
Found at i:11619595 original size:117 final size:118
Alignment explanation
Indices: 11619454--11619693 Score: 466
Period size: 117 Copynumber: 2.1 Consensus size: 118
11619444 TTATAAATAT
11619454 AAAT-ATTTAATATAATTTTATTTTCTTTCAGGCACATAATATGATTGAAAAAGAAATAAAAATA
1 AAATAATTTAATATAATTTTATTTTCTTTCAGGCACATAATATGATTGAAAAAGAAATAAAAATA
11619518 GTTCTGAACTATACTGTTAAATTTAGATATTTTTCTACACGTGATTTGTATCA
66 GTTCTGAACTATACTGTTAAATTTAGATATTTTTCTACACGTGATTTGTATCA
11619571 AAATAATTTAATATAA-TTTATTTTCTTTCAGGCACATAATATGATTGAAAAAGAAATAAAAATA
1 AAATAATTTAATATAATTTTATTTTCTTTCAGGCACATAATATGATTGAAAAAGAAATAAAAATA
11619635 GTTCTGAACTATACTGTTAAATTTAGATATTTTTCTACACGTGATTTGTATCA
66 GTTCTGAACTATACTGTTAAATTTAGATATTTTTCTACACGTGATTTGTATCA
11619688 AAATAA
1 AAATAA
11619694 GGGCTTATTG
Statistics
Matches: 122, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
117 111 0.91
118 11 0.09
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (118 bp):
AAATAATTTAATATAATTTTATTTTCTTTCAGGCACATAATATGATTGAAAAAGAAATAAAAATA
GTTCTGAACTATACTGTTAAATTTAGATATTTTTCTACACGTGATTTGTATCA
Found at i:11622309 original size:41 final size:41
Alignment explanation
Indices: 11622204--11622544 Score: 305
Period size: 41 Copynumber: 8.3 Consensus size: 41
11622194 ATTTTTGTAA
* * * *
11622204 AAGCGCCGCTAATGCTCGGATCTTTCGCGGCG-CTTT-ACCA
1 AAGCGCCGCTAATGCTCGGACCTTTAGCGGCGTTTTTGA-CT
* * **
11622244 AAACGCCGCTAATTCTCTGG-CCTTTAGCGGCGTTTTTGGTT
1 AAGCGCCGCTAATGCTC-GGACCTTTAGCGGCGTTTTTGACT
* * * *
11622285 AAGTGCCGCTAGTGTTCGGACCTTTAGCGGCGGTTTTTTACT
1 AAGCGCCGCTAATGCTCGGACCTTTAGCGGC-GTTTTTGACT
* *
11622327 AAGCGCCGCTAAAGCTCGGACCTTTAGCGGCGTTTTTTACT
1 AAGCGCCGCTAATGCTCGGACCTTTAGCGGCGTTTTTGACT
* * * * *
11622368 AAGCGTCGCTAAAGCTTGGAACTTTAGCGGCGTTTTT-ATTT
1 AAGCGCCGCTAATGCTCGGACCTTTAGCGGCGTTTTTGA-CT
* * * * **
11622409 AAGCGCCGCTAATGCTCGGGCATTTAGTGACGTTTTTGGTT
1 AAGCGCCGCTAATGCTCGGACCTTTAGCGGCGTTTTTGACT
* * * * **
11622450 AAGCGCCGCTAATACTC-TAGCCTTTAGAGGCGCTTTTGGGT
1 AAGCGCCGCTAATGCTCGGA-CCTTTAGCGGCGTTTTTGACT
**
11622491 AAGCGCCGCTAATGCTCTTACCTTTAGCGGCGTTTTTGACT
1 AAGCGCCGCTAATGCTCGGACCTTTAGCGGCGTTTTTGACT
11622532 AAGCGCCGCTAAT
1 AAGCGCCGCTAAT
11622545 AGTAACCAAA
Statistics
Matches: 246, Mismatches: 46, Indels: 17
0.80 0.15 0.06
Matches are distributed among these distances:
40 28 0.11
41 182 0.74
42 36 0.15
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (41 bp):
AAGCGCCGCTAATGCTCGGACCTTTAGCGGCGTTTTTGACT
Found at i:11622926 original size:15 final size:16
Alignment explanation
Indices: 11622892--11622929 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
11622882 TTTAAGGTTA
11622892 ATTTAGGGGTTAGAGG
1 ATTTAGGGGTTAGAGG
*
11622908 -TTTAGGGGTTTG-GG
1 ATTTAGGGGTTAGAGG
11622922 ATTTAGGG
1 ATTTAGGG
11622930 TTTCAACGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (16 bp):
ATTTAGGGGTTAGAGG
Found at i:11623880 original size:28 final size:28
Alignment explanation
Indices: 11623849--11623903 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
11623839 AATAAACAAA
*
11623849 TAAATAATTACG-CAATTAATTATTTAAG
1 TAAATAAATACGTC-ATTAATTATTTAAG
*
11623877 TAAATAAATAGGTCATTAATTATTTAA
1 TAAATAAATACGTCATTAATTATTTAA
11623904 ATGTAAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (28 bp):
TAAATAAATACGTCATTAATTATTTAAG
Found at i:11624795 original size:17 final size:18
Alignment explanation
Indices: 11624773--11624816 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
11624763 CCAGGGTTAA
*
11624773 TTAGGGTTTAG-GAGGAT
1 TTAGGGGTTAGAGAGGAT
*
11624790 TTAGGGGTTAGAGAGGTT
1 TTAGGGGTTAGAGAGGAT
11624808 TTAGGGGTT
1 TTAGGGGTT
11624817 TGGCTGGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.36
Consensus pattern (18 bp):
TTAGGGGTTAGAGAGGAT
Found at i:11625012 original size:66 final size:67
Alignment explanation
Indices: 11624916--11625041 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 67
11624906 GAGGTTCAAA
*
11624916 AAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAT
1 AAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCAGAGGTTCAT
11624981 CG
66 CG
* * * * *
11624983 AAAG-TATGAAGAACTCCAGC-AGTAGCTTAAAGTAGATGCGGCAGTGAGAGAAGCAGAGG
1 AAAGATATGAAGAACTCCAGCTA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCAGAGG
11625042 CTGCAGCAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
65 1 0.02
66 47 0.90
67 4 0.08
ACGTcount: A:0.39, C:0.17, G:0.29, T:0.16
Consensus pattern (67 bp):
AAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCAGAGGTTCAT
CG
Found at i:11625056 original size:21 final size:21
Alignment explanation
Indices: 11625032--11625082 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
11625022 GGCAGTGAGA
*
11625032 GAAGCAGAGGCTGCAGCAAGG
1 GAAGCAGAGGCTGCAACAAGG
* *
11625053 GAAGTAGAGGCTGCAACGAGG
1 GAAGCAGAGGCTGCAACAAGG
11625074 GAAGCAGAG
1 GAAGCAGAG
11625083 CAGCGTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAACAAGG
Found at i:11625424 original size:43 final size:43
Alignment explanation
Indices: 11625359--11625780 Score: 368
Period size: 43 Copynumber: 9.8 Consensus size: 43
11625349 GCGTTTTAAA
* *
11625359 AAAAAACGCCGCTAAAGTTCATGGTCTTTAGCGGCATTTGTGG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCATTTGTGG
* *
11625402 AAAAAGCGCCGCTAAATATCATGGTCTTTAGCAGCATTTGTGG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCATTTGTGG
* *
11625445 AAAAAGCGCCGCTAACGATCATGGTCTTTCGCGG-AGTTTGTGG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCA-TTTGTGG
* *
11625488 AAAAA-CGCCGCTAAAGATCATGGTATTTAGCGGCATTTATGGG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCATTTGT-GG
* * *
11625531 AAAAATCGTCGCTAAAGATCATGGTCTTTAGCGGCATTTTTTGG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCA-TTTGTGG
* * * * * *
11625575 -AGAAGCGCCGCTAAAGGTCATTGTCTTTAGCAGCGTTTTTTGG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGC-ATTTGTGG
** * ** **
11625618 -GTAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGTGTTTGTCT
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCATTTGTGG
* * * ** ** * *
11625660 CAAAGGCGCCGCTAAAGACCATGACCTTTAGCGGTGTTTCTAGT
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCATTTGT-GG
* ** * * *
11625704 AAAAA-CGCCGCTAAAGACCATGACCTTGAGCGGCGTTTATGG
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCATTTGTGG
* * * **
11625746 TACAAGCGCCGCTAAAGACCATGACCTTTAGCGGC
1 AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGC
11625781 GTTTATTTCT
Statistics
Matches: 321, Mismatches: 49, Indels: 18
0.83 0.13 0.05
Matches are distributed among these distances:
42 38 0.12
43 245 0.76
44 34 0.11
45 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCATTTGTGG
Found at i:11625718 original size:172 final size:171
Alignment explanation
Indices: 11625360--11625777 Score: 435
Period size: 172 Copynumber: 2.4 Consensus size: 171
11625350 CGTTTTAAAA
* * *
11625360 AAAAACGCCGCTAAAGTTCATGGTCTTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAATATCATG
1 AAAAACGCCGCTAAAGATCATGGTCTTTAGCGGCATTTATGGAAAAAGCGCCGCTAAAGATCATG
* * *
11625425 GTCTTTAGCAGCATTTGTGGAAAAAGCGCCGCTAACGATCATGGTCTTTCGCGGAGTTTGTGGAA
66 GTCTTTAGCAGCATTTGTGGAAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGAGTTTGTGCAA
* ** *
11625490 AAACGCCGCTAAAGATCATGGTATTTAGCGGCATTTATGGG
131 AAACGCCGCTAAAGACCATGACATTTAGCGGCATTTATAGG
* * * *
11625531 AAAAATCGTCGCTAAAGATCATGGTCTTTAGCGGCATTTTTTGG-AGAAGCGCCGCTAAAGGTCA
1 AAAAA-CGCCGCTAAAGATCATGGTCTTTAGCGGCA-TTTATGGAAAAAGCGCCGCTAAAGATCA
* * * ** * *
11625595 TTGTCTTTAGCAGCGTTTTTTGG-GTAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGTGTTTGTC
64 TGGTCTTTAGCAGC-ATTTGTGGAAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGAGTTTGT-
* ** * ** * *
11625659 TCAAAGGCGCCGCTAAAGACCATGACCTTTAGCGGTGTTTCTAGT
127 GCAAAAACGCCGCTAAAGACCATGACATTTAGCGGCATTTATAGG
* ** * * * * *
11625704 AAAAACGCCGCTAAAGACCATGACCTTGAGCGGCGTTTATGGTACAAGCGCCGCTAAAGACCATG
1 AAAAACGCCGCTAAAGATCATGGTCTTTAGCGGCATTTATGGAAAAAGCGCCGCTAAAGATCATG
**
11625769 ACCTTTAGC
66 GTCTTTAGC
11625778 GGCGTTTATT
Statistics
Matches: 201, Mismatches: 41, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
171 11 0.05
172 141 0.70
173 49 0.24
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (171 bp):
AAAAACGCCGCTAAAGATCATGGTCTTTAGCGGCATTTATGGAAAAAGCGCCGCTAAAGATCATG
GTCTTTAGCAGCATTTGTGGAAAAAGCGCCGCTAAAGATCATGGTCTTTAGCGGAGTTTGTGCAA
AAACGCCGCTAAAGACCATGACATTTAGCGGCATTTATAGG
Found at i:11633909 original size:16 final size:16
Alignment explanation
Indices: 11633885--11633932 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
11633875 TAACAATTTC
11633885 TATTCAAAATAAGTAT
1 TATTCAAAATAAGTAT
* * *
11633901 TATTTAAAAAAAATAT
1 TATTCAAAATAAGTAT
*
11633917 CATTCAAGAATAAGTA
1 TATTCAA-AATAAGTA
11633933 CCACTTAAGA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.33
Consensus pattern (16 bp):
TATTCAAAATAAGTAT
Found at i:11643314 original size:16 final size:17
Alignment explanation
Indices: 11643287--11643319 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11643277 GGCACTTTTA
*
11643287 AAAACAATGCAAGTAAC
1 AAAACAATGCAAATAAC
11643304 AAAAC-ATGCAAATAAC
1 AAAACAATGCAAATAAC
11643320 TCTATGATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.61, C:0.18, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAACAATGCAAATAAC
Found at i:11646606 original size:15 final size:15
Alignment explanation
Indices: 11646582--11646620 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
11646572 GTTTGTCAGT
11646582 AAAATG-TTTTCCAG
1 AAAATGATTTTCCAG
*
11646596 AAAATGATTTTCCGG
1 AAAATGATTTTCCAG
11646611 AAAATGATTT
1 AAAATGATTT
11646621 ACTTTTCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (15 bp):
AAAATGATTTTCCAG
Found at i:11646719 original size:32 final size:33
Alignment explanation
Indices: 11646637--11646723 Score: 99
Period size: 33 Copynumber: 2.6 Consensus size: 33
11646627 CTAGAAAATG
11646637 ATTTACTGAAAATATTTTCTGGTGTTTGGATGAA
1 ATTT-CTGAAAATATTTTCTGGTGTTTGGATGAA
* * *
11646671 A-CTGTGTAAAATATTTTCTGTTGTTTGG-T-AA
1 ATTTCTG-AAAATATTTTCTGGTGTTTGGATGAA
11646702 ATTTCCTGAAAATATTTTCTGG
1 ATTT-CTGAAAATATTTTCTGG
11646724 AAAAATTGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
31 3 0.07
32 17 0.39
33 23 0.52
34 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCTGAAAATATTTTCTGGTGTTTGGATGAA
Found at i:11649693 original size:6 final size:6
Alignment explanation
Indices: 11649682--11649730 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
11649672 TAGCCCAAGA
* * * *
11649682 GAAAGG GAAAGG GAAAAG GAAAGG GAAAGG GGAAGG GGAAGG GGAAGG
1 GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG
11649730 G
1 G
11649731 GAGAGGGGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (6 bp):
GAAAGG
Found at i:11649723 original size:18 final size:18
Alignment explanation
Indices: 11649684--11649739 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
11649674 GCCCAAGAGA
* * *
11649684 AAGGGAAAGGGAAAAGGA
1 AAGGGAAAGGGGAAGGGG
11649702 AAGGGAAAGGGGAAGGGG
1 AAGGGAAAGGGGAAGGGG
*
11649720 AAGGGGAAGGGGAGAGGGG
1 AAGGGAAAGGGGA-AGGGG
11649739 A
1 A
11649740 GGAGAATGCG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
18 27 0.82
19 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (18 bp):
AAGGGAAAGGGGAAGGGG
Found at i:11649740 original size:7 final size:6
Alignment explanation
Indices: 11649702--11649739 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
11649692 GGGAAAAGGA
*
11649702 AAGGGA AAGGGG AAGGGG AAGGGG AAGGGG AGAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG A-AGGGG A
11649740 GGAGAATGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:11650723 original size:22 final size:22
Alignment explanation
Indices: 11650698--11650747 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
11650688 TCTCCTTTCC
11650698 TTTACTTCTTTCCTTTGTGAAT
1 TTTACTTCTTTCCTTTGTGAAT
11650720 TTTACTTCTTTCCTTTGTGAAT
1 TTTACTTCTTTCCTTTGTGAAT
11650742 TTTACT
1 TTTACT
11650748 CTCTACATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.14, C:0.18, G:0.08, T:0.60
Consensus pattern (22 bp):
TTTACTTCTTTCCTTTGTGAAT
Found at i:11652492 original size:47 final size:47
Alignment explanation
Indices: 11652438--11652534 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
11652428 TTATGTAAAT
*
11652438 GAACAAATACATAACTAAGAATGATATGATATAGATACAACGACAAA
1 GAACAAATAAATAACTAAGAATGATATGATATAGATACAACGACAAA
11652485 GAACAAATAAATAACTAAGAATGATATGATATAGATACAACGACAAA
1 GAACAAATAAATAACTAAGAATGATATGATATAGATACAACGACAAA
11652532 GAA
1 GAA
11652535 TAATGGATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.57, C:0.11, G:0.13, T:0.19
Consensus pattern (47 bp):
GAACAAATAAATAACTAAGAATGATATGATATAGATACAACGACAAA
Found at i:11664347 original size:19 final size:19
Alignment explanation
Indices: 11664323--11664360 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11664313 CAAACCTGTA
11664323 GAAATTAAATATAATTAAG
1 GAAATTAAATATAATTAAG
11664342 GAAATTAAATATAATTAAG
1 GAAATTAAATATAATTAAG
11664361 TTAAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (19 bp):
GAAATTAAATATAATTAAG
Found at i:11665597 original size:43 final size:44
Alignment explanation
Indices: 11665549--11665635 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 44
11665539 AGGGTAAATC
* *
11665549 CAACAACCCATGTTTATCTTCTCCTCTTTTT-AAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAAATTCTTTTTT
*
11665592 CAACAACCCAAGATTATCTTCTCCTTTTTTTAAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTCTTTTTAAAATTCTTTTTT
11665636 TCTAGGATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 28 0.70
44 12 0.30
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.49
Consensus pattern (44 bp):
CAACAACCCAAGATTATCTTCTCCTCTTTTTAAAATTCTTTTTT
Found at i:11666763 original size:100 final size:100
Alignment explanation
Indices: 11666590--11666794 Score: 313
Period size: 100 Copynumber: 2.0 Consensus size: 100
11666580 TGGTACCTAT
* * *
11666590 TTCAATGCTTCCGAACCAACTTGTAACATATTCACCTAATGTCAAACACATCTAATCCAAAATAT
1 TTCAATGCTTCCAAACCAAATTGTAACATAGTCACCTAATGTCAAACACATCTAATCCAAAATAT
* *
11666655 GCATTAAACCATGCCAATCAAGTTTACGCACTCAA
66 GCATTAAACCATACCAATCAAATTTACGCACTCAA
* * * *
11666690 TTCAATGTTTCCAAACCAAATTGTAACATAGTCACCTAATGTCAAACTCATCTGATTC-AAATCA
1 TTCAATGCTTCCAAACCAAATTGTAACATAGTCACCTAATGTCAAACACATCTAATCCAAAAT-A
11666754 TGCATTAAACCATACCAATCAAATTTACGCACTCAA
65 TGCATTAAACCATACCAATCAAATTTACGCACTCAA
11666790 TTCAA
1 TTCAA
11666795 CTTCTTAACA
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 4 0.04
100 91 0.96
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (100 bp):
TTCAATGCTTCCAAACCAAATTGTAACATAGTCACCTAATGTCAAACACATCTAATCCAAAATAT
GCATTAAACCATACCAATCAAATTTACGCACTCAA
Found at i:11669855 original size:50 final size:49
Alignment explanation
Indices: 11669680--11669855 Score: 194
Period size: 50 Copynumber: 3.5 Consensus size: 49
11669670 ACACTTATAT
* * *
11669680 GAGTTAC-TAATGGATGAC-TTCATTTAAAGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATT-ATTT-ATGATGC-AAC-TTAACTAACATGA
* *
11669731 GAGTTACATAATGCATGACATAATTTATGATGCAATCTTCACTAACATGA
1 GAGTTACATAATGCATGACATTATTTATGATGCAA-CTTAACTAACATGA
** *
11669781 GAGTTACATAATGCATTTCATTATTTATGATGCATACGTAACTAACATGA
1 GAGTTACATAATGCATGACATTATTTATGATGCA-ACTTAACTAACATGA
* *
11669831 AAGTTACATAATGCATGACTTTATT
1 GAGTTACATAATGCATGACATTATT
11669856 AAATGCAAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
50 77 0.72
51 15 0.14
52 14 0.13
53 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (49 bp):
GAGTTACATAATGCATGACATTATTTATGATGCAACTTAACTAACATGA
Found at i:11670584 original size:14 final size:14
Alignment explanation
Indices: 11670565--11670591 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11670555 AAATAGATCA
11670565 ATTCATATCATATT
1 ATTCATATCATATT
11670579 ATTCATATCATAT
1 ATTCATATCATAT
11670592 GCATGAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTCATATCATATT
Found at i:11679831 original size:2 final size:2
Alignment explanation
Indices: 11679824--11679858 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11679814 CCTAATGCCT
11679824 TC TC TC 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 TC TC TC T
11679859 TCAACCAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11688543 original size:21 final size:22
Alignment explanation
Indices: 11688519--11688565 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11688509 TGTTTAGAAC
*
11688519 AATAATA-TGTTAT-AATATTAA
1 AATAATATTGTAATAAAT-TTAA
11688540 AATAATATTGTAATAAATTTAA
1 AATAATATTGTAATAAATTTAA
11688562 AATA
1 AATA
11688566 TACTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AATAATATTGTAATAAATTTAA
Found at i:11688625 original size:17 final size:17
Alignment explanation
Indices: 11688598--11688636 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
11688588 ATGCTAGATG
11688598 TAAAATTAAATATA-TT
1 TAAAATTAAATATATTT
11688614 TAAAAGTTAAATATATTT
1 TAAAA-TTAAATATATTT
11688632 TAAAA
1 TAAAA
11688637 ATGATGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAAATTAAATATATTT
Found at i:11692208 original size:24 final size:23
Alignment explanation
Indices: 11692176--11692226 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
11692166 TTTAGGATGT
11692176 TTAATTAGTTTAATTACACTTTAA
1 TTAATTAGTTTAATTACA-TTTAA
*
11692200 TTAATTAGTTTAATTACATTTTA
1 TTAATTAGTTTAATTACATTTAA
11692223 TTAA
1 TTAA
11692227 CTTAATCCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (23 bp):
TTAATTAGTTTAATTACATTTAA
Found at i:11695073 original size:3 final size:3
Alignment explanation
Indices: 11695061--11695091 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11695051 GCGCATGAAT
11695061 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11695092 GATACAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11696207 original size:45 final size:46
Alignment explanation
Indices: 11696150--11696272 Score: 180
Period size: 45 Copynumber: 2.7 Consensus size: 46
11696140 TTGTTTATTT
* * *
11696150 AGTCTGCCCCACTGCAATTTCAGAGG-GATAAGACTTGATTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGAGGAGATAAGACTCGATTTCTTG
*
11696195 AGTCTGCTCCACTGCAACTTCAG-GGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGAGGAGATAAGACTCGATTTCTTG
*
11696240 GGTCTGCTCCACTGCAACTTCA-AGGAGATAAGA
1 AGTCTGCTCCACTGCAACTTCAGAGGAGATAAGA
11696273 TTTGTGATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
44 2 0.03
45 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (46 bp):
AGTCTGCTCCACTGCAACTTCAGAGGAGATAAGACTCGATTTCTTG
Found at i:11696311 original size:44 final size:44
Alignment explanation
Indices: 11696200--11696362 Score: 150
Period size: 44 Copynumber: 3.7 Consensus size: 44
11696190 TCTTGAGTCT
** * *** *
11696200 GCTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-TCTTGGGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-T-TATTGACTTTAATCC
* *
11696245 GCTCCACTGCAACTTCAAGGAGATAAGATT-TGTGATTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAT-TGACTTTAATCC
** * * *
11696289 GCTCCACTGTGACTTCAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTTAATCC
*
11696333 GCTCCACTACAACTTCAGGGAGATAAGATT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT
11696363 CGCCATCTTC
Statistics
Matches: 96, Mismatches: 19, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 66 0.69
45 28 0.29
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTATTGACTTTAATCC
Found at i:11696798 original size:44 final size:44
Alignment explanation
Indices: 11696747--11696846 Score: 157
Period size: 44 Copynumber: 2.3 Consensus size: 44
11696737 CACTGTTGCT
11696747 CAGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTACTAAC
1 CAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTACTAAC
* **
11696791 CAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGTC
1 CAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTAAC
11696835 CAGGGAGATAGG
1 CAGGGAGATAGG
11696847 GCTGGGGTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
44 50 0.96
45 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (44 bp):
CAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTAAC
Found at i:11696965 original size:88 final size:88
Alignment explanation
Indices: 11696859--11697335 Score: 810
Period size: 88 Copynumber: 5.4 Consensus size: 88
11696849 TGGGGTTATT
* *
11696859 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTACTATTTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
11696924 AGGGAGGCAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
11696947 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
* *
11697012 GGGGAGGCAAGGTTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* *
11697035 GATCTGCTTTGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
*
11697100 AGGGAGGCAAGACTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* * * *
11697123 GATCTGCTTCACTGTCCGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
11697188 AGGGAGGCAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
11697211 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
*
11697276 AGGGAGACAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* * * *
11697299 AATCTGCTTTGCTGTCAGTGTAGGAAGGCAAGATCTG
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
11697336 TTATCTTCAC
Statistics
Matches: 364, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 364 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (88 bp):
GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
AGGGAGGCAAGGCTGGTGTCTTC
Found at i:11706208 original size:25 final size:26
Alignment explanation
Indices: 11706180--11706230 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
11706170 ATAAAATATT
* *
11706180 AATAATTCAAT-AATTTGAAATTTTA
1 AATAATTAAATAAAATTGAAATTTTA
11706205 AATAATTAAATAAAATTGAAATTTTA
1 AATAATTAAATAAAATTGAAATTTTA
11706231 GGAGAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (26 bp):
AATAATTAAATAAAATTGAAATTTTA
Found at i:11706862 original size:16 final size:16
Alignment explanation
Indices: 11706837--11706867 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11706827 TCCTATTAAT
11706837 TTATTAAAATAAAAAC
1 TTATTAAAATAAAAAC
*
11706853 TTATTTAAATAAAAA
1 TTATTAAAATAAAAA
11706868 TATGATCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TTATTAAAATAAAAAC
Found at i:11707039 original size:30 final size:30
Alignment explanation
Indices: 11706982--11707040 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
11706972 GCCTTTTGAA
* * * *
11706982 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATACTTACAAAAAGAGAAACCAAATTTTT
11707012 AATACTTACAAAAAGAGAAACCAAATTTT
1 AATACTTACAAAAAGAGAAACCAAATTTT
11707041 GAAAATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.31
Consensus pattern (30 bp):
AATACTTACAAAAAGAGAAACCAAATTTTT
Found at i:11716320 original size:29 final size:29
Alignment explanation
Indices: 11716287--11716342 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
11716277 TATTGAGTTG
11716287 ACATCATAGATATTATGTTAGTCGAGCTA
1 ACATCATAGATATTATGTTAGTCGAGCTA
*
11716316 ACATCATTGATATTATGTTAGTCGAGC
1 ACATCATAGATATTATGTTAGTCGAGC
11716343 AATCAGATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (29 bp):
ACATCATAGATATTATGTTAGTCGAGCTA
Found at i:11745970 original size:90 final size:91
Alignment explanation
Indices: 11745806--11745986 Score: 206
Period size: 90 Copynumber: 2.0 Consensus size: 91
11745796 AATAAGTACC
* * **
11745806 ATAATGAAACATATATTGATAATTAATGTACCACATTAGACATCTTCAAAGTACATGTAACACAT
1 ATAATAAAACATATATTGAT-ATTAATGTACCACATTAGACATCTTAAAAGTACAAATAACACAT
**
11745871 TGGACATTTTACGAAAGGACAAGTATT
65 TAAACATTTTACGAAAGGACAAGTATT
* *
11745898 ATAATAAAACATATATTGAGT-TTAA-GTACCACA-TATACATCTTTAAAAGTACAAATATCACA
1 ATAATAAAACATATATTGA-TATTAATGTACCACATTAGACATC-TTAAAAGTACAAATAACACA
* ** *
11745960 TTAAATATTTTGTGAAAGTACAAGTAT
64 TTAAACATTTTACGAAAGGACAAGTAT
11745987 CAAAAGTGAC
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
89 7 0.09
90 45 0.60
91 4 0.05
92 18 0.24
93 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (91 bp):
ATAATAAAACATATATTGATATTAATGTACCACATTAGACATCTTAAAAGTACAAATAACACATT
AAACATTTTACGAAAGGACAAGTATT
Found at i:11750757 original size:19 final size:18
Alignment explanation
Indices: 11750734--11750791 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
11750724 AATTCTATCA
11750734 TTTCTTTTCTTTTCTTTT
1 TTTCTTTTCTTTTCTTTT
*
11750752 TGTTCTTTCCTTGTTCTTTAT
1 T-TTCTTTTCTT-TTCTTT-T
*
11750773 TTCCTTTGT-TTTTCTTTT
1 TTTCTTT-TCTTTTCTTTT
11750791 T
1 T
11750792 ATATTTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 3 0.09
19 15 0.45
20 13 0.39
21 2 0.06
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTCTTTTCTTTTCTTTT
Found at i:11757202 original size:18 final size:18
Alignment explanation
Indices: 11757179--11757218 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11757169 TTTTTAAGTA
11757179 AATAAAAATGTTACAAAG
1 AATAAAAATGTTACAAAG
* *
11757197 AATAAAGATGTTGCAAAG
1 AATAAAAATGTTACAAAG
11757215 AATA
1 AATA
11757219 CTATACTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (18 bp):
AATAAAAATGTTACAAAG
Found at i:11765350 original size:6 final size:6
Alignment explanation
Indices: 11765320--11765362 Score: 50
Period size: 6 Copynumber: 6.5 Consensus size: 6
11765310 GTGGTGGACC
11765320 GGAGGT GGAATGGT GGATCGGT GGAGGT GGAGGT GGAGGT GGA
1 GGAGGT GG-A-GGT GGA--GGT GGAGGT GGAGGT GGAGGT GGA
11765363 TTTTCGATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 20 0.61
7 2 0.06
8 11 0.33
ACGTcount: A:0.19, C:0.02, G:0.60, T:0.19
Consensus pattern (6 bp):
GGAGGT
Found at i:11775236 original size:41 final size:41
Alignment explanation
Indices: 11775168--11775405 Score: 239
Period size: 41 Copynumber: 5.9 Consensus size: 41
11775158 TTTCGAGCTT
* * *
11775168 TCGGGGCTTTAGCAGTGTTTTTCAAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
11775209 TTGGGGCTTTAGCAGCGGTTTTGAAAAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * * *
11775250 TTGGGGCTTTAG-TGACATTTTTG-AAAAGTGCCACTAATGC
1 TCGGGGCTTTAGCAG-CGTTTTTGAAAAAGCGCCGCTAATGC
* * *
11775290 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCACCACTAATGC
1 TCGGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
11775331 TCGGGGCTTTAACGGCATTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGC
*** * * *
11775372 TC-AATCTTTAGCGGCGTTTTTAAAAAAGTGCCGC
1 TCGGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGC
11775406 AAAAAAATTT
Statistics
Matches: 166, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
40 58 0.35
41 108 0.65
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:11775312 original size:81 final size:82
Alignment explanation
Indices: 11775185--11775399 Score: 245
Period size: 81 Copynumber: 2.6 Consensus size: 82
11775175 TTTAGCAGTG
* * * * * * * **
11775185 TTTTTCAAAAAGCGTCGCTAATGCTTGGGGCTTTAGCAGCGGTTTTGAAAAAGCGCTGCTAATGC
1 TTTTTGAAAAAGCGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCACCACTAATGC
* **
11775250 TTGGGGCTTTAGTGACA
66 TCGGGGCTTTAACGACA
*
11775267 TTTTTG-AAAAGTGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCACCACTAATGC
1 TTTTTGAAAAAGCGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCACCACTAATGC
*
11775331 TCGGGGCTTTAACGGCA
66 TCGGGGCTTTAACGACA
* *** *
11775348 TTTTTGAAAAAGCGCCGCTAATGCTC-AATCTTTAGCGGCGTTTTTAAAAAAG
1 TTTTTGAAAAAGCGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAG
11775400 TGCCGCAAAA
Statistics
Matches: 112, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
81 90 0.80
82 22 0.20
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (82 bp):
TTTTTGAAAAAGCGCCACTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCACCACTAATGC
TCGGGGCTTTAACGACA
Found at i:11775399 original size:122 final size:122
Alignment explanation
Indices: 11775168--11775403 Score: 276
Period size: 122 Copynumber: 1.9 Consensus size: 122
11775158 TTTCGAGCTT
* ** * * * *
11775168 TCGGGGCTTTAGCAGTGTTTTTCAAAAAGCGTCGCTAATGCTTGGGGCTTTAGCAGCGGTTTTGA
1 TCGGGGCTTTAGCAGCGTTTTTCAAAAAGCACCACTAATGCTCGGGGCTTTAACAGCAGTTTTGA
* *** * *
11775233 AAAAGCGCTGCTAATGCTTGGGGCTTTAGTGACATTTTTGAAAAGTGCCACTAATGC
66 AAAAGCGCCGCTAATGCTTCAAGCTTTAGCGACATTTTTAAAAAGTGCCACTAATGC
* * * *
11775290 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCACCACTAATGCTCGGGGCTTTAACGGCATTTTTGA
1 TCGGGGCTTTAGCAGCGTTTTTCAAAAAGCACCACTAATGCTCGGGGCTTTAACAGCAGTTTTGA
* * *
11775355 AAAAGCGCCGCTAATGC-TCAATCTTTAGCGGCGTTTTTAAAAAAGTGCC
66 AAAAGCGCCGCTAATGCTTCAAGCTTTAGCGACATTTTT-AAAAAGTGCC
11775404 GCAAAAAAAT
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
121 14 0.15
122 79 0.85
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (122 bp):
TCGGGGCTTTAGCAGCGTTTTTCAAAAAGCACCACTAATGCTCGGGGCTTTAACAGCAGTTTTGA
AAAAGCGCCGCTAATGCTTCAAGCTTTAGCGACATTTTTAAAAAGTGCCACTAATGC
Found at i:11775704 original size:29 final size:29
Alignment explanation
Indices: 11775656--11775725 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
11775646 TTAAAGACTG
*
11775656 GGGTTTAAGG-TTTAGAGG-TTATGTGTTAA
1 GGGTTTAGGGTTTTAGAGGTTTA-G-GTTAA
*
11775685 GGGTTTAGGGTTTTAG-GGTTTAGGTTTA
1 GGGTTTAGGGTTTTAGAGGTTTAGGTTAA
*
11775713 TGGTTTAGGGTTT
1 GGGTTTAGGGTTT
11775726 AGATTAACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 16 0.44
29 12 0.33
30 8 0.22
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (29 bp):
GGGTTTAGGGTTTTAGAGGTTTAGGTTAA
Found at i:11775724 original size:14 final size:14
Alignment explanation
Indices: 11775656--11775727 Score: 67
Period size: 15 Copynumber: 5.1 Consensus size: 14
11775646 TTAAAGACTG
*
11775656 GGGTTTAAGGTTTA
1 GGGTTTAGGGTTTA
* *
11775670 GAGG-TTATGTGTTAA
1 G-GGTTTA-GGGTTTA
11775685 GGGTTTAGGGTTTTA
1 GGGTTTAGGG-TTTA
11775700 GGGTTTA-GGTTTA
1 GGGTTTAGGGTTTA
*
11775713 TGGTTTAGGGTTTA
1 GGGTTTAGGGTTTA
11775727 G
1 G
11775728 ATTAACTAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 10 0.22
14 16 0.35
15 20 0.43
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (14 bp):
GGGTTTAGGGTTTA
Found at i:11775727 original size:7 final size:7
Alignment explanation
Indices: 11775656--11775727 Score: 67
Period size: 7 Copynumber: 10.1 Consensus size: 7
11775646 TTAAAGACTG
11775656 GGGTTTA
1 GGGTTTA
*
11775663 AGGTTTA
1 GGGTTTA
11775670 GAGG-TTA
1 G-GGTTTA
* *
11775677 TGTGTTAA
1 -GGGTTTA
11775685 GGGTTTA
1 GGGTTTA
11775692 GGGTTTTA
1 GGG-TTTA
11775700 GGGTTTA
1 GGGTTTA
11775707 -GGTTTA
1 GGGTTTA
*
11775713 TGGTTTA
1 GGGTTTA
11775720 GGGTTTA
1 GGGTTTA
11775727 G
1 G
11775728 ATTAACTAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
6 6 0.11
7 35 0.66
8 12 0.23
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:11778954 original size:25 final size:25
Alignment explanation
Indices: 11778926--11778973 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
11778916 TTTTATGATT
* *
11778926 TATGGTTTAGGATTTAGGGTTTATA
1 TATGGTTTAGGATTCAAGGTTTATA
* *
11778951 TATGTTTTATGATTCAAGGTTTA
1 TATGGTTTAGGATTCAAGGTTTA
11778974 AGGAATACGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (25 bp):
TATGGTTTAGGATTCAAGGTTTATA
Found at i:11779050 original size:21 final size:21
Alignment explanation
Indices: 11778995--11779066 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
11778985 TGAGTTAGGG
* *
11778995 GTTTAGGGATTATGGTGTAA-T
1 GTTTAGGG-TTAAGGTTTAAGT
* *
11779016 GGTTGGGGTCTAAGGTTTAAGT
1 GTTTAGGGT-TAAGGTTTAAGT
* * *
11779038 GTTTAGGGTTAAGGGTTAGGG
1 GTTTAGGGTTAAGGTTTAAGT
11779059 GTTTAGGG
1 GTTTAGGG
11779067 GTTTATAGTT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 31 0.77
22 8 0.20
ACGTcount: A:0.19, C:0.01, G:0.42, T:0.38
Consensus pattern (21 bp):
GTTTAGGGTTAAGGTTTAAGT
Found at i:11779278 original size:21 final size:21
Alignment explanation
Indices: 11779253--11779298 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
11779243 GTCAATTTAT
*
11779253 GGTTAAGGGTTTAGTGTTAAG
1 GGTTAAGGGTTTAGGGTTAAG
*
11779274 GGTTAAGGGTTTAGGGTTTAG
1 GGTTAAGGGTTTAGGGTTAAG
11779295 GGTT
1 GGTT
11779299 TAATGTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (21 bp):
GGTTAAGGGTTTAGGGTTAAG
Found at i:11779299 original size:7 final size:7
Alignment explanation
Indices: 11779248--11779300 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
11779238 TCTAGGTCAA
*
11779248 TTTATGG
1 TTTAGGG
*
11779255 TTAAGGG
1 TTTAGGG
*
11779262 TTTAGTG
1 TTTAGGG
*
11779269 TTAAGGG
1 TTTAGGG
*
11779276 TTAAGGG
1 TTTAGGG
11779283 TTTAGGG
1 TTTAGGG
11779290 TTTAGGG
1 TTTAGGG
11779297 TTTA
1 TTTA
11779301 ATGTTTAAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:11779818 original size:127 final size:125
Alignment explanation
Indices: 11779675--11780077 Score: 334
Period size: 127 Copynumber: 3.2 Consensus size: 125
11779665 GGCCACAGGA
11779675 ATTTGAATTTTAGTGGCGTTTTTATGAAAAACGCCACAAAAGGTATGCAATAGTGGCATTTTTAT
1 ATTTGAATTTTAGTGGCGTTTTTATGAAAAACGCCACAAAAGGTATGCAATAGTGGCATTTTTAT
*
11779740 AGAAACGCCGCAAATCCATAAATATTTGTGTGTACGAAAACGACGTCGTTTTCTTAAATG
66 AGAAACGCCGCAAATCCATAAATAATTGTGTGTACGAAAACGACGTCGTTTTCTTAAATG
*** * ** * ** * * *
11779800 ATTTGAACTCTTTAGTGGCGTTTTTATTTCAAACGCCATAAACTGTAAGCTTTAGCGGCGTTTAG
1 ATTTGAA-T-TTTAGTGGCGTTTTTATGAAAAACGCCACAAAAGGTATGCAATAGTGGCATTT-T
* *** * *** * * * * *
11779865 TAT-GAAAACGCCACAAATGTGT-ATTACAAAATGT-T-C-AGAACGTCGCCG-TTTCGTTACAG
63 TATAG-AAACGCCGCAAATCCATAAATA-ATTGTGTGTACGAAAACGACGTCGTTTTC-TTAAAT
11779924 G
125 G
* * * *
11779925 AATTTGAATTTTAGTGGCATTTTT-TGGAAAACGCCACAGAAGGTATGCAATCGTGGCATTTTTT
1 -ATTTGAATTTTAGTGGCGTTTTTATGAAAAACGCCACAAAAGGTATGCAATAGTGGCA-TTTTT
* ** * *
11779989 ATAGAAACACCGCAAATCCATAAATGCTTGTGTGTATGAAAACGGCGTCGTTTTCTTAAATG
64 ATAGAAACGCCGCAAATCCATAAATAATTGTGTGTACGAAAACGACGTCGTTTTCTTAAATG
* *
11780051 ATTTGAACTCTTTTGTGGCGTGTTTAT
1 ATTTGAA-T-TTTAGTGGCGTTTTTAT
11780078 TTAAAACACC
Statistics
Matches: 200, Mismatches: 61, Indels: 31
0.68 0.21 0.11
Matches are distributed among these distances:
123 39 0.19
124 25 0.12
125 29 0.14
126 24 0.12
127 63 0.31
128 20 0.10
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (125 bp):
ATTTGAATTTTAGTGGCGTTTTTATGAAAAACGCCACAAAAGGTATGCAATAGTGGCATTTTTAT
AGAAACGCCGCAAATCCATAAATAATTGTGTGTACGAAAACGACGTCGTTTTCTTAAATG
Found at i:11780062 original size:251 final size:251
Alignment explanation
Indices: 11779669--11780170 Score: 826
Period size: 251 Copynumber: 2.0 Consensus size: 251
11779659 CCGTTTGGCC
*
11779669 ACAGGAATTTGAATTTTAGTGGCGTTTTTATGAAAAACGCCACAAAAGGTATGCAATAGTGGCAT
1 ACAGGAATTTGAATTTTAGTGGCATTTTTATGAAAAACGCCACAAAAGGTATGCAATAGTGGCAT
* *
11779734 TTTTATAGAAACGCCGCAAATCCATAAATATTTGTGTGTACGAAAACGACGTCGTTTTCTTAAAT
66 TTTTATAGAAACACCGCAAATCCATAAATACTTGTGTGTACGAAAACGACGTCGTTTTCTTAAAT
* * * *
11779799 GATTTGAACTCTTTAGTGGCGTTTTTATTTCAAACGCCATAAACTGTAAGCTTTAGCGGCGTTTA
131 GATTTGAACTCTTTAGTGGCGTGTTTATTTAAAACACCACAAACTGTAAGCTTTAGCGGCGTTTA
* *
11779864 GTATGAAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCGCCGTTTCGTT
196 GTATGAAAACACCACAAATGTATATTACAAAATGTTCAGAACGTCGCCGTTTCGTT
* * *
11779920 ACAGGAATTTGAATTTTAGTGGCATTTTT-TGGAAAACGCCACAGAAGGTATGCAATCGTGGCAT
1 ACAGGAATTTGAATTTTAGTGGCATTTTTATGAAAAACGCCACAAAAGGTATGCAATAGTGGCA-
* * *
11779984 TTTTTATAGAAACACCGCAAATCCATAAATGCTTGTGTGTATGAAAACGGCGTCGTTTTCTTAAA
65 TTTTTATAGAAACACCGCAAATCCATAAATACTTGTGTGTACGAAAACGACGTCGTTTTCTTAAA
* *
11780049 TGATTTGAACTCTTTTGTGGCGTGTTTATTTAAAACACCGCAAACTGTAAGCTTTAGCGGCGTTT
130 TGATTTGAACTCTTTAGTGGCGTGTTTATTTAAAACACCACAAACTGTAAGCTTTAGCGGCGTTT
*
11780114 AGTATGAAAACACCACAAATGTATATTACAAAATGTTCAGAACGTCGGCGTTTCGTT
195 AGTATGAAAACACCACAAATGTATATTACAAAATGTTCAGAACGTCGCCGTTTCGTT
11780171 TGAGGAACAG
Statistics
Matches: 232, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
250 31 0.13
251 201 0.87
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (251 bp):
ACAGGAATTTGAATTTTAGTGGCATTTTTATGAAAAACGCCACAAAAGGTATGCAATAGTGGCAT
TTTTATAGAAACACCGCAAATCCATAAATACTTGTGTGTACGAAAACGACGTCGTTTTCTTAAAT
GATTTGAACTCTTTAGTGGCGTGTTTATTTAAAACACCACAAACTGTAAGCTTTAGCGGCGTTTA
GTATGAAAACACCACAAATGTATATTACAAAATGTTCAGAACGTCGCCGTTTCGTT
Found at i:11781982 original size:67 final size:67
Alignment explanation
Indices: 11781857--11781982 Score: 157
Period size: 67 Copynumber: 1.9 Consensus size: 67
11781847 TATATTAATA
* * **
11781857 TGGACATATAACCTATATTCCAATTTTATTAATAATAAATTTTATAATTTATCGAATAAATGTAA
1 TGGACATATAACCTATATTCCAAATTTATTAATAATAAATTTTAAAATTTATAAAATAAATGTAA
11781922 AT
66 AT
* * *
11781924 TGGATATATAACCTATATTTCAAATTTATTAGTAA-ACAATTTTTAAAATTTA-AAAATAA
1 TGGACATATAACCTATATTCCAAATTTATTAATAATA-AA-TTTTAAAATTTATAAAATAA
11781983 TTATAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
66 1 0.02
67 38 0.76
68 11 0.22
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (67 bp):
TGGACATATAACCTATATTCCAAATTTATTAATAATAAATTTTAAAATTTATAAAATAAATGTAA
AT
Found at i:11781990 original size:67 final size:67
Alignment explanation
Indices: 11781848--11781990 Score: 155
Period size: 67 Copynumber: 2.1 Consensus size: 67
11781838 TATATAACAT
* * * **
11781848 ATATTAATATGGACATATAACCTATATTCCAATTTTATTAATAATAAATTTTATAATTTATCGAA
1 ATATAAAT-TGGACATATAACCTATATTCCAAATTTATTAATAATAAATTTTAAAATTTATAAAA
11781913 TAA
65 TAA
* * * *
11781916 ATGTAAATTGGATATATAACCTATATTTCAAATTTATTAGTAA-ACAATTTTTAAAATTTA-AAA
1 ATATAAATTGGACATATAACCTATATTCCAAATTTATTAATAATA-AA-TTTTAAAATTTATAAA
11781979 ATAA
64 ATAA
*
11781983 TTATAAAT
1 ATATAAAT
11781991 AACAAGTATA
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
66 1 0.02
67 44 0.71
68 17 0.27
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (67 bp):
ATATAAATTGGACATATAACCTATATTCCAAATTTATTAATAATAAATTTTAAAATTTATAAAAT
AA
Found at i:11782115 original size:15 final size:15
Alignment explanation
Indices: 11782079--11782120 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
11782069 ATAAATATTT
* *
11782079 ATATACATTTTTAAT
1 ATATATATTTTTAAA
11782094 ATATATATTTTTAAA
1 ATATATATTTTTAAA
*
11782109 ATCTATATTTTT
1 ATATATATTTTT
11782121 TTCAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATATATTTTTAAA
Found at i:11782115 original size:17 final size:18
Alignment explanation
Indices: 11782095--11782128 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11782085 ATTTTTAATA
11782095 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
11782112 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
11782129 TTATCAATCA
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:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:11782688 original size:9 final size:9
Alignment explanation
Indices: 11782674--11782870 Score: 123
Period size: 9 Copynumber: 21.2 Consensus size: 9
11782664 NNNNNNNNNN
11782674 ATAACTTAC
1 ATAACTTAC
11782683 ATAACTTAC
1 ATAACTTAC
*
11782692 ATAACTTAA
1 ATAACTTAC
*
11782701 ATAACTTAA
1 ATAACTTAC
*
11782710 ATAATACATAC
1 AT-A-ACTTAC
* *
11782721 ATTATTTAC
1 ATAACTTAC
11782730 ATAA--TAC
1 ATAACTTAC
11782737 ATAACTTAGTAC
1 ATAAC-T--TAC
*
11782749 ATAACTGAC
1 ATAACTTAC
* *
11782758 ATAATTTTTTCTAA
1 ATAA----CT-TAC
*
11782772 ATAGCTTAC
1 ATAACTTAC
* *
11782781 ATAAATTAA
1 ATAACTTAC
11782790 ATAACTTAC
1 ATAACTTAC
*
11782799 GTAACTTAC
1 ATAACTTAC
* *
11782808 ATAAATTAA
1 ATAACTTAC
11782817 ATAACTTAC
1 ATAACTTAC
*
11782826 ATAGCTTAC
1 ATAACTTAC
*
11782835 ATAACTTAA
1 ATAACTTAC
*
11782844 ATAACTTAT
1 ATAACTTAC
11782853 ATAA--TAC
1 ATAACTTAC
11782860 ATAACTTAC
1 ATAACTTAC
11782869 AT
1 AT
11782871 TAATATGATA
Statistics
Matches: 144, Mismatches: 30, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
7 13 0.09
9 109 0.76
10 2 0.01
11 7 0.05
12 8 0.06
13 1 0.01
14 4 0.03
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:11782881 original size:22 final size:22
Alignment explanation
Indices: 11782851--11782892 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11782841 TAAATAACTT
*
11782851 ATATAATACATAACTTACATTA
1 ATATAATACATAACGTACATTA
* *
11782873 ATATGATACGTAACGTACAT
1 ATATAATACATAACGTACAT
11782893 AACTAAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (22 bp):
ATATAATACATAACGTACATTA
Found at i:11782958 original size:9 final size:9
Alignment explanation
Indices: 11782944--11782973 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
11782934 CATAAATATT
11782944 TAACTTACA
1 TAACTTACA
11782953 TAACTTACA
1 TAACTTACA
11782962 TAACTTACA
1 TAACTTACA
11782971 TAA
1 TAA
11782974 NNNNNNNNNN
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (9 bp):
TAACTTACA
Found at i:11789843 original size:21 final size:21
Alignment explanation
Indices: 11789814--11789864 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11789804 CTACAACTTA
*
11789814 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* * *
11789835 AAGCGGAGGCTGCAGTGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
11789856 AAGCAGAGG
1 AAGCAGAGG
11789865 TTCAAAAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.49, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:11789925 original size:87 final size:87
Alignment explanation
Indices: 11789774--11789951 Score: 257
Period size: 87 Copynumber: 2.0 Consensus size: 87
11789764 GACCACAGTT
* *
11789774 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
* * *
11789839 GGAGGCTGCAGTGAGAGAAGCA
66 AGAGGCTACAGCGAGAGAAGCA
* * * *
11789861 GAGGTTCAAAAGAAATGTGAAGAACTCCAGCTACAACTTAAAGCTGATGCGGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
* *
11789926 AGCGGCTACAGCGAGGGAAGCA
66 AGAGGCTACAGCGAGAGAAGCA
11789948 GAGG
1 GAGG
11789952 CTACAGCAAG
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.37, C:0.18, G:0.33, T:0.12
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
AGAGGCTACAGCGAGAGAAGCA
Found at i:11789940 original size:21 final size:21
Alignment explanation
Indices: 11789916--11789971 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
11789906 GATGCGGCAT
*
11789916 CGAGAGAAGCAGCGGCTACAG
1 CGAGAGAAGCAGAGGCTACAG
*
11789937 CGAGGGAAGCAGAGGCTACAG
1 CGAGAGAAGCAGAGGCTACAG
*
11789958 CAAGAGAAGCAGAG
1 CGAGAGAAGCAGAG
11789972 CAGAGCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.20, G:0.39, T:0.04
Consensus pattern (21 bp):
CGAGAGAAGCAGAGGCTACAG
Found at i:11790334 original size:43 final size:42
Alignment explanation
Indices: 11790273--11790432 Score: 214
Period size: 42 Copynumber: 3.8 Consensus size: 42
11790263 AGCGGCCTTA
*
11790273 CGCCGCTAAAGAATATGTTCTTTAGCGGCGTTTGTAAAAAAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGT-AAAAAAG
* * * * *
11790316 CGCCGCTAAAGGACATGTTCTTTAGTGGCGTTTGTGAATATG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAG
* *
11790358 CGCCGCTAAAGAACATGTTCTTTAACGGCGCTTTGTAGAAAA-
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAAG
*
11790400 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT
11790433 TTGTTTGTAA
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
41 3 0.03
42 59 0.58
43 39 0.39
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAAG
Found at i:11790376 original size:85 final size:84
Alignment explanation
Indices: 11790273--11790432 Score: 241
Period size: 85 Copynumber: 1.9 Consensus size: 84
11790263 AGCGGCCTTA
* * * *
11790273 CGCCGCTAAAGAATATGTTCTTTAGCGGCG-TTTGTAAAAAAAGCGCCGCTAAAGGACATGTTCT
1 CGCCGCTAAAGAACATGTTCTTTAACGGCGCTTTGT-AAAAAA-CGCCGCTAAAGAACATGATCT
*
11790337 TTAGTGGCGTTTGTGAATATG
64 TTAGCGGCGTTTGTGAATATG
*
11790358 CGCCGCTAAAGAACATGTTCTTTAACGGCGCTTTGTAGAAAACGCCGCTAAAGAACATGATCTTT
1 CGCCGCTAAAGAACATGTTCTTTAACGGCGCTTTGTAAAAAACGCCGCTAAAGAACATGATCTTT
11790423 AGCGGCGTTT
66 AGCGGCGTTT
11790433 TTGTTTGTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 30 0.44
85 33 0.49
86 5 0.07
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (84 bp):
CGCCGCTAAAGAACATGTTCTTTAACGGCGCTTTGTAAAAAACGCCGCTAAAGAACATGATCTTT
AGCGGCGTTTGTGAATATG
Found at i:11791071 original size:16 final size:16
Alignment explanation
Indices: 11791036--11791072 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11791026 TTGGTTCGCT
*
11791036 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
*
11791052 GTAATGGAATAGAGGG
1 GTAATGGAATAGAGGC
11791068 GTAAT
1 GTAAT
11791073 AGGTAATCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.35, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:11791430 original size:121 final size:120
Alignment explanation
Indices: 11791292--11791529 Score: 458
Period size: 121 Copynumber: 2.0 Consensus size: 120
11791282 ATATTTTAAC
11791292 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAA
1 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAA
*
11791357 TATATAATACTATAAAATATAATTTTAACATAATTATTATTAAATATAATTTAATA
66 TATATAATACTATAAAATATAA-TTTAAAATAATTATTATTAAATATAATTTAATA
11791413 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAA
1 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAA
11791478 TATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTA
66 TATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTA
11791530 TAATCTAGTT
Statistics
Matches: 116, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
120 29 0.25
121 87 0.75
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAA
TATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATA
Found at i:11796434 original size:16 final size:16
Alignment explanation
Indices: 11796410--11796443 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11796400 TAATACTAAT
*
11796410 TAATTTTTGATATTAA
1 TAATGTTTGATATTAA
*
11796426 TAATGTTTGATTTTAA
1 TAATGTTTGATATTAA
11796442 TA
1 TA
11796444 TTTAATATAT
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:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
TAATGTTTGATATTAA
Found at i:11797734 original size:61 final size:58
Alignment explanation
Indices: 11797666--11797781 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
11797656 CGTGATTATC
* *
11797666 TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAATATTTTATTAATTTAATAGAT
1 TTAATATTAAATTTAATGTAATATTTA---TATAGATAAATATTATATTAATTTAATAGAT
* *
11797727 TTAATATTAAATTTAATGTAATATTTATATTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATGTAATATTTATATAGATAAATATTATATTAATTTAATA
11797782 CTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 25 0.49
61 26 0.51
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (58 bp):
TTAATATTAAATTTAATGTAATATTTATATAGATAAATATTATATTAATTTAATAGAT
Found at i:11797794 original size:58 final size:58
Alignment explanation
Indices: 11797668--11797801 Score: 146
Period size: 58 Copynumber: 2.3 Consensus size: 58
11797658 TGATTATCTT
* * * *
11797668 AATATTAAATTTAATTTAATATTTATCTTATAGATAAATATTTTATTAATTTAATAGATTT
1 AATATTAAATTTAATGTAATATTTA--TTATAGATAAATATTATATTAATTTAATA-ACTA
* *
11797729 AATATTAAATTTAATGTAATATTTA-TATTGATAAGTATTATATTAATTTAAT-ACTA
1 AATATTAAATTTAATGTAATATTTATTATAGATAAATATTATATTAATTTAATAACTA
*
11797785 AAGTGATTAAGTTTAAT
1 AA-T-ATTAAATTTAAT
11797802 CATATTTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 4 0.06
57 1 0.02
58 35 0.55
61 24 0.38
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.49
Consensus pattern (58 bp):
AATATTAAATTTAATGTAATATTTATTATAGATAAATATTATATTAATTTAATAACTA
Found at i:11800968 original size:13 final size:14
Alignment explanation
Indices: 11800952--11800985 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11800942 GCCCAATAAG
11800952 GCCCAAAT-TGCTA
1 GCCCAAATCTGCTA
*
11800965 GCCCTAATCTGCTA
1 GCCCAAATCTGCTA
11800979 GCCCAAA
1 GCCCAAA
11800986 AAACACAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.21
Consensus pattern (14 bp):
GCCCAAATCTGCTA
Found at i:11802109 original size:23 final size:24
Alignment explanation
Indices: 11802073--11802117 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11802063 TACAATTAAG
*
11802073 TTTATTTTATTTTTAAATTTCATC
1 TTTAATTTATTTTTAAATTTCATC
11802097 TTTAATTTATTTTT-AATTTCA
1 TTTAATTTATTTTTAAATTTCA
11802118 ATTTGGTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTAATTTATTTTTAAATTTCATC
Found at i:11802113 original size:11 final size:11
Alignment explanation
Indices: 11802073--11802115 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
11802063 TACAATTAAG
*
11802073 TTTATTTTATT
1 TTTAATTTATT
*
11802084 TTTAAATTTCATC
1 TTT-AATTT-ATT
11802097 TTTAATTTATT
1 TTTAATTTATT
11802108 TTTAATTT
1 TTTAATTT
11802116 CAATTTGGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 13 0.48
12 9 0.33
13 5 0.19
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTAATTTATT
Found at i:11802306 original size:19 final size:19
Alignment explanation
Indices: 11802282--11802326 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11802272 ATTTTTTATT
*
11802282 TTATTA-ATTGATAATGTAA
1 TTATTATATTCAT-ATGTAA
*
11802301 TTATTATTTTCATATGTAA
1 TTATTATATTCATATGTAA
11802320 TTATTAT
1 TTATTAT
11802327 TTCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
TTATTATATTCATATGTAA
Found at i:11802361 original size:18 final size:18
Alignment explanation
Indices: 11802338--11802404 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
11802328 TCTTTTTTTA
11802338 TATATATGTATATTTATG
1 TATATATGTATATTTATG
11802356 TATATAT-T-TATTTCCATG
1 TATATATGTATATTT--ATG
*
11802374 TATATATACGTATATTTTTG
1 TATATAT--GTATATTTATG
*
11802394 AATATAATGTA
1 TATAT-ATGTA
11802405 GTTATTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
16 5 0.12
17 1 0.03
18 17 0.43
19 3 0.08
20 6 0.15
21 3 0.08
22 5 0.12
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.52
Consensus pattern (18 bp):
TATATATGTATATTTATG
Found at i:11802713 original size:19 final size:18
Alignment explanation
Indices: 11802689--11802746 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
11802679 TATATTTTCA
*
11802689 TATTTTTCTTTATTATGTT
1 TATTTTTCTTTATT-TATT
*
11802708 TA-TTTTGTTTATTTATT
1 TATTTTTCTTTATTTATT
* *
11802725 TATGTTTTCATTATTTTTT
1 TAT-TTTTCTTTATTTATT
11802744 TAT
1 TAT
11802747 CTTGCTCGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 5 0.16
18 10 0.31
19 17 0.53
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.74
Consensus pattern (18 bp):
TATTTTTCTTTATTTATT
Found at i:11808842 original size:44 final size:44
Alignment explanation
Indices: 11808792--11809275 Score: 196
Period size: 44 Copynumber: 11.0 Consensus size: 44
11808782 AATAACAGAT
* * *
11808792 CTTGCCTTCTTGCACCGACAGCGAATCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGC
**** * * * * * * *
11808836 CTTGCC-TCTCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTC-CTGCACCGACAGCGAAGCAGATTGAAGACACCAG-C
11808880 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGC
* * * * * * * * * *
11808924 CTTGCC-TCCTTGGGA--TACAGCGGAGTAGGTTAAAAATAGCAGAT
1 CTTGCCTTCC-T-GCACCGACAGCGAAGCAGATTGAAGACACCAG-C
* * *
11808968 CTTGCCTTCGTGCACCGACAGCGAAGCAGATCGAAGACACCAAC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGC
* ** * * * * * *
11809012 CTTGCCTCCCTG-AGTTGA-AGTGAAGCAGGTTAAAAACAACAGAT
1 CTTGCCTTCCTGCA-CCGACAGCGAAGCAGATTGAAGACACCAG-C
* * *
11809056 CTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACTAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGC
* **** * * * * * * *
11809100 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAG-C
* *
11809144 CTTGCCATCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGC
* * **** * * * * * *
11809188 CTTACCTCCCTGGGTTG-CAGC-AGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACCGACAGCGA-AGCAGATTGAAGACACCAG-C
* * *
11809232 TTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGC
11809276 ATTATCTCCT
Statistics
Matches: 290, Mismatches: 130, Indels: 40
0.63 0.28 0.09
Matches are distributed among these distances:
42 1 0.00
43 95 0.33
44 98 0.34
45 95 0.33
46 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGC
Found at i:11808927 original size:88 final size:88
Alignment explanation
Indices: 11808778--11809275 Score: 771
Period size: 88 Copynumber: 5.7 Consensus size: 88
11808768 AGTGGATCAG
* *
11808778 TAAAAATAACAGATCTTGCCTTCTTGCACCGACAGCGAATCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
11808843 CTCTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* *
11808866 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
11808931 CCTTGGGATACAGCGGAGTAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * *
11808954 TAAAAATAGCAGATCTTGCCTTCGTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
11809019 CCCTGAGTTGAAGTGAAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * *
11809042 TAAAAACAACAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
11809107 CCCTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* *
11809130 TAAAAATAACAGATCTTGCCATCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
11809195 CCCTGGGTTGCAGCAGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * *
11809218 TAAAAATAGCAGATTTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
11809276 ATTATCTCCT
Statistics
Matches: 370, Mismatches: 40, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 370 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (88 bp):
TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGT
Found at i:11809300 original size:264 final size:264
Alignment explanation
Indices: 11808778--11809409 Score: 829
Period size: 264 Copynumber: 2.4 Consensus size: 264
11808768 AGTGGATCAG
* * *
11808778 TAAAAATAACAGATCTTGCCTTCTTGCACCGACAGCGAATCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
11808843 CTCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCA
66 CCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCATCCTGCACCGACAGCGAAGCA
* * * * *
11808908 GATTGAAGACACCAGCCTTGCCTCCTTGGGATACAGCGGAGTAGGTTAAAAATAGCAGATCTTGC
131 GATCGAAGACACCAGCCTTACCTCCCTGGGATACAGCAGAGCAGGTTAAAAATAGCAGATCTTGC
* * * * **
11808973 CTTCGTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGAGTTGAAGTGAAGC
196 CTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAACATTACCTCCCTGAGTCAAAGTGAAGC
11809038 AGGT
261 AGGT
* *
11809042 TAAAAACAACAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
11809107 CCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCATCCTGCACCGACAGCGAAGCA
66 CCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCATCCTGCACCGACAGCGAAGCA
* * *
11809172 GATCGAAGACACCAGCCTTACCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATTTTGC
131 GATCGAAGACACCAGCCTTACCTCCCTGGGATACAGCAGAGCAGGTTAAAAATAGCAGATCTTGC
* * *
11809237 CTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCATTATCTCCTTGAG-CAACAGTGAAG
196 CTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAACATTACCTCCCTGAGTCAA-AGTGAAG
*
11809301 TAGGT
260 CAGGT
* * ** * * * * * * *
11809306 TGAAAATTACAGATCTTATCTCCCTA-AGC-AGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTC
1 TAAAAATAACAGATCTTGCCTTCCTACACCGA-CAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* ** * * * *
11809369 TCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
65 TCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTT
11809410 ATCTCCCTAA
Statistics
Matches: 320, Mismatches: 46, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
262 1 0.00
263 63 0.20
264 256 0.80
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (264 bp):
TAAAAATAACAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCATCCTGCACCGACAGCGAAGCA
GATCGAAGACACCAGCCTTACCTCCCTGGGATACAGCAGAGCAGGTTAAAAATAGCAGATCTTGC
CTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAACATTACCTCCCTGAGTCAAAGTGAAGC
AGGT
Found at i:11809312 original size:88 final size:88
Alignment explanation
Indices: 11808778--11809496 Score: 725
Period size: 88 Copynumber: 8.2 Consensus size: 88
11808768 AGTGGATCAG
* *
11808778 TAAAAATAACAGATCTTGCCTTCTTGCACCGACAGCGAATCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
11808843 CTCTGGGTTGCAGCGGAGCAGGT
66 CCCTGAGTAGCAGCGGAGCAGGT
* *
11808866 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
11808931 CCTTGGGATA-CAGCGGAGTAGGT
66 CCCTGAG-TAGCAGCGGAGCAGGT
* * *
11808954 TAAAAATAGCAGATCTTGCCTTCGTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
11809019 CCCTGAGTTGAAGTGAAGCAGGT
66 CCCTGAGTAGCAGCGGAGCAGGT
* * *
11809042 TAAAAACAACAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
11809107 CCCTGGGTTGCAGCGGAGCAGGT
66 CCCTGAGTAGCAGCGGAGCAGGT
* *
11809130 TAAAAATAACAGATCTTGCCATCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
11809195 CCCTGGGTTGCAGCAGAGCAGGT
66 CCCTGAGTAGCAGCGGAGCAGGT
* * * * **
11809218 TAAAAATAGCAGATTTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCATTATCT
1 TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * * *
11809283 CCTTGAGCAACAGTGAAGTAGGT
66 CCCTGAGTAGCAGCGGAGCAGGT
* * ** * * * * * *
11809306 TGAAAATTACAGATCTTATCTCCCTAAGCA--G-TAGTGGAGCAGATCGAAGACCCCAGCCTTGT
1 TAAAAATAACAGATCTTGCCTTCCT--GCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* * *
11809368 CTCCCTGAGCAGCAGTGGAGTAGGT
64 CTCCCTGAGTAGCAGCGGAGCAGGT
* * ** * * * * *
11809393 TGAAAATTACAGATCTTATCTCCCTAAGCA--G-TAGTGGAGCAGATCGAAGTC-CCTAGCCTTG
1 TAAAAATAACAGATCTTGCCTTCCT--GCACCGACAGCGAAGCAGATCGAAGACACC-AGCCTTG
* * * *
11809454 TCTCCCTGAGCAGCAGTGGAGTAGGT
63 CCTCCCTGAGTAGCAGCGGAGCAGGT
* *
11809480 TGAAAATTACAGATCTT
1 TAAAAATAACAGATCTT
11809497 ATCTCCCTAA
Statistics
Matches: 559, Mismatches: 67, Indels: 11
0.88 0.11 0.02
Matches are distributed among these distances:
86 2 0.00
87 148 0.26
88 405 0.72
89 1 0.00
90 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (88 bp):
TAAAAATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGAGTAGCAGCGGAGCAGGT
Found at i:11809326 original size:44 final size:44
Alignment explanation
Indices: 11809277--11809510 Score: 213
Period size: 44 Copynumber: 5.4 Consensus size: 44
11809267 GACACCAGCA
* * *
11809277 TTATCTCCTTGAGCAACAGTGAAGTAGGTTGAAAATTACAGATC
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
* * * * * * *** *
11809321 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAG-CC
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
*
11809364 TTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
* * * * * * ** *
11809408 TTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGTCCCTAG-CC
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTAC-AGATC
*
11809451 TTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
*
11809495 TTATCTCCCTAAGCAG
1 TTATCTCCCTGAGCAG
11809511 TGTGGAGCAG
Statistics
Matches: 140, Mismatches: 46, Indels: 8
0.72 0.24 0.04
Matches are distributed among these distances:
43 64 0.46
44 76 0.54
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (44 bp):
TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
Found at i:11809371 original size:87 final size:87
Alignment explanation
Indices: 11809256--11809523 Score: 457
Period size: 87 Copynumber: 3.1 Consensus size: 87
11809246 CCAACAGCGA
* * * * * *
11809256 AGCAGATCGAAGACACCAGCATTATCTCCTTGAGCAACAGTGAAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
11809321 TTATCTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
11809343 AGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
11809408 TTATCTCCCTAAGCAGTAGTGG
66 TTATCTCCCTAAGCAGTAGTGG
* *
11809430 AGCAGATCGAAGTCCCTAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
1 AGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
11809495 TTATCTCCCTAAGCAGT-GTGG
66 TTATCTCCCTAAGCAGTAGTGG
11809516 AGCAGATC
1 AGCAGATC
11809524 AAGGATGGTA
Statistics
Matches: 173, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
86 12 0.07
87 161 0.93
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
AGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATC
TTATCTCCCTAAGCAGTAGTGG
Found at i:11809516 original size:43 final size:43
Alignment explanation
Indices: 11809299--11809517 Score: 183
Period size: 43 Copynumber: 5.0 Consensus size: 43
11809289 GCAACAGTGA
11809299 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT-GTGG
* * * * *** * * * *
11809343 AGCAGATCGAAGACCCCAG-CCTTGTCTCCCTGAGCAGCAGTGG
1 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAG-TGTGG
11809386 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT-GTGG
* * * * ** * * * *
11809430 AGCAGATCG-AAGTCCCTAG-CCTTGTCTCCCTGAGCAGCAGTGG
1 AGTAGGTTGAAAATTAC-AGATCTTATCTCCCTAAGCAG-TGTGG
11809473 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTGTGG
1 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTGTGG
11809516 AG
1 AG
11809518 CAGATCAAGG
Statistics
Matches: 126, Mismatches: 42, Indels: 15
0.69 0.23 0.08
Matches are distributed among these distances:
43 68 0.54
44 58 0.46
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (43 bp):
AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTGTGG
Found at i:11810036 original size:13 final size:14
Alignment explanation
Indices: 11810020--11810053 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11810010 GCCCAATAAG
11810020 GCCCAAAT-TGCTA
1 GCCCAAATCTGCTA
*
11810033 GCCCTAATCTGCTA
1 GCCCAAATCTGCTA
11810047 GCCCAAA
1 GCCCAAA
11810054 AAACACAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.21
Consensus pattern (14 bp):
GCCCAAATCTGCTA
Found at i:11811194 original size:10 final size:10
Alignment explanation
Indices: 11811175--11811233 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
11811165 ATTTTTTCTT
*
11811175 TATATATATA
1 TATATGTATA
11811185 TATATGTATA
1 TATATGTATA
*
11811195 TTTATGTATA
1 TATATGTATA
*
11811205 TAT-T-TATT
1 TATATGTATA
**
11811213 TCCATGTATA
1 TATATGTATA
*
11811223 TATACGTATA
1 TATATGTATA
11811233 T
1 T
11811234 TTTTGAATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
8 4 0.11
9 2 0.05
10 31 0.84
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.53
Consensus pattern (10 bp):
TATATGTATA
Found at i:11811206 original size:18 final size:18
Alignment explanation
Indices: 11811183--11811249 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
11811173 TTTATATATA
11811183 TATATATGTATATTTATG
1 TATATATGTATATTTATG
11811201 TATATAT-T-TATTTCCATG
1 TATATATGTATATTT--ATG
*
11811219 TATATATACGTATATTTTTG
1 TATATAT--GTATATTTATG
*
11811239 AATATAATGTA
1 TATAT-ATGTA
11811250 GTTATTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
16 5 0.12
17 1 0.03
18 17 0.43
19 3 0.08
20 6 0.15
21 3 0.08
22 5 0.12
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.52
Consensus pattern (18 bp):
TATATATGTATATTTATG
Found at i:11811461 original size:8 final size:8
Alignment explanation
Indices: 11811429--11811490 Score: 52
Period size: 8 Copynumber: 6.8 Consensus size: 8
11811419 GTCATGTACC
11811429 TTTTATTT
1 TTTTATTT
11811437 TTTATATTTTT
1 TTT-TA--TTT
11811448 TGTTTATTT
1 T-TTTATTT
11811457 TTTTATTT
1 TTTTATTT
11811465 TTTTATGTT
1 TTTTAT-TT
11811474 TTCATTAATTT
1 TT--TT-ATTT
11811485 TTTTAT
1 TTTTAT
11811491 CTTGCTCGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
8 18 0.39
9 12 0.26
11 12 0.26
12 4 0.09
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (8 bp):
TTTTATTT
Found at i:11811461 original size:28 final size:28
Alignment explanation
Indices: 11811429--11811490 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
11811419 GTCATGTACC
** *
11811429 TTTTATTTTTTATAT-TTTTTGTTTATTT
1 TTTTATTTTTT-TATGTTTTCATTAATTT
11811457 TTTTATTTTTTTATGTTTTCATTAATTT
1 TTTTATTTTTTTATGTTTTCATTAATTT
11811485 TTTTAT
1 TTTTAT
11811491 CTTGCTCGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (28 bp):
TTTTATTTTTTTATGTTTTCATTAATTT
Found at i:11811468 original size:20 final size:20
Alignment explanation
Indices: 11811430--11811467 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11811420 TCATGTACCT
11811430 TTTATTTTTTATATTTTTTG
1 TTTATTTTTTATATTTTTTG
11811450 TTTATTTTTT-TATTTTTT
1 TTTATTTTTTATATTTTTT
11811468 TATGTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (20 bp):
TTTATTTTTTATATTTTTTG
Found at i:11813445 original size:22 final size:22
Alignment explanation
Indices: 11813396--11813445 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
11813386 ACTAATGCAG
* * * *
11813396 CTGACTCTGCTAACCAGAGTAG
1 CTGACCCTACTAACCAGAGCAA
*
11813418 CCGACCCTACTAACCAGAGCAA
1 CTGACCCTACTAACCAGAGCAA
11813440 CTGACC
1 CTGACC
11813446 ACTATGAACC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.16
Consensus pattern (22 bp):
CTGACCCTACTAACCAGAGCAA
Found at i:11824211 original size:19 final size:21
Alignment explanation
Indices: 11824178--11824233 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
11824168 GATAAAAAAG
11824178 TAAAAAATCAATAAAAGTT-A
1 TAAAAAATCAATAAAAGTTAA
* **
11824198 TAAAAAAT-ATTAAATTTTAA
1 TAAAAAATCAATAAAAGTTAA
*
11824218 TAAAAAATTAATAAAA
1 TAAAAAATCAATAAAA
11824234 AATTAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 7 0.24
20 17 0.59
21 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAAAAATCAATAAAAGTTAA
Found at i:11824219 original size:29 final size:27
Alignment explanation
Indices: 11824187--11824266 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 27
11824177 GTAAAAAATC
*
11824187 AATAAAAGTTATAAAAAATATTAAATTTT
1 AATAAAAATTA-AAAAAA-ATTAAATTTT
*
11824216 AATAAAAAATTAATAAAAAATTAATTTTT
1 AAT-AAAAATTAA-AAAAAATTAAATTTT
*
11824245 ATTAAAAATTAGAAAAAAATTA
1 AATAAAAATTA-AAAAAAATTA
11824267 TAAAAATCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
28 17 0.38
29 16 0.36
30 12 0.27
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (27 bp):
AATAAAAATTAAAAAAAATTAAATTTT
Found at i:11824230 original size:11 final size:11
Alignment explanation
Indices: 11824214--11824240 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11824204 ATATTAAATT
11824214 TTAATAAAAAA
1 TTAATAAAAAA
11824225 TTAATAAAAAA
1 TTAATAAAAAA
11824236 TTAAT
1 TTAAT
11824241 TTTTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAATAAAAAA
Found at i:11824271 original size:9 final size:9
Alignment explanation
Indices: 11824259--11824336 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
11824249 AAAATTAGAA
11824259 AAAAATTAT
1 AAAAATTAT
*
11824268 AAAAATCAT
1 AAAAATTAT
**
11824277 AAAAGAAAAT
1 AAAA-ATTAT
*
11824287 AAAAATTGT
1 AAAAATTAT
*
11824296 AAAATTTTAT
1 AAAA-ATTAT
*
11824306 AAAAATCAT
1 AAAAATTAT
*
11824315 AAAAA-AAT
1 AAAAATTAT
11824323 ACAAAA-TAT
1 A-AAAATTAT
11824332 AAAAA
1 AAAAA
11824337 AATTTATAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
8 7 0.13
9 33 0.61
10 14 0.26
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (9 bp):
AAAAATTAT
Found at i:11824280 original size:19 final size:18
Alignment explanation
Indices: 11824258--11824337 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
11824248 AAAAATTAGA
11824258 AAAAAATTATAAAAATCAT
1 AAAAAA-TATAAAAATCAT
* **
11824277 AAAAGAAAATAAAAATTGT
1 AAAA-AATATAAAAATCAT
**
11824296 AAAATTTTATAAAAATCAT
1 AAAA-AATATAAAAATCAT
11824315 AAAAAA-ATACAAAAT-AT
1 AAAAAATATA-AAAATCAT
11824332 AAAAAA
1 AAAAAA
11824338 ATTTATAAAG
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
17 11 0.23
18 5 0.10
19 30 0.62
20 2 0.04
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAAAATATAAAAATCAT
Found at i:11824343 original size:38 final size:38
Alignment explanation
Indices: 11824247--11824346 Score: 123
Period size: 38 Copynumber: 2.6 Consensus size: 38
11824237 TAATTTTTAT
*
11824247 TAAAAATTAGAAAAAAATTATAAAAATCATAAAAGAAAA
1 TAAAAATTA-AAAAAATTTATAAAAATCATAAAAGAAAA
** *
11824286 TAAAAATTGTAAAATTTTATAAAAATCAT-AAA-AAAA
1 TAAAAATTAAAAAAATTTATAAAAATCATAAAAGAAAA
11824322 TACAAAATATAAAAAAATTTATAAA
1 TA-AAAAT-TAAAAAAATTTATAAA
11824347 GTCTAAGAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
36 6 0.12
37 8 0.15
38 30 0.58
39 8 0.15
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (38 bp):
TAAAAATTAAAAAAATTTATAAAAATCATAAAAGAAAA
Found at i:11824358 original size:36 final size:36
Alignment explanation
Indices: 11824247--11824358 Score: 111
Period size: 38 Copynumber: 3.0 Consensus size: 36
11824237 TAATTTTTAT
*
11824247 TAAAAATTAGAAAAAAATTATAAAAATCATAAAAGAAAA
1 TAAAAATTA-AAAAAATTTATAAAAATCAT--AAGAAAA
** * *
11824286 TAAAAATTGTAAAATTTTATAAAAATCATAAAAAAA
1 TAAAAATTAAAAAAATTTATAAAAATCATAAGAAAA
*
11824322 TACAAAATATAAAAAAATTTAT-AAAGTC-TAAGAAAA
1 TA-AAAAT-TAAAAAAATTTATAAAAATCATAAGAAAA
11824358 T
1 T
11824359 GATAAAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
36 16 0.26
37 10 0.16
38 27 0.44
39 8 0.13
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (36 bp):
TAAAAATTAAAAAAATTTATAAAAATCATAAGAAAA
Found at i:11826048 original size:37 final size:37
Alignment explanation
Indices: 11825996--11826066 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
11825986 AATGAAATAC
* * * *
11825996 GAATGCTTTATATATTTATAGAACAGATGTCTAATTT
1 GAATGCTTTAAATATTCACAGAAAAGATGTCTAATTT
11826033 GAATGCTTTAAATATTCACAGAAAAGATGTCTAA
1 GAATGCTTTAAATATTCACAGAAAAGATGTCTAA
11826067 GCCGGAAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (37 bp):
GAATGCTTTAAATATTCACAGAAAAGATGTCTAATTT
Found at i:11828982 original size:46 final size:46
Alignment explanation
Indices: 11828913--11829026 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 46
11828903 AAGTGTAGCA
* * *
11828913 ACTTATCAC-TTGTCCCTGGATCAGATAAGTGTAGCTAAAGCTACC
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGCAGCTAAAGCTACC
**
11828958 ACTTATCACTTTGTCACTTGATCAGATAAGTGCAGCTAAAGCTATT
1 ACTTATCACTTTGTCACTTGATCAGATAAGTGCAGCTAAAGCTACC
11829004 ACTTATCACTTTGTCACTT-ATCA
1 ACTTATCACTTTGTCACTTGATCA
11829027 CTGATCAGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 13 0.21
46 50 0.79
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
ACTTATCACTTTGTCACTTGATCAGATAAGTGCAGCTAAAGCTACC
Found at i:11831532 original size:9 final size:9
Alignment explanation
Indices: 11831512--11831549 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
11831502 TTTTTTCTTC
*
11831512 AAAACCCGA
1 AAAACCCTA
*
11831521 AAAATCCTA
1 AAAACCCTA
11831530 AAAACCCT-
1 AAAACCCTA
11831538 AAAACCCTA
1 AAAACCCTA
11831547 AAA
1 AAA
11831550 TCTAAAAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.58, C:0.29, G:0.03, T:0.11
Consensus pattern (9 bp):
AAAACCCTA
Found at i:11848767 original size:92 final size:91
Alignment explanation
Indices: 11848610--11848818 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
11848600 TTGATTTTAG
* * *
11848610 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
11848675 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
11848702 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
11848766 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
11848794 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
11848819 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:11848781 original size:24 final size:25
Alignment explanation
Indices: 11848746--11848793 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
11848736 TTATGAAATT
11848746 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
11848770 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
11848794 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:11848989 original size:16 final size:16
Alignment explanation
Indices: 11848968--11849009 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11848958 TTATTAAATT
*
11848968 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11848984 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11848999 AT-TATGTTTAA
1 ATATAT-TTTAA
11849010 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:11848994 original size:15 final size:15
Alignment explanation
Indices: 11848959--11849000 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11848949 TTAAGAATTT
*
11848959 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11848973 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11848987 TATTTAATAATAAT
1 TATTTAATTATAAT
11849001 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11849122 original size:153 final size:156
Alignment explanation
Indices: 11848943--11849255 Score: 524
Period size: 153 Copynumber: 2.0 Consensus size: 156
11848933 ATAAGAATAT
* * *
11848943 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
* *
11849008 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
11849073 T-A-A-TTACCAAAACAAATTTCTGC
131 TAACATTTACCAAAACAAATTTATGC
* *
11849096 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGGGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
11849161 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
11849226 TAATCATTTACCAAAACAAATTTATGC
131 TAA-CATTTACCAAAACAAATTTATGC
11849253 TAA
1 TAA
11849256 GGGTATTCTA
Statistics
Matches: 148, Mismatches: 8, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
153 124 0.84
154 1 0.01
156 1 0.01
157 22 0.15
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAACATTTACCAAAACAAATTTATGC
Found at i:11849399 original size:16 final size:16
Alignment explanation
Indices: 11849378--11849413 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11849368 GATTTGCTAT
11849378 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11849394 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11849410 TACA
1 TACA
11849414 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11853078 original size:22 final size:22
Alignment explanation
Indices: 11853053--11853110 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
11853043 ACTTATTGCC
11853053 ATTGATGTATTATGCCAATATA
1 ATTGATGTATTATGCCAATATA
*
11853075 ATTGAT-TGATTGTGCCAATATA
1 ATTGATGT-ATTATGCCAATATA
11853097 ATTGAATGT-TTATG
1 ATTG-ATGTATTATG
11853111 TGTGAAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 1 0.03
22 27 0.87
23 2 0.06
24 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (22 bp):
ATTGATGTATTATGCCAATATA
Found at i:11853345 original size:146 final size:146
Alignment explanation
Indices: 11853143--11853434 Score: 503
Period size: 146 Copynumber: 2.0 Consensus size: 146
11853133 CCATGGAAAA
* * * *
11853143 ATTGATTCTTAATTCTTGAAATAGCATGTGATGTTATGGTGAAATGATAGCTTGTTGTGACTCAA
1 ATTGATTCTTAATTCTTGAAATAACATGTGATGTTATGGTGAAATGATAACATGTTGTAACTCAA
* *
11853208 AATTTAATGCTTAATTGTTTTGATTTATGCATGATTGGGTGCAAATTACTTGATGCTTTTACTTT
66 AATTTAATGCTTAATTGCTTTGATTTATGCATGATTGGGTGCAAATTACTTGATGCTTTTACTAT
11853273 CATTCACTGAGCTTTT
131 CATTCACTGAGCTTTT
* *
11853289 ATTGATTCTTAATTCTTGAAATAACATGTGATGTTATGGTGAAATGTTAACATGTTGTAACTGAA
1 ATTGATTCTTAATTCTTGAAATAACATGTGATGTTATGGTGAAATGATAACATGTTGTAACTCAA
*
11853354 AATTTAATGCTTAATTGCTTTGATTTATGCATGATTGGGTGCAAATTACTTGATGTTTTTACTAT
66 AATTTAATGCTTAATTGCTTTGATTTATGCATGATTGGGTGCAAATTACTTGATGCTTTTACTAT
11853419 CATTCACTGAGCTTTT
131 CATTCACTGAGCTTTT
11853435 TAAGCTCACA
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
146 137 1.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (146 bp):
ATTGATTCTTAATTCTTGAAATAACATGTGATGTTATGGTGAAATGATAACATGTTGTAACTCAA
AATTTAATGCTTAATTGCTTTGATTTATGCATGATTGGGTGCAAATTACTTGATGCTTTTACTAT
CATTCACTGAGCTTTT
Found at i:11855714 original size:16 final size:17
Alignment explanation
Indices: 11855695--11855730 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11855685 TTGTTTTATG
*
11855695 TTTCTT-TCTTTTTCTT
1 TTTCTTCTCTTTTACTT
11855711 TTTCTTCTCTTTTACTT
1 TTTCTTCTCTTTTACTT
11855728 TTT
1 TTT
11855731 GCTCTACTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTCTTCTCTTTTACTT
Found at i:11855723 original size:17 final size:16
Alignment explanation
Indices: 11855682--11855730 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
11855672 TCTTTACTTC
* *
11855682 TCTTTGTTTTA-TGTT
1 TCTTTCTTTTACTTTT
*
11855697 TCTTTCTTTTTCTTTT
1 TCTTTCTTTTACTTTT
11855713 TCTTCTCTTTTACTTTT
1 TCTT-TCTTTTACTTTT
11855730 T
1 T
11855731 GCTCTACTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 9 0.32
16 7 0.25
17 12 0.43
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.76
Consensus pattern (16 bp):
TCTTTCTTTTACTTTT
Found at i:11862125 original size:18 final size:18
Alignment explanation
Indices: 11862080--11862126 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
11862070 GTATATACAT
*
11862080 TTTGTTATCTGTTATTCTA
1 TTTG-TATCTGGTATTCTA
*
11862099 -TTATATCTGGTATTCTA
1 TTTGTATCTGGTATTCTA
11862116 TTTGTATCTGG
1 TTTGTATCTGG
11862127 CTATGGGGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.17, C:0.11, G:0.15, T:0.57
Consensus pattern (18 bp):
TTTGTATCTGGTATTCTA
Found at i:11880098 original size:54 final size:54
Alignment explanation
Indices: 11880026--11880137 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
11880016 CACACAACCA
* * *
11880026 TGTCCCCTGATCTTGTGCGAGAGAC-AAGCCCGTGTGAGGTGGGTCACACGGTCG
1 TGTCCCCTAATCATGTGCGAGAG-CTAAGCCCGTGTGAGGTGGGTCACACGGCCG
* *
11880080 TGTCCCCTAATCATGTGCGAGAGCTAAGCTCGTTTGAGGTGGGTCACACGGCCG
1 TGTCCCCTAATCATGTGCGAGAGCTAAGCCCGTGTGAGGTGGGTCACACGGCCG
11880134 TGTC
1 TGTC
11880138 ACTGGGTCGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
53 1 0.02
54 51 0.98
ACGTcount: A:0.17, C:0.26, G:0.33, T:0.24
Consensus pattern (54 bp):
TGTCCCCTAATCATGTGCGAGAGCTAAGCCCGTGTGAGGTGGGTCACACGGCCG
Found at i:11882549 original size:18 final size:18
Alignment explanation
Indices: 11882526--11882565 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11882516 CTTCCAGGTC
11882526 GTTACAATAACTAACTTG
1 GTTACAATAACTAACTTG
*
11882544 GTTACAATAGCTAACTTG
1 GTTACAATAACTAACTTG
11882562 GTTA
1 GTTA
11882566 GTATATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (18 bp):
GTTACAATAACTAACTTG
Found at i:11883079 original size:24 final size:24
Alignment explanation
Indices: 11883046--11883094 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
11883036 AAATAAATTA
11883046 TGATACGACCATTCTGAAGACAAG
1 TGATACGACCATTCTGAAGACAAG
*
11883070 TGATATGACCATTCTGAAGACAAG
1 TGATACGACCATTCTGAAGACAAG
11883094 T
1 T
11883095 CCATGGCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (24 bp):
TGATACGACCATTCTGAAGACAAG
Done.