Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 347 of 444
Found at i:100562325 original size:22 final size:22
Alignment explanation
Indices: 100562297--100562339 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
100562287 CCAAAATAAC
*
100562297 AATTAATTTTTTTATAAACTTA
1 AATTAATTTTTATATAAACTTA
100562319 AATTAATTTTTATATAAACTT
1 AATTAATTTTTATATAAACTT
100562340 TTAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTAATTTTTATATAAACTTA
Found at i:100563003 original size:41 final size:41
Alignment explanation
Indices: 100562958--100563094 Score: 177
Period size: 41 Copynumber: 3.3 Consensus size: 41
100562948 GTTTATAACT
*
100562958 TTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTA
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTA
* *
100562999 TTTAGCGGCGTTTTACCAAAAGCGCCGATAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTA
* * * * * *
100563040 TTTAACGGCGTTTTAACAAAAAACGCCGCTATTGCTC-AGTT
1 TTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGTA
100563081 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
100563095 TGTTAAAAGG
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 66 0.79
42 18 0.21
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTA
Found at i:100567030 original size:51 final size:51
Alignment explanation
Indices: 100566971--100567080 Score: 157
Period size: 51 Copynumber: 2.2 Consensus size: 51
100566961 TTACTTGCAA
* * * **
100566971 CAGCAACATTATCCATTCCATGTGATGTTGTAAAATCACAAACATATTCAT
1 CAGCAACATTATCCACTCCATCTAATGTTACAAAATCACAAACATATTCAT
* *
100567022 CAGCAACATTATCCACTCTATCTAATGTTACAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTAATGTTACAAAATCACAAACATATTCAT
100567073 CAGCAACA
1 CAGCAACA
100567081 ACTTCACTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.28
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTAATGTTACAAAATCACAAACATATTCAT
Found at i:100567249 original size:33 final size:33
Alignment explanation
Indices: 100567210--100567294 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 33
100567200 TACCCCTCCT
* *
100567210 ACATCACCCTCCCCAACAGATTCTACCTTTTCT
1 ACATCACCCTCCCCAACAGATTCTACCTCTTCA
* ** ** *
100567243 AGATCACATTTACCATCAGATTCTACCTCTTCA
1 ACATCACCCTCCCCAACAGATTCTACCTCTTCA
*
100567276 ACATCACCCTCCTCAACAG
1 ACATCACCCTCCCCAACAG
100567295 TCAACAAAAA
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.28, C:0.39, G:0.05, T:0.28
Consensus pattern (33 bp):
ACATCACCCTCCCCAACAGATTCTACCTCTTCA
Found at i:100568667 original size:38 final size:38
Alignment explanation
Indices: 100568610--100568688 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
100568600 TAATAATTTC
100568610 CTTAACTTTTTACACTTTAACCAAAAGTAGTGAAAAAT
1 CTTAACTTTTTACACTTTAACCAAAAGTAGTGAAAAAT
* *
100568648 CTTAACTTTTTGCAGTTTAACCAAAAGTAGTGAAAAAT
1 CTTAACTTTTTACACTTTAACCAAAAGTAGTGAAAAAT
100568686 CTT
1 CTT
100568689 TCACTTTCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (38 bp):
CTTAACTTTTTACACTTTAACCAAAAGTAGTGAAAAAT
Found at i:100575248 original size:16 final size:16
Alignment explanation
Indices: 100575217--100575253 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
100575207 ATGTGAAGAA
100575217 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
100575233 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
100575249 TATTA
1 TATTA
100575254 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:100575527 original size:26 final size:26
Alignment explanation
Indices: 100575491--100575543 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
100575481 TTACCTATAG
100575491 AGGAACTCTTTTCCAGAAAATGACTT
1 AGGAACTCTTTTCCAGAAAATGACTT
100575517 AGGAACTCTTTTCCAGAAAATGACTT
1 AGGAACTCTTTTCCAGAAAATGACTT
100575543 A
1 A
100575544 CGTTTTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (26 bp):
AGGAACTCTTTTCCAGAAAATGACTT
Found at i:100581860 original size:22 final size:20
Alignment explanation
Indices: 100581834--100581892 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 20
100581824 CAAATCCGGG
100581834 TAAATTCTTGTTGAAAAATAAT
1 TAAATT-TTGTT-AAAAATAAT
*
100581856 TAAATATT-TTAAAAATAAT
1 TAAATTTTGTTAAAAATAAT
*
100581875 TAAATTGTGTTAAAAATA
1 TAAATTTTGTTAAAAATA
100581893 TGAACATGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 15 0.45
20 11 0.33
21 2 0.06
22 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.41
Consensus pattern (20 bp):
TAAATTTTGTTAAAAATAAT
Found at i:100582558 original size:372 final size:372
Alignment explanation
Indices: 100581933--100582685 Score: 1317
Period size: 372 Copynumber: 2.0 Consensus size: 372
100581923 TTAATTTTGA
* * * *
100581933 TTAATTTTGACTATTTTCGACAGATTCGTGCAAATGGCGAAAATTGGCTCGGCTGACACTGTTGA
1 TTAATTGTGACTATTTTCGACAGATTCGCGCAAAGGGCGAAAATTGGCTCGGCTGACACTGCTGA
* * *
100581998 AAGCACAAAATCGAGAAGCAATTTGAAGTTTTGAGGCACATTAATTTTCAGCCTAAGACGATCCA
66 AAGCACAAAATCGAGAAGCAATTTGAAGTTTCGAGGCACATTAATTTCCAGCCTAAGACGACCCA
*
100582063 GAAATGTGTATTAATTCATAATTTAATTAATTTTAATTTATTCTCTATTTAATTTGGGTTAAATA
131 GAAATGTGTATTAATTCATAATTTAATTAATTTTAATTTATTCTCCATTTAATTTGGGTTAAATA
* *
100582128 AATTATTTTTAATTAATTATGGAGAAAGGGTCCAATTGAACCGCACCATTCGAACCATATTGAGT
196 AATTATTTTTAATTAATTATAGAGAAAGGGTCCAATTGAACCACACCATTCGAACCATATTGAGT
* * *
100582193 GAACCGAACCAGCAACTAATTGGTCAGACCAGAACCGTCAGCATTTTAGATGATTAAATATGCTT
261 GAACCAAACCAACAACTAATTGGTCAGACCAGAACCATCAGCATTTTAGATGATTAAATATGCTT
100582258 GCAAAAAGGCCCTTGAAGAACTATCAAAATGCATTCAAACCCCTCAT
326 GCAAAAAGGCCCTTGAAGAACTATCAAAATGCATTCAAACCCCTCAT
*
100582305 TTAATTGTGACTATTTTCGATAGATTCGCGCAAAGGGCGAAAATTGGCTCGGCTGACACTGCTGA
1 TTAATTGTGACTATTTTCGACAGATTCGCGCAAAGGGCGAAAATTGGCTCGGCTGACACTGCTGA
100582370 AAGCACAAAATCGAGAAGCAATTTGAAGTTTCGAGGCACATTAATTTCCAGCCTAAGACGACCCA
66 AAGCACAAAATCGAGAAGCAATTTGAAGTTTCGAGGCACATTAATTTCCAGCCTAAGACGACCCA
100582435 GAAATGTGTATTAATTCATAATTTAATTAATTTTAATTTATTCTCCATTTAATTTGGGTTAAATA
131 GAAATGTGTATTAATTCATAATTTAATTAATTTTAATTTATTCTCCATTTAATTTGGGTTAAATA
*
100582500 AATTATTTTTAATTAATTATAGAGAAAGGGTCCAATTGAACCACACCGTTCGAACCATATTGAGT
196 AATTATTTTTAATTAATTATAGAGAAAGGGTCCAATTGAACCACACCATTCGAACCATATTGAGT
* * *
100582565 GAACCAAACCAACAACTAATTGGTCAGCCCAGAACTATCAGCATTTTAGCTGATTAAATATGCTT
261 GAACCAAACCAACAACTAATTGGTCAGACCAGAACCATCAGCATTTTAGATGATTAAATATGCTT
** *
100582630 GCAAAAAGGCCCTTGAAGAACTATCAAAATGCATTCAAACTTCTCCT
326 GCAAAAAGGCCCTTGAAGAACTATCAAAATGCATTCAAACCCCTCAT
100582677 TTAATTGTG
1 TTAATTGTG
100582686 GCTTTATGAA
Statistics
Matches: 360, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
372 360 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (372 bp):
TTAATTGTGACTATTTTCGACAGATTCGCGCAAAGGGCGAAAATTGGCTCGGCTGACACTGCTGA
AAGCACAAAATCGAGAAGCAATTTGAAGTTTCGAGGCACATTAATTTCCAGCCTAAGACGACCCA
GAAATGTGTATTAATTCATAATTTAATTAATTTTAATTTATTCTCCATTTAATTTGGGTTAAATA
AATTATTTTTAATTAATTATAGAGAAAGGGTCCAATTGAACCACACCATTCGAACCATATTGAGT
GAACCAAACCAACAACTAATTGGTCAGACCAGAACCATCAGCATTTTAGATGATTAAATATGCTT
GCAAAAAGGCCCTTGAAGAACTATCAAAATGCATTCAAACCCCTCAT
Found at i:100585404 original size:63 final size:64
Alignment explanation
Indices: 100585258--100585404 Score: 156
Period size: 67 Copynumber: 2.3 Consensus size: 64
100585248 GAGTGCACAT
* * * *
100585258 CATGTGTACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGAC
1 CATGTGTACAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGT--AGGAC
100585323 AC
63 AC
* * **
100585325 CATGTAG-ACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGT-GTTCA
1 CATGT-GTACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTAGGACA
100585387 C
64 C
100585388 CATGTGTACAAGAGAGC
1 CATGTGTACAAGAGAGC
100585405 CGAACTATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.28
66 22 0.32
67 24 0.35
68 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
CATGTGTACAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTAGGACAC
Found at i:100592526 original size:40 final size:40
Alignment explanation
Indices: 100592471--100592591 Score: 109
Period size: 40 Copynumber: 3.0 Consensus size: 40
100592461 AACAAATTGA
* *
100592471 CTATATTTGGCACTTAGTGTGCGTTTCGAGATAGCTTCAG
1 CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCAG
* * * * *
100592511 CTATATATAGCACTTAGTATGCGAATTGGA-ATAGTTTCGG
1 CTATATATGGCACTTAGTGTGCG-ATTCGAGATAGCTTCAG
* * * * *
100592551 CTATATGTGGCACTAAGTGTGCGGTACTGAGACAGCTTCAG
1 CTATATATGGCACTTAGTGTGCGATTC-GAGATAGCTTCAG
100592592 TTTAATGTGA
Statistics
Matches: 61, Mismatches: 17, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
39 1 0.02
40 49 0.80
41 11 0.18
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCAG
Found at i:100594407 original size:89 final size:86
Alignment explanation
Indices: 100594301--100594523 Score: 241
Period size: 89 Copynumber: 2.5 Consensus size: 86
100594291 CATCGTGGTG
*
100594301 AATCTTATCTCCTTGAAGTTGCAGCGAAGCAGATTAAAGTTACAAATCTTATCTCCCAAAAGTTG
1 AATCTTATCTCC-TGAAGTTGCAG-GAAGCAGATTAAAGCTACAAA-CTTATCTCCCAAAAGTTG
*
100594366 CAATGAAGCACATTGTAGATAGCA
63 CAATGAAGCACATTGAAGATAGCA
* * **
100594390 AATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTACATAACTTATCTCCCTGAAGTTG
1 AATCTTATCTC-CTGAAGTTGCAGGA-AGCAGATTAAAGCTACA-AACTTATCTCCCAAAAGTTG
* * * * *
100594455 TAGTGGAGCAGATTGAAGATAGCG
63 CAATGAAGCACATTGAAGATAGCA
* *
100594479 AATCTTATTTCCCTGAAGTTGTAGTGGAA-CAGATTAAAGCTACAA
1 AATCTTATCT-CCTGAAGTTGCA--GGAAGCAGATTAAAGCTACAA
100594524 GTTACAAATC
Statistics
Matches: 113, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
88 2 0.02
89 104 0.92
90 5 0.04
91 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (86 bp):
AATCTTATCTCCTGAAGTTGCAGGAAGCAGATTAAAGCTACAAACTTATCTCCCAAAAGTTGCAA
TGAAGCACATTGAAGATAGCA
Found at i:100594409 original size:45 final size:44
Alignment explanation
Indices: 100594301--100594829 Score: 249
Period size: 44 Copynumber: 11.5 Consensus size: 44
100594291 CATCGTGGTG
* * *
100594301 AATCTTATCTCCTTGAAGTTGCAGCGAAGCAGATTAAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGATACA
** * * **
100594345 AATCTTATCTCCCAAAAGTTGCAATGAAGCACATTGTAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGATA-CA
* * *
100594390 AATCTTATCTCTCTGAAGTTGCAGT-AGAGTAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGATACA
* * * *
100594434 TAA-CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCG
1 -AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGATA-CA
* *
100594479 AATCTTATTTCCCTGAAGTTGTAGTGGAA-CAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAG-----A--TACA
* * * * * * *
100594530 AATCTTATCTCCTTGAAGATGCAGTTG-AGAAAATTGAAGATGCG
1 AATCTTATCTCCCTGAAGTTGCAG-TGAAGCAGATTAAAGATACA
* * * *
100594574 CATCTTATTTCCCTAAAGTTGCAGTGGAA-CAGAGTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGA-T-----TA-AAGATACA
* * * * * * *
100594625 AATCTTATCTCCCTAAAGTTACAATGGAGCAGATTGAATATGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGATACA
* * * * * ***
100594669 AATTTTATCTCCCTGAAATTGCAGTGAAGTAGGTTGAAGATGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGATACA
* * * **
100594713 AATCTTATTTCCTTGAAGTTACAGTGAAATAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAG-----A--TACA
* * * * * * **
100594764 AATCTTATCTCCTTGAAATTGTAGTGGAGCAGATTGAAGTTATT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGATACA
*
100594808 AATCTTATCTCCCTAAAGTTGC
1 AATCTTATCTCCCTGAAGTTGC
100594830 GGTGGAGTAG
Statistics
Matches: 357, Mismatches: 95, Indels: 66
0.69 0.18 0.13
Matches are distributed among these distances:
43 1 0.00
44 183 0.51
45 69 0.19
46 3 0.01
49 1 0.00
50 6 0.02
51 91 0.25
52 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGATACA
Found at i:100594600 original size:95 final size:96
Alignment explanation
Indices: 100594337--100594638 Score: 314
Period size: 89 Copynumber: 3.2 Consensus size: 96
100594327 AAGCAGATTA
** * * * * * * * * *
100594337 AAGTTACAAATCTTATCTCCCAAAAGTTGCAATGAAGCACATTGTAGATAGCAAATCTTATCTCT
1 AAGTTACAAATCTTATCTCCCTGAAGATGCAGTGGAGAAAATTGAAGATAGCGAATCTTATTTCC
* * ** *
100594402 CTGAAGTTGCAGTAGAGTAGATTAAAGCTAC
66 CTAAAGTTGCAGTGGAACAGAGTAAAGCTAC
* * * *
100594433 -A--T---AA-CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCC
1 AAGTTACAAATCTTATCTCCCTGAAGATGCAGTGGAGAAAATTGAAGATAGCGAATCTTATTTCC
* * *
100594491 CTGAAGTTGTAGTGGAACAGATTAAAGCTAC
66 CTAAAGTTGCAGTGGAACAGAGTAAAGCTAC
* * *
100594522 AAGTTACAAATCTTATCTCCTTGAAGATGCAGTTGAGAAAATTGAAGAT-GCGCATCTTATTTCC
1 AAGTTACAAATCTTATCTCCCTGAAGATGCAGTGGAGAAAATTGAAGATAGCGAATCTTATTTCC
100594586 CTAAAGTTGCAGTGGAACAGAGTAAAGCTAC
66 CTAAAGTTGCAGTGGAACAGAGTAAAGCTAC
100594617 AAGTTACAAATCTTATCTCCCT
1 AAGTTACAAATCTTATCTCCCT
100594639 AAAGTTACAA
Statistics
Matches: 174, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
89 71 0.41
90 3 0.02
92 1 0.01
93 1 0.01
95 66 0.38
96 32 0.18
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (96 bp):
AAGTTACAAATCTTATCTCCCTGAAGATGCAGTGGAGAAAATTGAAGATAGCGAATCTTATTTCC
CTAAAGTTGCAGTGGAACAGAGTAAAGCTAC
Found at i:100594661 original size:95 final size:96
Alignment explanation
Indices: 100594337--100594694 Score: 367
Period size: 95 Copynumber: 3.8 Consensus size: 96
100594327 AAGCAGATTA
* * * * *
100594337 AAGTTACAAATCTTATCTCCCAAAAGTTGCAATGAAGCACATTGTAGATAGCAAATCTTATCTCT
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCC
* * **
100594402 CTGAAGTTGCAGTAGAGTAGATTAAAGCTAC
66 CTAAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * *
100594433 -A--T---AA-CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCC
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCC
* *
100594491 CTGAAGTTGTAGTGGAACAGATTAAAGCTAC
66 CTAAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * * * * ** *
100594522 AAGTTACAAATCTTATCTCCTTGAAGATGCAGTTGAGAAAATTGAAGAT-GCGCATCTTATTTCC
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCC
*
100594586 CTAAAGTTGCAGTGGAACAGAGTAAAGCTAC
66 CTAAAGTTGCAGTGGAACAGATTAAAGCTAC
* * *
100594617 AAGTTACAAATCTTATCTCCCTAAAGTTACAATGGAGCAGATTGAATAT-GCAAATTTTATCTCC
1 AAGTTACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCC
100594681 CTGAAA-TTGCAGTG
66 CT-AAAGTTGCAGTG
100594695 AAGTAGGTTG
Statistics
Matches: 217, Mismatches: 37, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
89 71 0.33
90 3 0.01
92 1 0.00
93 1 0.00
95 106 0.49
96 35 0.16
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (96 bp):
AAGTTACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCC
CTAAAGTTGCAGTGGAACAGATTAAAGCTAC
Found at i:100594816 original size:139 final size:138
Alignment explanation
Indices: 100594528--100594846 Score: 358
Period size: 139 Copynumber: 2.3 Consensus size: 138
100594518 CTACAAGTTA
* * * * * *
100594528 CAAATCTTATCTCCTTGAAGATGCAGTTG-AGAAAATTGAAGATGCGCATCTTATTTCCCTAAAG
1 CAAATCTTATCTCCCTAAAGTTGCAG-TGAAGTAGATTGAAGATGCGAATCTTATTTCCCTAAAG
* *
100594592 TTGCAGTGGAACAGAGTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTACAATGGAGCAG
65 TTACAGTGAAACAGAGTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTACAATGGAGCAG
100594657 ATTGAATAT
130 ATTGAATAT
* * * * *
100594666 GCAAATTTTATCTCCCTGAAA-TTGCAGTGAAGTAGGTTGAAGATGTGAATCTTATTTCCTTGAA
1 -CAAATCTTATCTCCCT-AAAGTTGCAGTGAAGTAGATTGAAGATGCGAATCTTATTTCCCTAAA
* * * ** *
100594730 GTTACAGTGAAATAGATTAAAGCTACAAGTTACAAATCTTATCTCCTTGAAA-TTGTAGTGGAGC
64 GTTACAGTGAAACAGAGTAAAGCTACAAGTTACAAATCTTATCTCCCT-AAAGTTACAATGGAGC
100594794 AGATTGAAGTTAT
128 AGATTGAA--TAT
* * *
100594807 -TAATCTTATCTCCCTAAAGTTGCGGTGGAGTAGATTGAAG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGAAGTAGATTGAAG
100594847 CGACGAACCC
Statistics
Matches: 150, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
138 5 0.03
139 137 0.91
140 5 0.03
141 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (138 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTGAAGTAGATTGAAGATGCGAATCTTATTTCCCTAAAGT
TACAGTGAAACAGAGTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTACAATGGAGCAGA
TTGAATAT
Found at i:100596376 original size:46 final size:46
Alignment explanation
Indices: 100596323--100596498 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
100596313 ATATTGAGCA
100596323 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
100596369 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
100596414 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
100596462 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
100596499 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:100596479 original size:93 final size:93
Alignment explanation
Indices: 100596320--100596490 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
100596310 AGGATATTGA
* *
100596320 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
100596385 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
100596413 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
100596478 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
100596491 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:100601028 original size:46 final size:46
Alignment explanation
Indices: 100600975--100601147 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
100600965 TAGTTGAGCA
*
100600975 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
100601021 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAT--ATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
100601068 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
100601114 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
100601148 GGGCGGGTTA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 62 0.57
47 29 0.27
48 4 0.04
50 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:100601131 original size:93 final size:93
Alignment explanation
Indices: 100600972--100601142 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
100600962 GGATAGTTGA
* *
100600972 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
100601037 TGAGTCCGAGTTCGTGATATGTAACTAG
66 TGAGTCCGAGTTCGTGATATGTAACTAG
* *
100601065 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
100601130 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
100601143 ACTTAGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGATATGTAACTAG
Found at i:100602556 original size:19 final size:19
Alignment explanation
Indices: 100602510--100602548 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
100602500 ACAAATAGCG
100602510 CAAAT-AAAATTACAAGTC
1 CAAATAAAAATTACAAGTC
100602528 CAAATAAAAATTACAAGTC
1 CAAATAAAAATTACAAGTC
100602547 CA
1 CA
100602549 TTACAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.56, C:0.18, G:0.05, T:0.21
Consensus pattern (19 bp):
CAAATAAAAATTACAAGTC
Found at i:100607370 original size:43 final size:43
Alignment explanation
Indices: 100607323--100607440 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 43
100607313 AGAAAAAGAC
*
100607323 CAAAAAAGGAAGCTACATGGAAGAAACCACA-AT-TGCATCCAAA
1 CAAAAAAGGAAGCAACATGGAAGAAACCACATATATG--TCCAAA
** * *
100607366 CAAAAAAGGAAGCAATGTGGAAGTAACCACATCTATGTCCAAA
1 CAAAAAAGGAAGCAACATGGAAGAAACCACATATATGTCCAAA
* * *
100607409 CAAAAAAGGAAGCAACCTAGAAGCAACCACAT
1 CAAAAAAGGAAGCAACATGGAAGAAACCACAT
100607441 TAGGACAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 61 0.95
44 1 0.02
45 2 0.03
ACGTcount: A:0.50, C:0.21, G:0.17, T:0.12
Consensus pattern (43 bp):
CAAAAAAGGAAGCAACATGGAAGAAACCACATATATGTCCAAA
Found at i:100614206 original size:5 final size:6
Alignment explanation
Indices: 100614195--100614231 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
100614185 CTAGTTTGAG
*
100614195 AAAAAT -AAAAT -AAAAT CAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
100614232 GAACACACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:100614722 original size:2 final size:2
Alignment explanation
Indices: 100614715--100614769 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
100614705 CCTCTGATAA
100614715 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100614757 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
100614770 ACATTTTATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:100615085 original size:21 final size:21
Alignment explanation
Indices: 100615059--100615099 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
100615049 AAAATTTAAA
*
100615059 AAAAATTAAAAAATTATTTTT
1 AAAAATCAAAAAATTATTTTT
**
100615080 AAAAATCATTAAATTATTTT
1 AAAAATCAAAAAATTATTTT
100615100 AAATTATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAAATCAAAAAATTATTTTT
Found at i:100620333 original size:16 final size:16
Alignment explanation
Indices: 100620308--100620339 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
100620298 TATTGTATAA
100620308 AATTTATTTTATTATT
1 AATTTATTTTATTATT
*
100620324 AATTTTTTTTATTATT
1 AATTTATTTTATTATT
100620340 TTAAAGGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
AATTTATTTTATTATT
Found at i:100620368 original size:30 final size:31
Alignment explanation
Indices: 100620322--100620382 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
100620312 TATTTTATTA
* *
100620322 TTAATTTTTTTTATTATTTTAAAGGTATTTG
1 TTAATTTTTATTATTATTCTAAAGGTATTTG
*
100620353 TTAA-TTTTATTATTATTCTAGAGGTATTTG
1 TTAATTTTTATTATTATTCTAAAGGTATTTG
100620383 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (31 bp):
TTAATTTTTATTATTATTCTAAAGGTATTTG
Found at i:100623336 original size:12 final size:12
Alignment explanation
Indices: 100623319--100623355 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
100623309 TAAGCATGTC
100623319 GTATCTGTATTT
1 GTATCTGTATTT
100623331 GTATCTGTATTCT
1 GTATCTGTATT-T
100623344 GTATCTGT-TTT
1 GTATCTGTATTT
100623355 G
1 G
100623356 GGGCGGGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 2 0.08
12 13 0.54
13 9 0.38
ACGTcount: A:0.14, C:0.11, G:0.19, T:0.57
Consensus pattern (12 bp):
GTATCTGTATTT
Found at i:100632336 original size:26 final size:26
Alignment explanation
Indices: 100632305--100632364 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
100632295 AGCGATTTCA
* *
100632305 TAGGCCGAGGTCATTTTGGGCTATTT
1 TAGGCCGAGGTCATTTTGAGCCATTT
*
100632331 TGGGCCGAGGTCATTTTGAGCCATTT
1 TAGGCCGAGGTCATTTTGAGCCATTT
100632357 TAGGCCGA
1 TAGGCCGA
100632365 ACTGAGCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (26 bp):
TAGGCCGAGGTCATTTTGAGCCATTT
Found at i:100636930 original size:21 final size:21
Alignment explanation
Indices: 100636906--100636959 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
100636896 ATTTGTCAGG
100636906 TTCTTATTTTTTTTT-CTTTTT
1 TTCTTATTTTTTTTTAC-TTTT
*
100636927 TTCTTTTTTTTTTTTACTTTT
1 TTCTTATTTTTTTTTACTTTT
*
100636948 TTCTTATATTTT
1 TTCTTATTTTTT
100636960 GTCTCTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.83
Consensus pattern (21 bp):
TTCTTATTTTTTTTTACTTTT
Found at i:100636939 original size:14 final size:15
Alignment explanation
Indices: 100636915--100636952 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
100636905 GTTCTTATTT
*
100636915 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTAC
100636930 TTTTTT-TTTTTTAC
1 TTTTTTCTTTTTTAC
100636944 TTTTTTCTT
1 TTTTTTCTT
100636953 ATATTTTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTCTTTTTTAC
Found at i:100637042 original size:18 final size:17
Alignment explanation
Indices: 100636991--100637038 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
100636981 TTTTTTAAGT
*
100636991 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
100637009 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
100637027 TTTATATTATTA
1 TTTATATTATTA
100637039 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:100637105 original size:20 final size:22
Alignment explanation
Indices: 100637054--100637111 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
100637044 AAAAAATTTG
* *
100637054 TAATATATATTTAAAATGTTTTA
1 TAATAT-TTTTTAAAATGTTTAA
100637077 TAATATTTTTTAAAAT-TTTAA
1 TAATATTTTTTAAAATGTTTAA
*
100637098 TTAT-TTTTTTAAAA
1 TAATATTTTTTAAAA
100637112 ATATTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.31
21 7 0.22
22 9 0.28
23 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATATTTTTTAAAATGTTTAA
Found at i:100637410 original size:18 final size:18
Alignment explanation
Indices: 100637382--100637423 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
100637372 GTGACTATTA
100637382 ATAAA-TTTAAATAAA-AT
1 ATAAATTTTAAA-AAATAT
100637399 ATAAATTTTAAAAAATAT
1 ATAAATTTTAAAAAATAT
100637417 ATTAAAT
1 A-TAAAT
100637424 ATTATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 8 0.36
18 9 0.41
19 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAATTTTAAAAAATAT
Found at i:100637415 original size:16 final size:17
Alignment explanation
Indices: 100637382--100637417 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
100637372 GTGACTATTA
100637382 ATAAATTTAAATAAAAT
1 ATAAATTTAAATAAAAT
*
100637399 ATAAATTTTAA-AAAAT
1 ATAAATTTAAATAAAAT
100637415 ATA
1 ATA
100637418 TTAAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAATTTAAATAAAAT
Found at i:100637650 original size:26 final size:27
Alignment explanation
Indices: 100637601--100637663 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
100637591 TTTTAAATAC
* * *
100637601 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
100637628 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
100637654 AATATTTTAA
1 AATTTTTTAA
100637664 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:100637826 original size:21 final size:21
Alignment explanation
Indices: 100637760--100637832 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
100637750 TTATTATTAA
* * *
100637760 TTTTAAATTTTGTAATGTATA
1 TTTTAAATTTTATAATATATT
*
100637781 TTTAAAATTTTTATAATATATT
1 TTTTAAA-TTTTATAATATATT
100637803 TTTTACAATTTTA-AATAT-TAT
1 TTTTA-AATTTTATAATATAT-T
100637824 TTTTAAATT
1 TTTTAAATT
100637833 CTTTTTTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.11
21 17 0.39
22 20 0.45
23 2 0.05
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTTAAATTTTATAATATATT
Found at i:100640989 original size:30 final size:30
Alignment explanation
Indices: 100640953--100641075 Score: 165
Period size: 30 Copynumber: 4.1 Consensus size: 30
100640943 GTCCCAGAGT
*
100640953 AGTTCATATAACCCAGACATAGGTGGTTCG
1 AGTTCATATAACCCGGACATAGGTGGTTCG
* *
100640983 AGTTCATATCACCCGGACATGGGTGGTTCG
1 AGTTCATATAACCCGGACATAGGTGGTTCG
* * *
100641013 AGTTCATATCACTCGGACATGGGTGGTTCG
1 AGTTCATATAACCCGGACATAGGTGGTTCG
* **
100641043 AGTTCATATAACCCGGATATAGGCAGTTCG
1 AGTTCATATAACCCGGACATAGGTGGTTCG
100641073 AGT
1 AGT
100641076 CCATTTGACC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (30 bp):
AGTTCATATAACCCGGACATAGGTGGTTCG
Found at i:100644544 original size:14 final size:13
Alignment explanation
Indices: 100644510--100644551 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
100644500 ACTTGAAATG
100644510 TATTTTTTA-AAA
1 TATTTTTTATAAA
*
100644522 -ATGTTTTATAATA
1 TATTTTTTATAA-A
100644535 TATTTTTTATAAA
1 TATTTTTTATAAA
100644548 TATT
1 TATT
100644552 AAAATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TATTTTTTATAAA
Found at i:100644581 original size:33 final size:33
Alignment explanation
Indices: 100644538--100644604 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 33
100644528 TATAATATAT
100644538 TTTTTATAAATATTAAAATTATATTTTCAA-ATTA
1 TTTTTATAAATATT-AAA-TATATTTTCAATATTA
*
100644572 TTTTT-TAAATATTAAATATATTTTTAATATTA
1 TTTTTATAAATATTAAATATATTTTCAATATTA
100644604 T
1 T
100644605 AAAACATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 10 0.32
32 8 0.26
33 8 0.26
34 5 0.16
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTTTATAAATATTAAATATATTTTCAATATTA
Found at i:100644615 original size:29 final size:28
Alignment explanation
Indices: 100644583--100644689 Score: 69
Period size: 29 Copynumber: 3.8 Consensus size: 28
100644573 TTTTTAAATA
100644583 TTAAATATATTTTTAATATTATAAAACAT
1 TTAAATATATTTTTAATATT-TAAAACAT
** *
100644612 TTAAA-ATGATTTAGAATGATTTAAAATAT
1 TTAAATAT-ATTTTTAAT-ATTTAAAACAT
** **
100644641 TT-TTTAATATTTTTAATATTTTAAATGATT
1 TTAAAT-ATATTTTTAATA-TTTAAAACA-T
100644671 TTAAATAT-TTTTTAA-ATTT
1 TTAAATATATTTTTAATATTT
100644690 TACATAGAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
27 3 0.05
28 4 0.07
29 42 0.70
30 10 0.17
31 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (28 bp):
TTAAATATATTTTTAATATTTAAAACAT
Found at i:100644629 original size:10 final size:10
Alignment explanation
Indices: 100644610--100644642 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
100644600 ATTATAAAAC
100644610 ATTTAAAATG
1 ATTTAAAATG
*
100644620 ATTTAGAATG
1 ATTTAAAATG
100644630 ATTTAAAAT-
1 ATTTAAAATG
100644639 ATTT
1 ATTT
100644643 TTTAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (10 bp):
ATTTAAAATG
Found at i:100644653 original size:9 final size:9
Alignment explanation
Indices: 100644636--100644682 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
100644626 AATGATTTAA
100644636 AATATTTTTT
1 AATA-TTTTT
100644646 AATATTTTT
1 AATATTTTT
*
100644655 AATATTTTA
1 AATATTTTT
*
100644664 AATGATTTTA
1 AAT-ATTTTT
100644674 AATATTTTT
1 AATATTTTT
100644683 TAAATTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 21 0.62
10 13 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
AATATTTTT
Found at i:100645029 original size:23 final size:23
Alignment explanation
Indices: 100644969--100645029 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
100644959 ACTGATATTT
*
100644969 CAAA-TTTTAACAAATATATATTA
1 CAAACTTTTAA-AAATATACATTA
* * *
100644992 TAGAACATTT-CAAATATACATTA
1 CA-AACTTTTAAAAATATACATTA
100645015 CAAACTTTTAAAAAT
1 CAAACTTTTAAAAAT
100645030 TAATAATAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
22 6 0.21
23 17 0.61
24 2 0.07
25 3 0.11
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
CAAACTTTTAAAAATATACATTA
Found at i:100645267 original size:9 final size:9
Alignment explanation
Indices: 100645255--100645294 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
100645245 ATGTATAATA
100645255 AAAATAAAT
1 AAAATAAAT
*
100645264 AAAATAGAT
1 AAAATAAAT
100645273 AAAAT-AAT
1 AAAATAAAT
*
100645281 AAAATAAAA
1 AAAATAAAT
100645290 AAAAT
1 AAAAT
100645295 TAGACTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (9 bp):
AAAATAAAT
Found at i:100645404 original size:37 final size:36
Alignment explanation
Indices: 100645334--100645404 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
100645324 AATAATTATT
*
100645334 TTTTTAAAATTTTAAAAAATTAATTTGAAAAATACA
1 TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
* * *
100645370 TTTTTAAAATTTATAAATAATTACTTTCACAAATA
1 TTTTTAAAATTT-TAAAAAATTAATTTCAAAAATA
100645405 TATATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 12 0.40
37 18 0.60
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (36 bp):
TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
Found at i:100645547 original size:18 final size:18
Alignment explanation
Indices: 100645497--100645548 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
100645487 AAATTTTTTA
* *
100645497 AAATTAATAATATAACTT
1 AAATAAATAATATAAATT
* *
100645515 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
100645533 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
100645549 ACTTAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:100645605 original size:9 final size:9
Alignment explanation
Indices: 100645591--100645633 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
100645581 AAAATATAAG
100645591 AAAAAAAGT
1 AAAAAAAGT
*
100645600 -AAAAAATT
1 AAAAAAAGT
*
100645608 TAAAAAAGT
1 AAAAAAAGT
100645617 AAAAAAAGT
1 AAAAAAAGT
100645626 AATAAAAA
1 AA-AAAAA
100645634 AATATAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 7 0.24
9 17 0.59
10 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:100645623 original size:18 final size:18
Alignment explanation
Indices: 100645513--100645623 Score: 59
Period size: 17 Copynumber: 5.9 Consensus size: 18
100645503 ATAATATAAC
*
100645513 TTAAATAAGTAAAATAAA-
1 TTAAAAAAGTAAAA-AAAT
*
100645531 TTAAGAAAA-TAATATAAAAC
1 TTAA-AAAAGTAA-A-AAAAT
*
100645551 TTAAAAAAG-AAAAAATT
1 TTAAAAAAGTAAAAAAAT
* *
100645568 TTAAGAAAGTGACAAAATATAA
1 TTAAAAAAGT-A-AAAA-A-AT
**
100645590 GAAAAAAAGT-AAAAAAT
1 TTAAAAAAGTAAAAAAAT
100645607 TTAAAAAAGTAAAAAAA
1 TTAAAAAAGTAAAAAAA
100645624 GTAATAAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
17 20 0.29
18 15 0.21
19 18 0.26
20 9 0.13
21 1 0.01
22 7 0.10
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (18 bp):
TTAAAAAAGTAAAAAAAT
Found at i:100645634 original size:39 final size:39
Alignment explanation
Indices: 100645553--100645635 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
100645543 TATAAAACTT
* * *
100645553 AAAAAAGAAAAAATTTTAAGAAAGTGACAAAATATAAGA
1 AAAAAAGAAAAAATTTTAAAAAAGTGACAAAAAATAAAA
*
100645592 AAAAAAGTAAAAAA-TTTAAAAAAGT-A-AAAAAAGTAATA
1 AAAAAAG-AAAAAATTTTAAAAAAGTGACAAAAAA-TAAAA
100645630 AAAAAA
1 AAAAAA
100645636 TATAAGAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
37 5 0.13
38 11 0.28
39 17 0.44
40 6 0.15
ACGTcount: A:0.72, C:0.01, G:0.10, T:0.17
Consensus pattern (39 bp):
AAAAAAGAAAAAATTTTAAAAAAGTGACAAAAAATAAAA
Found at i:100648810 original size:30 final size:29
Alignment explanation
Indices: 100648776--100648845 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
100648766 TTACTAAATG
100648776 TAAAATTATACTTTAATCCCTCTA-AAATTA
1 TAAAATTATA-TTTAAT-CCTCTACAAATTA
*
100648806 TAAAAATT-TGATTTAATCCTTTACAAATTA
1 T-AAAATTAT-ATTTAATCCTCTACAAATTA
*
100648836 TAAAAATATA
1 TAAAATTATA
100648846 AATTATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
29 11 0.32
30 16 0.47
31 7 0.21
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.40
Consensus pattern (29 bp):
TAAAATTATATTTAATCCTCTACAAATTA
Found at i:100651696 original size:35 final size:35
Alignment explanation
Indices: 100651645--100651766 Score: 190
Period size: 35 Copynumber: 3.5 Consensus size: 35
100651635 ATAAAGAAAA
*
100651645 CCATACTGAGATGTGAAACGTAGGTATGACATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGACATTTT
* * *
100651680 CCATACCGAGTGGTGAAATGTAGGTATGACATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGACATTTT
* *
100651715 TCATACTGAGTTGTGAAACGTAGGTATGATATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGACATTTT
100651750 CCATACTGAGTTGTGAA
1 CCATACTGAGTTGTGAA
100651767 TTGTGGCACC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.34
Consensus pattern (35 bp):
CCATACTGAGTTGTGAAACGTAGGTATGACATTTT
Found at i:100659364 original size:35 final size:35
Alignment explanation
Indices: 100659252--100659373 Score: 147
Period size: 35 Copynumber: 3.5 Consensus size: 35
100659242 ATAAAGAAAA
* *
100659252 CCATACTGTGATGTGAAACGTAGGTAT-GTCATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGGT-ATTTT
* * * *
100659287 CCGTACCGAGTGGTGAAATGTAGGTATGGTATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
*
100659322 TCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
* *
100659357 CCTTACTGAATTGTGAA
1 CCATACTGAGTTGTGAA
100659374 TTGTGGCACT
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
35 70 0.97
36 2 0.03
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.37
Consensus pattern (35 bp):
CCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
Found at i:100669495 original size:18 final size:18
Alignment explanation
Indices: 100669434--100669515 Score: 83
Period size: 18 Copynumber: 4.6 Consensus size: 18
100669424 TAACATTCAA
* *
100669434 TTATTTAGTAGCAATTAG
1 TTATTCAGTAGCAATCAG
* *
100669452 TTATTCAATAGCAATCAT
1 TTATTCAGTAGCAATCAG
**
100669470 TTGCTCAGTAGCAATCAG
1 TTATTCAGTAGCAATCAG
* * *
100669488 TTATTCAGTAACGATCAA
1 TTATTCAGTAGCAATCAG
100669506 TTATTCAGTA
1 TTATTCAGTA
100669516 ATAGTCAGTC
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAGCAATCAG
Found at i:100669514 original size:36 final size:35
Alignment explanation
Indices: 100669422--100669515 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 35
100669412 AGTTTCATTT
* *
100669422 AGTAACATTCAATTATTTAGTAGCAATTAGTTATTC
1 AGTAACA-TCAATTATTCAGTAGCAATCAGTTATTC
* * * **
100669458 AATAGCAATCATTTGCTCAGTAGCAATCAGTTATTC
1 AGTAAC-ATCAATTATTCAGTAGCAATCAGTTATTC
100669494 AGTAACGATCAATTATTCAGTA
1 AGTAAC-ATCAATTATTCAGTA
100669516 ATAGTCAGTC
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 43 0.98
37 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (35 bp):
AGTAACATCAATTATTCAGTAGCAATCAGTTATTC
Found at i:100671235 original size:26 final size:26
Alignment explanation
Indices: 100671206--100671258 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
100671196 TCAAACATGC
100671206 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
100671232 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
100671258 A
1 A
100671259 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:100671308 original size:28 final size:27
Alignment explanation
Indices: 100671267--100671319 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
100671257 TAAAACTGTA
100671267 AATTTTCTACTTTTAAAGGTTTTTCAGT
1 AATTTTCTACTTTTAAA-GTTTTTCAGT
*
100671295 AATTTATCTA-TTTTAGAGTTTTTCA
1 AATTT-TCTACTTTTAAAGTTTTTCA
100671320 TGCATATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 11 0.48
29 4 0.17
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.55
Consensus pattern (27 bp):
AATTTTCTACTTTTAAAGTTTTTCAGT
Found at i:100672781 original size:26 final size:26
Alignment explanation
Indices: 100672745--100672854 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
100672735 CATGAAATTC
100672745 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
100672771 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100672797 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
100672823 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100672849 TTATCA
1 TTATCA
100672855 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100674092 original size:28 final size:30
Alignment explanation
Indices: 100674055--100674122 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 30
100674045 ATTATTTAAT
100674055 TAATAAATATCT-TTTACTT-AATAATAAA-
1 TAATAAATATCTATTTACTTAAATAA-AAAG
100674083 TAATAAATATCTATTTACTTAAATAAAAAG
1 TAATAAATATCTATTTACTTAAATAAAAAG
100674113 TAATTAAATA
1 TAA-TAAATA
100674123 AATATATCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
28 12 0.33
29 10 0.28
30 8 0.22
31 6 0.17
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAATAAAAAG
Found at i:100674829 original size:17 final size:17
Alignment explanation
Indices: 100674807--100674843 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
100674797 ATTCTGTTGA
100674807 AGAGTATAACGACAAGT
1 AGAGTATAACGACAAGT
100674824 AGAGTATAACGACAAGT
1 AGAGTATAACGACAAGT
100674841 AGA
1 AGA
100674844 CTGATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.24, T:0.16
Consensus pattern (17 bp):
AGAGTATAACGACAAGT
Found at i:100675915 original size:17 final size:18
Alignment explanation
Indices: 100675893--100675932 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
100675883 ACTTATGTGT
100675893 ATATAAA-AATTAATAAA
1 ATATAAATAATTAATAAA
* *
100675910 ATATAAATGATTATTAAA
1 ATATAAATAATTAATAAA
100675928 ATATA
1 ATATA
100675933 TATTATGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
ATATAAATAATTAATAAA
Found at i:100676143 original size:26 final size:28
Alignment explanation
Indices: 100676105--100676162 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
100676095 ATAAACAAGT
*
100676105 TATACATAAAT-AA-ATTTAAAAGAATA
1 TATACATAAATAAAGATTTAAAAGAAAA
* *
100676131 TATATATATATAAAGATTTAAAAGAAAA
1 TATACATAAATAAAGATTTAAAAGAAAA
100676159 TATA
1 TATA
100676163 GAATAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
27 2 0.07
28 16 0.59
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (28 bp):
TATACATAAATAAAGATTTAAAAGAAAA
Found at i:100677771 original size:21 final size:20
Alignment explanation
Indices: 100677730--100677777 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
100677720 TGGACACTTA
100677730 TTATTTT-TATTTTTGTTATT
1 TTATTTTGT-TTTTTGTTATT
* *
100677750 TTGTTTTGTTTTTTTTTAATT
1 TTATTTTGTTTTTTGTT-ATT
100677771 TTATTTT
1 TTATTTT
100677778 TGGTATGGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (20 bp):
TTATTTTGTTTTTTGTTATT
Found at i:100689670 original size:12 final size:12
Alignment explanation
Indices: 100689653--100689693 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
100689643 AGGAGATATT
100689653 TGATATGTTATA
1 TGATATGTTATA
* *
100689665 TGATATG--CTC
1 TGATATGTTATA
100689675 TGATATGTTATA
1 TGATATGTTATA
100689687 TGATATG
1 TGATATG
100689694 ATTCTGATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
10 8 0.35
12 15 0.65
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.46
Consensus pattern (12 bp):
TGATATGTTATA
Found at i:100689679 original size:22 final size:23
Alignment explanation
Indices: 100689653--100689738 Score: 86
Period size: 22 Copynumber: 3.8 Consensus size: 23
100689643 AGGAGATATT
100689653 TGATATGTTATATGATATG-CTC
1 TGATATGTTATATGATATGACTC
*
100689675 TGATATGTTATATGATATGATTC
1 TGATATGTTATATGATATGACTC
* * * * *
100689698 TGATA-GTGAAATAATATGATTT
1 TGATATGTTATATGATATGACTC
* *
100689720 TGATATGCTACATGATATG
1 TGATATGTTATATGATATG
100689739 GGAAATTCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
22 37 0.70
23 16 0.30
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.43
Consensus pattern (23 bp):
TGATATGTTATATGATATGACTC
Found at i:100693487 original size:3 final size:3
Alignment explanation
Indices: 100693469--100693519 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
100693459 TTCACTTTTA
*
100693469 ATT ATT A-T ATT A-T ATT ATT ATT A-T ATT -TT AGTA ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
100693511 ATT ATT ATT
1 ATT ATT ATT
100693520 TACTTATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 8 0.20
3 31 0.76
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:100695274 original size:13 final size:13
Alignment explanation
Indices: 100695256--100695283 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100695246 GACCATGCTT
100695256 TCCTTAAGGTACC
1 TCCTTAAGGTACC
100695269 TCCTTAAGGTACC
1 TCCTTAAGGTACC
100695282 TC
1 TC
100695284 GTTACAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.32
Consensus pattern (13 bp):
TCCTTAAGGTACC
Found at i:100696743 original size:13 final size:13
Alignment explanation
Indices: 100696725--100696752 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100696715 GACCATGTTT
100696725 TCCTTAAGGTACC
1 TCCTTAAGGTACC
100696738 TCCTTAAGGTACC
1 TCCTTAAGGTACC
100696751 TC
1 TC
100696753 GTTACAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.32
Consensus pattern (13 bp):
TCCTTAAGGTACC
Found at i:100698212 original size:13 final size:13
Alignment explanation
Indices: 100698194--100698221 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100698184 GACCATGCTT
100698194 TCCTTAAGGTACC
1 TCCTTAAGGTACC
100698207 TCCTTAAGGTACC
1 TCCTTAAGGTACC
100698220 TC
1 TC
100698222 GTTACAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.32
Consensus pattern (13 bp):
TCCTTAAGGTACC
Found at i:100699674 original size:13 final size:13
Alignment explanation
Indices: 100699656--100699682 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100699646 GACCATGCTT
100699656 TCCTTAAGGTACC
1 TCCTTAAGGTACC
100699669 TCCTTAAGGTACC
1 TCCTTAAGGTACC
100699682 T
1 T
100699683 TGTTACAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (13 bp):
TCCTTAAGGTACC
Found at i:100703246 original size:23 final size:22
Alignment explanation
Indices: 100703162--100703247 Score: 75
Period size: 23 Copynumber: 3.8 Consensus size: 22
100703152 GGATATATAT
* * *
100703162 GATATGTTATATGATATGCTCC
1 GATATGCTATATGATATGATTC
*
100703184 GATATGCTATATGATACGATTC
1 GATATGCTATATGATATGATTC
* **
100703206 TGATATG-TGAAACAATATGATTTC
1 -GATATGCT-ATATGATATGA-TTC
100703230 GATATGCTATATGATATG
1 GATATGCTATATGATATG
100703248 GGAAATTCTA
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
22 19 0.39
23 26 0.53
24 4 0.08
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (22 bp):
GATATGCTATATGATATGATTC
Found at i:100714029 original size:29 final size:29
Alignment explanation
Indices: 100713986--100714041 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
100713976 TTAAAAAATA
100713986 ATTAAAATAATATTTTTA-TAAAATAAAC
1 ATTAAAATAATATTTTTAGTAAAATAAAC
* *
100714014 ATTAAAATATTTATTTTTAGTATAATAA
1 ATTAAAATA-ATATTTTTAGTAAAATAA
100714042 TTTAATTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 8 0.33
30 7 0.29
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
ATTAAAATAATATTTTTAGTAAAATAAAC
Found at i:100714046 original size:28 final size:25
Alignment explanation
Indices: 100713980--100714043 Score: 65
Period size: 28 Copynumber: 2.4 Consensus size: 25
100713970 ATTTAATTAA
100713980 AAAATAATTAAAATAATATTTTTAT
1 AAAATAATTAAAATAATATTTTTAT
*
100714005 AAAATAAACATTAAAATATTTATTTTTAGT
1 AAAAT--A-ATTAAAATA-ATATTTTTA-T
*
100714035 ATAATAATT
1 AAAATAATT
100714044 TAATTGGTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
25 5 0.16
27 4 0.12
28 10 0.31
29 8 0.25
30 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
AAAATAATTAAAATAATATTTTTAT
Found at i:100714320 original size:18 final size:17
Alignment explanation
Indices: 100714271--100714322 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
100714261 ATTTTTAAAA
*
100714271 ATTATAAATTATTAGAATT
1 ATTAAAAATTA-TA-AATT
*
100714290 ATTAAAAAGTATAAATT
1 ATTAAAAATTATAAATT
*
100714307 ATTTTAAAATTATAAA
1 A-TTAAAAATTATAAA
100714323 AGTTGTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 5 0.18
18 14 0.50
19 9 0.32
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (17 bp):
ATTAAAAATTATAAATT
Found at i:100714325 original size:26 final size:26
Alignment explanation
Indices: 100714265--100714323 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
100714255 ATAATTATTT
* *
100714265 TTAAAAATTATAAATTATTAGAATTA
1 TTAAAAAGTATAAATTATTAAAATTA
100714291 TTAAAAAGTATAAATTATTTTAAAATTA
1 TTAAAAAGTATAAATTA--TTAAAATTA
100714319 -TAAAA
1 TTAAAA
100714324 GTTGTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 16 0.55
27 5 0.17
28 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
TTAAAAAGTATAAATTATTAAAATTA
Found at i:100716612 original size:70 final size:70
Alignment explanation
Indices: 100716499--100716639 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
100716489 CAAGCTGGGG
100716499 ATAAGCGGTGGTTTAAAGGAGCTAGAAAGTTTGTGGAGAGTGCTGCAAATTCCTTCAGTGTTGCT
1 ATAAGCGGTGGTTTAAAGGAGCTAGAAAGTTTGTGGAGAGTGCTGCAAATTCCTTCAGTGTTGCT
100716564 TAGTT
66 TAGTT
100716569 ATAAGCGGTGGTTTAAAGGAGCTAGAAAGTTTGTGGAGAGTGCTGCAAATTCCTTCAGTGTTGCT
1 ATAAGCGGTGGTTTAAAGGAGCTAGAAAGTTTGTGGAGAGTGCTGCAAATTCCTTCAGTGTTGCT
100716634 TAGTT
66 TAGTT
100716639 A
1 A
100716640 AAAGTCTTAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.33
Consensus pattern (70 bp):
ATAAGCGGTGGTTTAAAGGAGCTAGAAAGTTTGTGGAGAGTGCTGCAAATTCCTTCAGTGTTGCT
TAGTT
Found at i:100716763 original size:6 final size:6
Alignment explanation
Indices: 100716747--100716777 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
100716737 CCTCCAAAGC
100716747 TTCTGGT TTCTGT TTCTGT TTCTGT TTCTGT
1 TTCT-GT TTCTGT TTCTGT TTCTGT TTCTGT
100716778 CTAGTCGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.00, C:0.16, G:0.19, T:0.65
Consensus pattern (6 bp):
TTCTGT
Found at i:100725532 original size:4 final size:4
Alignment explanation
Indices: 100725523--100725555 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
100725513 ACATGTTAAA
*
100725523 TAGT TAGT TAGT TAGT TAGT TAGT TAGT GAGT T
1 TAGT TAGT TAGT TAGT TAGT TAGT TAGT TAGT T
100725556 GTCATGCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (4 bp):
TAGT
Found at i:100735214 original size:19 final size:19
Alignment explanation
Indices: 100735177--100735217 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
100735167 GCATAACATT
* **
100735177 TTAAAATTTAAAACTAAAA
1 TTAAAATTAAAAAAAAAAA
100735196 TTAAAATTAAAAAAAAAAA
1 TTAAAATTAAAAAAAAAAA
100735215 TTA
1 TTA
100735218 GACATTAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
TTAAAATTAAAAAAAAAAA
Found at i:100735658 original size:13 final size:13
Alignment explanation
Indices: 100735640--100735664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100735630 ATCAAGGATT
100735640 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
100735653 GAAAAAGAAAAA
1 GAAAAAGAAAAA
100735665 CTAATATTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:100742748 original size:60 final size:60
Alignment explanation
Indices: 100742684--100742815 Score: 165
Period size: 61 Copynumber: 2.2 Consensus size: 60
100742674 TGGTTCCAAA
* * ** * * *
100742684 TCTAAAAATTCAACAAATTTAGCTCTTAATGTTTACAAAACTTGTCATTTTAGTTCTGAT
1 TCTAAAAATTCAACAAATTTAGCCCTCAACATTTACAAAACTTGTCAATCTAGTTCTAAT
* * *
100742744 TCTAAAAAATTCAATATATTTAGCCCTCAACATTTACAAAATTTGTCAATCTAGTTCTAAT
1 TCT-AAAAATTCAACAAATTTAGCCCTCAACATTTACAAAACTTGTCAATCTAGTTCTAAT
100742805 TCTAAAAATTC
1 TCTAAAAATTC
100742816 CAAATTAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
60 11 0.18
61 50 0.82
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (60 bp):
TCTAAAAATTCAACAAATTTAGCCCTCAACATTTACAAAACTTGTCAATCTAGTTCTAAT
Found at i:100744405 original size:91 final size:92
Alignment explanation
Indices: 100744250--100744522 Score: 386
Period size: 91 Copynumber: 3.0 Consensus size: 92
100744240 TTATCTTCGA
* * * * *
100744250 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTT
*
100744315 TCAACCATGGTCTTATTCATTTCCTGT
66 TCAACCATGGTCTTATTCATTTCATGT
* *
100744342 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTT
* *
100744406 TCAACCATGGTTTTATTCTTTTCATGT
66 TCAACCATGGTCTTATTCATTTCATGT
* * * * *
100744433 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGTCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTT
**
100744498 TCAACCATGGTCTTACACATTTCAT
66 TCAACCATGGTCTTATTCATTTCAT
100744523 TTCAGAAAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
91 83 0.52
92 76 0.48
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (92 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATTCATTTCATGT
Found at i:100744482 original size:137 final size:137
Alignment explanation
Indices: 100744250--100744512 Score: 402
Period size: 137 Copynumber: 1.9 Consensus size: 137
100744240 TTATCTTCGA
* * *
100744250 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACGTTGCCATGGTATCTT
** * *
100744315 TCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
100744380 TTCCCGT
131 TTCCCGT
* * * *
100744387 CATGTTGCCATGGTATCTTTCAACCATGGTTTTATTC-TTTTCATGTCACGTTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCACGTTGCCATGGTATCT
*
100744451 TTCAACCATGGTCTTACACATTTCATATCATGTTGTCATGGTATCTTTCAACCATGGTCTTA
65 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
100744513 CACATTTCAT
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
136 5 0.04
137 108 0.96
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (137 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACGTTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA
TTCCCGT
Found at i:100744520 original size:21 final size:21
Alignment explanation
Indices: 100744450--100744521 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
100744440 CCATGGTATC
100744450 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* *
100744471 TTTCATATCATGTTGTCATGGTA-TC-
1 TTTCA-ACCATG--GTC-T--TACACA
100744496 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
100744517 TTTCA
1 TTTCA
100744522 TTTCAGAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 11 0.28
22 8 0.21
24 8 0.21
25 6 0.15
26 1 0.03
27 2 0.05
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:100744520 original size:46 final size:46
Alignment explanation
Indices: 100744250--100744522 Score: 370
Period size: 46 Copynumber: 6.0 Consensus size: 46
100744240 TTATCTTCGA
* * * *
100744250 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
100744296 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* **
100744342 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
100744387 CATGTTGCCATGGTATCTTTCAACCATGGTTTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
100744433 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
100744479 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
100744523 TTCAGAAAGC
Statistics
Matches: 207, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 46 0.22
46 161 0.78
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:100746590 original size:11 final size:11
Alignment explanation
Indices: 100746574--100746621 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
100746564 CTTTATATAC
100746574 TAATAAAATAA
1 TAATAAAATAA
*
100746585 TAATAAAATATCT
1 TAATAAAATA--A
* *
100746598 TATTAAAATAT
1 TAATAAAATAA
100746609 TAATAAAATAA
1 TAATAAAATAA
100746620 TA
1 TA
100746622 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:100749456 original size:48 final size:48
Alignment explanation
Indices: 100749343--100749560 Score: 252
Period size: 48 Copynumber: 4.6 Consensus size: 48
100749333 GGTATGATGT
* * * * *
100749343 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGT--
1 CGATGCCATGTCCCAGACATAGTCTTACACTAACACATCTAT-ACGTGC
* * *
100749390 CGATGCTATGTCCCAGACATAGTCTTACACTAACACCTCTATATGTGC
1 CGATGCCATGTCCCAGACATAGTCTTACACTAACACATCTATACGTGC
*
100749438 CGATGCCATGTCCCAGACATAGTCTTACACTAACACCTCTATACGTGC
1 CGATGCCATGTCCCAGACATAGTCTTACACTAACACATCTATACGTGC
* * *
100749486 CGATGCCATGTCCCAGACATGGTATTACACTGACACATC--T-CGTAGC
1 CGATGCCATGTCCCAGACATAGTCTTACACTAACACATCTATACGT-GC
*
100749532 CGATG-CATGTCCCAGGCAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATAGTCTTACACT
100749561 GGCTTACATC
Statistics
Matches: 153, Mismatches: 15, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
44 9 0.06
45 16 0.10
46 11 0.07
47 36 0.24
48 81 0.53
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATAGTCTTACACTAACACATCTATACGTGC
Found at i:100749570 original size:46 final size:46
Alignment explanation
Indices: 100749343--100749699 Score: 173
Period size: 48 Copynumber: 7.6 Consensus size: 46
100749333 GGTATGATGT
* * *
100749343 CGATGCCATGTCCCAGACATGGTCTTACACTAGC-T-CATCCATC-AAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-C-TCGAGGC
** * **
100749390 CGATGCTATGTCCCAGACATAGTCTTACACTAAC--ACCTCTATATGTGC
1 CGATGC-ATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGA-G-GC
** * **
100749438 CGATGCCATGTCCCAGACATAGTCTTACACTAAC--ACCTCTATACGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGA-G-GC
* *
100749486 CGATGCCATGTCCCAGACATGGTATTACACTGAC--ACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGC
*
100749532 CGATGCATGTCCCAGGCATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
** * * *** * *
100749578 TAATGCATGTCTCAGACATGTCTTACACTAGCTTTTGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
* * * * *
100749624 TGATGTGATGTCCCAGACATGGTCTTACACCGGCTCT-CATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGC
*
100749672 TGATGCATGT-CCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
100749700 AGCGCACAAA
Statistics
Matches: 257, Mismatches: 39, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
44 11 0.04
45 24 0.09
46 68 0.26
47 48 0.19
48 102 0.40
49 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
Found at i:100758685 original size:22 final size:22
Alignment explanation
Indices: 100758642--100758685 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
100758632 ATTTCCAAAT
* *
100758642 GAAATCTCATTCCTATTTATAG
1 GAAATCTCATGCCTATTCATAG
* *
100758664 GAAATTTCATGCCTCTTCATAG
1 GAAATCTCATGCCTATTCATAG
100758686 AGACTTCTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (22 bp):
GAAATCTCATGCCTATTCATAG
Found at i:100760678 original size:42 final size:42
Alignment explanation
Indices: 100760621--100760702 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
100760611 TATGATTTGT
* *
100760621 AGATTTTGTTATTTTTATTCTTAAAATCAAATTATGCTTAGA
1 AGATTATGTTATTTTTATTCTTAAAATCAAAATATGCTTAGA
* *
100760663 AGATTATGTTGTTTTTATTTTTAAAATCAAAATATGCTTA
1 AGATTATGTTATTTTTATTCTTAAAATCAAAATATGCTTA
100760703 TAGTTCCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (42 bp):
AGATTATGTTATTTTTATTCTTAAAATCAAAATATGCTTAGA
Found at i:100762814 original size:18 final size:18
Alignment explanation
Indices: 100762791--100762828 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
100762781 ATAATTGATA
*
100762791 TATTTT-AATTATGCTTAT
1 TATTTTGAATAATGC-TAT
100762809 TATTTTGAATAATGCTAT
1 TATTTTGAATAATGCTAT
100762827 TA
1 TA
100762829 CACAGAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (18 bp):
TATTTTGAATAATGCTAT
Found at i:100763359 original size:21 final size:20
Alignment explanation
Indices: 100763335--100763373 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
100763325 AAAGAATTAC
*
100763335 TTATAATTATATTTTTAAAAT
1 TTATAA-TAAATTTTTAAAAT
*
100763356 TTATGATAAATTTTTAAA
1 TTATAATAAATTTTTAAA
100763374 GTCAGAACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TTATAATAAATTTTTAAAAT
Found at i:100764303 original size:46 final size:46
Alignment explanation
Indices: 100764234--100764493 Score: 189
Period size: 46 Copynumber: 5.6 Consensus size: 46
100764224 CCCATAAGCA
* * *
100764234 AACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCACAAGTG
1 AACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCACAAGTG
* *
100764280 AACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT-CTC---TCG
1 AACTCGGACTCAACTCAACGAGCTC-G--GAC--GTTCACATCCACAAGT-G
* * * * *
100764327 AACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCACAAGTG
*
100764373 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-CTC---TCG
1 AACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCACATCCACAAGT-G
* * * *
100764420 AACTTGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCACAAGTG
* *
100764466 AACTCGGACTCAACTTAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGCTCGGA
100764494 TGCCCAAATA
Statistics
Matches: 168, Mismatches: 24, Indels: 44
0.71 0.10 0.19
Matches are distributed among these distances:
42 4 0.02
43 7 0.04
44 5 0.03
46 81 0.48
47 54 0.32
49 6 0.04
50 6 0.04
51 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCACAAGTG
Found at i:100764361 original size:93 final size:93
Alignment explanation
Indices: 100764234--100764497 Score: 438
Period size: 93 Copynumber: 2.8 Consensus size: 93
100764224 CCCATAAGCA
* * * *
100764234 AACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
100764299 GAGCTCAGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
100764327 AACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
100764392 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
* * * *
100764420 AACTTGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTTAAC
1 AACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
100764485 GAGTTCGGATGCC
66 GAGCTCGGATGCC
100764498 CAAATATCCT
Statistics
Matches: 161, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 161 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCG
Found at i:100764447 original size:47 final size:47
Alignment explanation
Indices: 100764279--100764447 Score: 193
Period size: 47 Copynumber: 3.6 Consensus size: 47
100764269 ATCCACAAGT
*
100764279 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * ***
100764326 GAACTCGGACTCAACTCAATGAGTTCGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCTC
100764372 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* *
100764419 GAACTTGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
100764448 CATTCACATC
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 31 0.32
47 57 0.58
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:100766448 original size:29 final size:29
Alignment explanation
Indices: 100766404--100766490 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
100766394 CAAAGATAAC
100766404 AAGAAAACC-GAATAAAGAAATCCAAGAT
1 AAGAAAACCAGAATAAAGAAATCCAAGAT
*
100766432 AAGAAACCCAGAATAAAGAAATCC-AGAAT
1 AAGAAAACCAGAATAAAGAAATCCAAG-AT
* * * *
100766461 AAAGAGATCCAGGATAAAG-AACCCAAGAT
1 -AAGAAAACCAGAATAAAGAAATCCAAGAT
100766490 A
1 A
100766491 TATACTATGC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 11 0.22
29 22 0.44
30 17 0.34
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.10
Consensus pattern (29 bp):
AAGAAAACCAGAATAAAGAAATCCAAGAT
Found at i:100766450 original size:15 final size:15
Alignment explanation
Indices: 100766404--100766481 Score: 90
Period size: 15 Copynumber: 5.3 Consensus size: 15
100766394 CAAAGATAAC
*
100766404 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
100766418 AAGAAATCCA-AGAT-
1 AAGAAATCCAGA-ATA
*
100766432 AAGAAACCCAGAATA
1 AAGAAATCCAGAATA
100766447 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
100766462 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
100766477 AAGAA
1 AAGAA
100766482 CCCAAGATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
14 20 0.37
15 34 0.63
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:100769563 original size:47 final size:47
Alignment explanation
Indices: 100769499--100769667 Score: 202
Period size: 47 Copynumber: 3.6 Consensus size: 47
100769489 ATCCACAAGT
100769499 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * ***
100769546 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCTC
100769592 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
100769639 AAACTCGGACTCAACTCTACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
100769668 CATTCACATC
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 32 0.32
47 58 0.58
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:100769581 original size:93 final size:93
Alignment explanation
Indices: 100769452--100769717 Score: 442
Period size: 93 Copynumber: 2.9 Consensus size: 93
100769442 CGCCCATAAG
* * * * *
100769452 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
100769517 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
100769545 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
100769610 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
100769638 CAAACTCGGACTCAACTCTACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
100769703 ACGAGTTTGGATGCC
66 ACGAGCTCGGATGCC
100769718 CAATTATCCT
Statistics
Matches: 163, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 163 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:100769709 original size:46 final size:46
Alignment explanation
Indices: 100769445--100769707 Score: 240
Period size: 46 Copynumber: 5.7 Consensus size: 46
100769435 TGTAACCCGC
* * * * *
100769445 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
100769491 CCACAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACAT
* * *
100769541 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
100769584 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACAT
* * *
100769634 CTC-TCA---AACTCGGACTCAACTCTACGAGTTCGGACATTCACAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
100769677 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
100769708 TTTGGATGCC
Statistics
Matches: 177, Mismatches: 18, Indels: 44
0.74 0.08 0.18
Matches are distributed among these distances:
42 6 0.03
43 14 0.08
44 2 0.01
46 82 0.46
47 54 0.31
49 2 0.01
50 11 0.06
51 6 0.03
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:100769732 original size:46 final size:48
Alignment explanation
Indices: 100769495--100769732 Score: 170
Period size: 46 Copynumber: 5.1 Consensus size: 48
100769485 TCGCATCCAC
* * *
100769495 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT-CATC-CT
*
100769545 ---CGAACTCGGACTCAACTCAACGAGTTCGGA----C-ATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT--CATCC-T
* * *
100769588 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT-CATC-CT
* *
100769638 CA---AACTCGGACTCAACTCTACGAGTTCGGA----C-ATTCACATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT--CATCC-T
*
100769681 AAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCCAATT-ATCCT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTCATCCT
100769728 -AGTGA
1 AAGTGA
100769733 CATGTCACTT
Statistics
Matches: 149, Mismatches: 18, Indels: 46
0.70 0.08 0.22
Matches are distributed among these distances:
42 6 0.04
43 12 0.08
46 59 0.40
47 55 0.37
48 4 0.03
50 7 0.05
51 6 0.04
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (48 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTCATCCT
Found at i:100770697 original size:14 final size:14
Alignment explanation
Indices: 100770680--100770710 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
100770670 TGGATAGTCA
100770680 TTATTTTATTTGTT
1 TTATTTTATTTGTT
*
100770694 TTATTTTTTTTGTT
1 TTATTTTATTTGTT
100770708 TTA
1 TTA
100770711 GTTAATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (14 bp):
TTATTTTATTTGTT
Found at i:100771396 original size:20 final size:19
Alignment explanation
Indices: 100771373--100771445 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
100771363 TGTTTTGGAA
100771373 CACACGGTCGTGTCTGATAG
1 CACACGG-CGTGTCTGATAG
** ***
100771393 CACACTGGCGTGTGAGACCT
1 CACAC-GGCGTGTCTGATAG
*
100771413 CACACGGCCGTGTCTGATGG
1 CACACGG-CGTGTCTGATAG
100771433 CACACTGGCGTGT
1 CACAC-GGCGTGT
100771446 GAGACCCTCA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.05
20 34 0.85
21 4 0.10
ACGTcount: A:0.18, C:0.29, G:0.32, T:0.22
Consensus pattern (19 bp):
CACACGGCGTGTCTGATAG
Found at i:100771417 original size:40 final size:41
Alignment explanation
Indices: 100771373--100771462 Score: 155
Period size: 40 Copynumber: 2.2 Consensus size: 41
100771363 TGTTTTGGAA
100771373 CACACGGTCGTGTCTGATAGCACACTGGCGTGTGAGA-CCT
1 CACACGGTCGTGTCTGATAGCACACTGGCGTGTGAGACCCT
* *
100771413 CACACGGCCGTGTCTGATGGCACACTGGCGTGTGAGACCCT
1 CACACGGTCGTGTCTGATAGCACACTGGCGTGTGAGACCCT
100771454 CACACGGTC
1 CACACGGTC
100771463 ATGTTTGCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 35 0.76
41 11 0.24
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.20
Consensus pattern (41 bp):
CACACGGTCGTGTCTGATAGCACACTGGCGTGTGAGACCCT
Found at i:100773480 original size:51 final size:51
Alignment explanation
Indices: 100773399--100773501 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
100773389 AAAAACTACT
* *
100773399 TCTACAACATATAGAATATAAAACTATCGTATAAAAGATAAAGTCATAAAA
1 TCTAAAACATATAAAATATAAAACTATCGTATAAAAGATAAAGTCATAAAA
*
100773450 TCTAAAACATATAAAATTTAAAACTATCGTATAAAAGATAAAGTCATAAAA
1 TCTAAAACATATAAAATATAAAACTATCGTATAAAAGATAAAGTCATAAAA
100773501 T
1 T
100773502 TCATACTAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (51 bp):
TCTAAAACATATAAAATATAAAACTATCGTATAAAAGATAAAGTCATAAAA
Found at i:100773699 original size:5 final size:5
Alignment explanation
Indices: 100773689--100773720 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
100773679 ACCTCTGTGA
100773689 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
100773721 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:100773714 original size:9 final size:9
Alignment explanation
Indices: 100773690--100773720 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
100773680 CCTCTGTGAA
100773690 AAATAAAAT
1 AAATAAAAT
100773699 AAAATAAAAT
1 -AAATAAAAT
100773709 AAATAAAAT
1 AAATAAAAT
100773718 AAA
1 AAA
100773721 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:100775954 original size:9 final size:9
Alignment explanation
Indices: 100775934--100775963 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
100775924 CAATTTGTGA
100775934 AAAATAAAAT
1 AAAAT-AAAT
100775944 AAAATAAAT
1 AAAATAAAT
100775953 AAAATAAAT
1 AAAATAAAT
100775962 AA
1 AA
100775964 CATACAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAATAAAT
Found at i:100782251 original size:24 final size:24
Alignment explanation
Indices: 100782207--100782266 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
100782197 AGTAAAATTT
*
100782207 TATTTGTAATAAAATAGGTTAGCTG
1 TATTTGT-ATAAAATAGGTTAACTG
*
100782232 TATTTGTATAAATTTA-GTTAACTG
1 TATTTGTATAAA-ATAGGTTAACTG
100782256 TATTTGTATAA
1 TATTTGTATAA
100782267 GTTACTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 23 0.72
25 9 0.28
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (24 bp):
TATTTGTATAAAATAGGTTAACTG
Found at i:100783477 original size:15 final size:15
Alignment explanation
Indices: 100783459--100783491 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
100783449 AATAACTATG
100783459 TTCAAA-ATTATGAAT
1 TTCAAATATTAT-AAT
100783474 TTCAAATATTATAAT
1 TTCAAATATTATAAT
100783489 TTC
1 TTC
100783492 TAAACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (15 bp):
TTCAAATATTATAAT
Found at i:100785739 original size:26 final size:27
Alignment explanation
Indices: 100785706--100785756 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
100785696 AATGTAAGTA
*
100785706 AATAACAA-AA-AGGAAATATATAATGT
1 AATAACAATAATAGAAAATA-ATAATGT
100785732 AATAACAATAATAGAAAATAATAAT
1 AATAACAATAATAGAAAATAATAAT
100785757 AATAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 7 0.32
28 7 0.32
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.24
Consensus pattern (27 bp):
AATAACAATAATAGAAAATAATAATGT
Found at i:100785754 original size:3 final size:3
Alignment explanation
Indices: 100785731--100785804 Score: 51
Period size: 3 Copynumber: 24.0 Consensus size: 3
100785721 ATATATAATG
* * * **
100785731 TAA TAA CAA TAA TAGA AAA TAA TAA TAA TAA TAAA TAA TAG GGA TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* *
100785778 TAG TAA -ACA AAA TAA TAA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA
100785805 AAGACAAACA
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 1 0.02
3 47 0.87
4 6 0.11
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:100785757 original size:16 final size:16
Alignment explanation
Indices: 100785732--100785804 Score: 62
Period size: 16 Copynumber: 4.5 Consensus size: 16
100785722 TATATAATGT
*
100785732 AATAACAATAATAGA-A
1 AATAATAATAATA-ATA
100785748 AATAATAATAATAATA
1 AATAATAATAATAATA
*
100785764 AATAATAGGGATAATAGTA
1 AATAATA---ATAATAATA
*
100785783 AACAA-AATAATAAT-
1 AATAATAATAATAATA
100785797 AATAATAA
1 AATAATAA
100785805 AAGACAAACA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
14 4 0.09
15 10 0.21
16 20 0.43
18 1 0.02
19 12 0.26
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.25
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:100790779 original size:31 final size:31
Alignment explanation
Indices: 100790741--100790804 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
100790731 TTGACCACTA
100790741 TTGAGTAACATGGTAGCCTTTGGGATCGCAC
1 TTGAGTAACATGGTAGCCTTTGGGATCGCAC
100790772 TTGAGTAACATGGTAGCCTTTGGGATCGCAC
1 TTGAGTAACATGGTAGCCTTTGGGATCGCAC
100790803 TT
1 TT
100790805 ACCATAGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (31 bp):
TTGAGTAACATGGTAGCCTTTGGGATCGCAC
Found at i:100793783 original size:23 final size:26
Alignment explanation
Indices: 100793757--100793811 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
100793747 ATTTAAATGA
100793757 AATAT-TATACAA-AA-TTTTAAAAC
1 AATATATATACAAGAAGTTTTAAAAC
100793780 AATATGATATACAAGAATGTTTTAAAAC
1 AATAT-ATATACAAGAA-GTTTTAAAAC
100793808 AATA
1 AATA
100793812 ATGATATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 5 0.19
25 7 0.26
26 2 0.07
28 13 0.48
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (26 bp):
AATATATATACAAGAAGTTTTAAAAC
Found at i:100794574 original size:13 final size:13
Alignment explanation
Indices: 100794556--100794582 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100794546 CATGCGAAAG
100794556 AGGAAAACTAAAA
1 AGGAAAACTAAAA
100794569 AGGAAAACTAAAA
1 AGGAAAACTAAAA
100794582 A
1 A
100794583 CATTTAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.15, T:0.07
Consensus pattern (13 bp):
AGGAAAACTAAAA
Found at i:100797677 original size:26 final size:26
Alignment explanation
Indices: 100797648--100797755 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
100797638 TGGTACAAAT
100797648 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
100797674 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100797700 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
100797726 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100797752 TGAT
1 TGAT
100797756 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:100799386 original size:27 final size:27
Alignment explanation
Indices: 100799346--100799486 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
100799336 AGGAAACGTC
*
100799346 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
100799373 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
100799399 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
100799427 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
100799454 ATGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
100799481 CTGGTG
1 CTGGTG
100799487 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:100799425 original size:54 final size:54
Alignment explanation
Indices: 100799343--100799486 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
100799333 TGGAGGAAAC
100799343 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
100799397 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
** *
100799451 GTTATGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
100799487 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:100799498 original size:81 final size:80
Alignment explanation
Indices: 100799346--100799504 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 80
100799336 AGGAAACGTC
* *
100799346 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
100799411 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
100799427 CTGGTGGCTCTGCCAC-ATATATCTGTTATGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATATGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
100799490 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
100799505 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 17 0.25
81 52 0.75
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Done.