Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 47 of 185
Found at i:14118507 original size:53 final size:54
Alignment explanation
Indices: 14118377--14118518 Score: 169
Period size: 53 Copynumber: 2.6 Consensus size: 54
14118367 TCACTAAGGT
* * * * * *
14118377 TATTCTTTCAAAGTTTGCTAGAAAGGTTATCCTTTGAGAGTTTGCCACAAAGGC
1 TATTCTTTCAGAGTTTGCTACAAAGGCTATTCTTTCAGAGTTTGCCACAAAGAC
* * * * *
14118431 TATCCTTCCAGAGTTCGCTACAAAGACTATTCTTTCAGA-TTTTCCACAAAGAC
1 TATTCTTTCAGAGTTTGCTACAAAGGCTATTCTTTCAGAGTTTGCCACAAAGAC
*
14118484 TATTCTTTCAGAGTTTGCCACAAAGGCTATTCTTT
1 TATTCTTTCAGAGTTTGCTACAAAGGCTATTCTTT
14118519 GATGTTGTGT
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 42 0.58
54 30 0.42
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (54 bp):
TATTCTTTCAGAGTTTGCTACAAAGGCTATTCTTTCAGAGTTTGCCACAAAGAC
Found at i:14119441 original size:24 final size:24
Alignment explanation
Indices: 14119409--14119456 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
14119399 AATATGATTC
14119409 ATCTTACTTAGTGGAATTTAACAA
1 ATCTTACTTAGTGGAATTTAACAA
14119433 ATCTTACTTAGTGGAATTTAACAA
1 ATCTTACTTAGTGGAATTTAACAA
14119457 GTGTCATACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (24 bp):
ATCTTACTTAGTGGAATTTAACAA
Found at i:14122794 original size:15 final size:15
Alignment explanation
Indices: 14122774--14122805 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14122764 CATTTCACTA
*
14122774 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
14122789 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
14122804 TT
1 TT
14122806 TTCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:14124527 original size:62 final size:59
Alignment explanation
Indices: 14124461--14124577 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
14124451 AGTGATTTTC
* * * *
14124461 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-TA-ATAAACATTATATTAATTTAATAAGAT
*
14124523 TTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATA
14124578 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
60 2 0.04
61 1 0.02
62 27 0.54
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTAATAAACATTATATTAATTTAATAAGAT
Found at i:14130359 original size:22 final size:22
Alignment explanation
Indices: 14130331--14130382 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
14130321 GGTACCAGTT
*
14130331 AAAAAATATTTTTTAACTGTTA
1 AAAAAATATTTTTTAACTATTA
14130353 AAAAAATATTTTTTAACTATTA
1 AAAAAATATTTTTTAACTATTA
*
14130375 AGAAAATA
1 AAAAAATA
14130383 CCTAAAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (22 bp):
AAAAAATATTTTTTAACTATTA
Found at i:14136343 original size:36 final size:36
Alignment explanation
Indices: 14136303--14136378 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
14136293 GTACATCGTT
14136303 TAGCATTACATCAGATTTAACAAATGATACTCAAGA
1 TAGCATTACATCAGATTTAACAAATGATACTCAAGA
* *
14136339 TAGCATTACATCAGGTTTAATAAATGATACTCAAGA
1 TAGCATTACATCAGATTTAACAAATGATACTCAAGA
14136375 TAGC
1 TAGC
14136379 TATCAATGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (36 bp):
TAGCATTACATCAGATTTAACAAATGATACTCAAGA
Found at i:14137071 original size:18 final size:16
Alignment explanation
Indices: 14137049--14137081 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14137039 TTAGTAGAGA
*
14137049 TATATTTAGATTTTAT
1 TATATATAGATTTTAT
14137065 TATATATAGATTTTAT
1 TATATATAGATTTTAT
14137081 T
1 T
14137082 TACTTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TATATATAGATTTTAT
Found at i:14141862 original size:11 final size:11
Alignment explanation
Indices: 14141848--14141882 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
14141838 ATATATTATA
*
14141848 TATATTAAAAT
1 TATATAAAAAT
14141859 TATATAAAAAT
1 TATATAAAAAT
*
14141870 AATATAAAAAT
1 TATATAAAAAT
14141881 TA
1 TA
14141883 GTATGAGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TATATAAAAAT
Found at i:14147067 original size:16 final size:16
Alignment explanation
Indices: 14147046--14147097 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
14147036 TTTGGTTCGC
* *
14147046 TGTATTGAATTAGATG
1 TGTATTGGATTAGAGG
14147062 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14147078 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14147094 TGTA
1 TGTA
14147098 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14147354 original size:18 final size:17
Alignment explanation
Indices: 14147333--14147367 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14147323 TTATTATTAA
*
14147333 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
14147351 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14147368 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14147421 original size:157 final size:157
Alignment explanation
Indices: 14147220--14147536 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
14147210 TAGAATACCC
*
14147220 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
14147285 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
14147350 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
14147377 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
14147442 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
14147507 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
14147534 TTA
1 TTA
14147537 ATATTCTTAT
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:14147507 original size:16 final size:16
Alignment explanation
Indices: 14147470--14147511 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14147460 TTAATCATAT
*
14147470 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
14147486 TT-AAATATATTATAA
1 TTAAAATATATTATAA
14147501 TTAAAATATAT
1 TTAAAATATAT
14147512 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:14147518 original size:14 final size:15
Alignment explanation
Indices: 14147479--14147520 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14147469 TTTAAACATA
*
14147479 ATTATTATTAAATAT
1 ATTATAATTAAATAT
14147494 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
14147508 A-TATAATTTAATA
1 ATTATAATTAAATA
14147521 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:14147533 original size:82 final size:82
Alignment explanation
Indices: 14147290--14147539 Score: 215
Period size: 76 Copynumber: 3.1 Consensus size: 82
14147280 TATTATTATC
* *
14147290 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
14147355 AATTTAATAAAATTCTT
66 AATTTAATAAAATTCTT
* * * *
14147372 AATAATTAGCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT--TTAAA
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATAATTAAA
* * * * *
14147425 TTTTAATAAGATTATTAATA-TC--
60 ATAT-ATAA-TTTAATAAAATTCTT
14147447 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
14147512 AATTTAATAAAATTCTT
66 AATTTAATAAAATTCTT
*
14147529 AATAATTAATA
1 AATAATAAATA
14147540 TTCTTATATG
Statistics
Matches: 124, Mismatches: 21, Indels: 46
0.65 0.11 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 8 0.06
76 19 0.15
77 6 0.05
78 13 0.10
79 14 0.11
80 6 0.05
81 19 0.15
82 18 0.15
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (82 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATAT
AATTTAATAAAATTCTT
Found at i:14147620 original size:157 final size:154
Alignment explanation
Indices: 14147291--14147621 Score: 337
Period size: 157 Copynumber: 2.1 Consensus size: 154
14147281 ATTATTATCA
*
14147291 ATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATA
1 ATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATA
* * * * ** * * * * * **
14147356 ATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATT
66 ATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATTAATATTGATACTATAAAA
* * * *
14147421 TAAATTTTAATAAGATTATTAATAT
131 GAAAATTT-AGAAGATAATTAATAT
*
14147446 CAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATA
1 --ATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATA
* **
14147511 TAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGAT
64 TAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-AAAT--TAATAT-TGAT
14147576 ACTATAAAAGAAAATTT-GAA-ATAATTAATAT
122 ACTATAAAAGAAAATTTAGAAGATAATTAATAT
*
14147607 -TAA-ATATATTTTAAT
1 ATAATAAATATTTTAAT
14147622 TAAAATATAT
Statistics
Matches: 143, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
157 98 0.69
158 3 0.02
159 4 0.03
160 4 0.03
161 14 0.10
162 2 0.01
163 5 0.03
164 13 0.09
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (154 bp):
ATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATA
ATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATTAATATTGATACTATAAAA
GAAAATTTAGAAGATAATTAATAT
Found at i:14147732 original size:24 final size:25
Alignment explanation
Indices: 14147686--14147733 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
14147676 TATGAATTTG
14147686 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
14147712 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
14147734 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:14147737 original size:92 final size:92
Alignment explanation
Indices: 14147641--14147869 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
14147631 TGATTTAATA
* * *
14147641 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
14147703 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
14147733 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
14147798 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
14147823 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
14147870 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:14150242 original size:33 final size:33
Alignment explanation
Indices: 14150203--14150278 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
14150193 ATTATAAAGC
*
14150203 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
14150236 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
14150269 ATGTATAATT
1 ATGTATAATT
14150279 CAAGTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:14150376 original size:37 final size:37
Alignment explanation
Indices: 14150321--14150402 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
14150311 GTATAAATAT
* *
14150321 ATTGATTAGTTCATTAAAGCATGTTCAAAGTTTTAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
*
14150358 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
14150395 ATTGATTA
1 ATTGATTA
14150403 ATAAATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.40
Consensus pattern (37 bp):
ATTGATTAGTTCAATAAAGCATGTTCAAAGTTTGAAC
Found at i:14153591 original size:5 final size:5
Alignment explanation
Indices: 14153552--14153576 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14153542 CAAATCGGCT
14153552 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
14153577 TCGGATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:14166603 original size:27 final size:27
Alignment explanation
Indices: 14166565--14166619 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
14166555 TTTTGAAATT
*
14166565 ATTATGTCTTAAATTTGTTAGATATTG
1 ATTATGTCTTAAACTTGTTAGATATTG
* *
14166592 ATTATGTTTTAAGCTTGTTAGATATTG
1 ATTATGTCTTAAACTTGTTAGATATTG
14166619 A
1 A
14166620 ATTTATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (27 bp):
ATTATGTCTTAAACTTGTTAGATATTG
Found at i:14166631 original size:32 final size:32
Alignment explanation
Indices: 14166592--14166652 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
14166582 TTAGATATTG
14166592 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
14166624 ATTATGTTTTAAGCTTGTTAGTTATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
14166653 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:14167580 original size:22 final size:20
Alignment explanation
Indices: 14167537--14167575 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14167527 AATTTAAAAA
*
14167537 TATAAAAATTTATTAATATG
1 TATATAAATTTATTAATATG
14167557 TATATAAATTTATTAATAT
1 TATATAAATTTATTAATAT
14167576 ATGTAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATAAATTTATTAATATG
Found at i:14167698 original size:20 final size:20
Alignment explanation
Indices: 14167673--14167712 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14167663 AATATTTTCA
*
14167673 GTAAATTATTTTCCAGAAAT
1 GTAAATCATTTTCCAGAAAT
*
14167693 GTAAATCATTTTTCAGAAAT
1 GTAAATCATTTTCCAGAAAT
14167713 TTCCGGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
GTAAATCATTTTCCAGAAAT
Found at i:14170080 original size:12 final size:13
Alignment explanation
Indices: 14170056--14170085 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
14170046 TTAAATAATA
14170056 ATATAGAATAGAT
1 ATATAGAATAGAT
14170069 ATATAG-ATAGAT
1 ATATAGAATAGAT
14170081 ATATA
1 ATATA
14170086 TAAATCACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (13 bp):
ATATAGAATAGAT
Found at i:14189350 original size:20 final size:20
Alignment explanation
Indices: 14189316--14189429 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
14189306 AAAAAATGAA
* *
14189316 ACCAATATTTTTAAGGATTT
1 ACCAAAATTTCTAAGGATTT
* *
14189336 ACCAAAATATCTAAGAATTT
1 ACCAAAATTTCTAAGGATTT
**
14189356 ATTAAAATTTCTAAGG-TTAT
1 ACCAAAATTTCTAAGGATT-T
* * *
14189376 ACTAAAATATCTAAGGAATT
1 ACCAAAATTTCTAAGGATTT
*
14189396 ACCAAAATTTTTAAGGATTT
1 ACCAAAATTTCTAAGGATTT
14189416 -CTCAAAATTTCTAA
1 AC-CAAAATTTCTAA
14189430 AAATTTTCTG
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
19 3 0.04
20 71 0.95
21 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (20 bp):
ACCAAAATTTCTAAGGATTT
Found at i:14189403 original size:40 final size:40
Alignment explanation
Indices: 14189316--14189435 Score: 129
Period size: 40 Copynumber: 3.0 Consensus size: 40
14189306 AAAAAATGAA
*
14189316 ACCAATATTTTTAAGGATTTACCAAAATATCTAAGAATTT
1 ACCAAAATTTTTAAGGATTTACCAAAATATCTAAGAATTT
** * *
14189356 ATTAAAATTTCTAAGG-TTATACTAAAATATCTAAGGAA-TT
1 ACCAAAATTTTTAAGGATT-TACCAAAATATCTAA-GAATTT
* *
14189396 ACCAAAATTTTTAAGGATTT-CTCAAAATTTCTAAAAATTT
1 ACCAAAATTTTTAAGGATTTAC-CAAAATATCTAAGAATTT
14189436 TCTGAGTATC
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
39 5 0.08
40 54 0.84
41 5 0.08
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.38
Consensus pattern (40 bp):
ACCAAAATTTTTAAGGATTTACCAAAATATCTAAGAATTT
Found at i:14189499 original size:19 final size:20
Alignment explanation
Indices: 14189475--14189516 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14189465 CATTCCGTCA
*
14189475 TACCAA-ATTTCTAATGATT
1 TACCAACATTTCTAAAGATT
*
14189494 TACCAACATTTTTAAAGATT
1 TACCAACATTTCTAAAGATT
14189514 TAC
1 TAC
14189517 TTGTAACACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (20 bp):
TACCAACATTTCTAAAGATT
Found at i:14190503 original size:49 final size:48
Alignment explanation
Indices: 14190450--14190556 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 48
14190440 ATGTGCTAAA
*
14190450 CCACTGGTAGGGCATGCTAATTGCTAACTAG-GTGGAAGTATATGATGGG
1 CCACTGGTAGGGCATGCTAATTGCTAACCAGAGTGG-AGTATAT-ATGGG
* * * * * *
14190499 CCACTAGTAGGGCATGTTAGTTGCTAACCAGATTGGCGTGTATATGGG
1 CCACTGGTAGGGCATGCTAATTGCTAACCAGAGTGGAGTATATATGGG
14190547 CCACTGGTAG
1 CCACTGGTAG
14190557 ACATGTAAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
48 14 0.29
49 32 0.65
50 3 0.06
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (48 bp):
CCACTGGTAGGGCATGCTAATTGCTAACCAGAGTGGAGTATATATGGG
Found at i:14193434 original size:51 final size:49
Alignment explanation
Indices: 14193352--14193535 Score: 199
Period size: 51 Copynumber: 3.7 Consensus size: 49
14193342 TGTAAACACG
* ** * **
14193352 TGTGAAGTACTAAATGCAGGCTACTACGTGTATC-GATAGATAACGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-AG-T-TTGGTCACA
* *
14193403 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA-G-TTTGGTCACA
* * *
14193454 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-AAGTTTGGTCACA
*
14193504 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTA
14193536 TCGAATGATA
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
50 38 0.33
51 71 0.62
52 6 0.05
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAGTTTGGTCACA
Found at i:14193529 original size:50 final size:51
Alignment explanation
Indices: 14193398--14193533 Score: 202
Period size: 51 Copynumber: 2.7 Consensus size: 51
14193388 TAGATAACGG
* * * * *
14193398 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTTGA
14193449 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAG-TTTGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTTGA
* *
14193499 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTG
14193534 TATCGAATGA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 37 0.47
51 41 0.53
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGCTTTGA
Found at i:14199430 original size:41 final size:41
Alignment explanation
Indices: 14199385--14199512 Score: 186
Period size: 41 Copynumber: 3.1 Consensus size: 41
14199375 AAAGTGTCGG
14199385 TAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGC
* **
14199426 TAATGCTCGGGGCTTTAGCGGCGTTTTCT-AAAAAGTACCGC
1 TAATGCTCGGGGTTTTAGCGGCGTTTT-TGAAAAAGCGCCGC
* * *
14199467 TAATGCTCGGGGTTTTAGCAGCATTTTTGAAAAAGCGCCGT
1 TAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGC
14199508 TAATG
1 TAATG
14199513 TTGGGGGCTT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 74 0.97
42 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
TAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGC
Found at i:14199459 original size:82 final size:82
Alignment explanation
Indices: 14199365--14199524 Score: 248
Period size: 82 Copynumber: 2.0 Consensus size: 82
14199355 CCAACGACGT
** * * *
14199365 CGTTTTCTAAAAAGTGTCGGTAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 CGTTTTCTAAAAAGTACCGCTAATGCTCGGGGTTTTAGCAGCATTTTTGAAAAAGCGCCGCTAAT
14199430 GCTCGGGGCTTTAGCGG
66 GCTCGGGGCTTTAGCGG
*
14199447 CGTTTTCTAAAAAGTACCGCTAATGCTCGGGGTTTTAGCAGCATTTTTGAAAAAGCGCCGTTAAT
1 CGTTTTCTAAAAAGTACCGCTAATGCTCGGGGTTTTAGCAGCATTTTTGAAAAAGCGCCGCTAAT
* *
14199512 GTTGGGGGCTTTA
66 GCTCGGGGCTTTA
14199525 TCTTAATTGG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (82 bp):
CGTTTTCTAAAAAGTACCGCTAATGCTCGGGGTTTTAGCAGCATTTTTGAAAAAGCGCCGCTAAT
GCTCGGGGCTTTAGCGG
Found at i:14199913 original size:15 final size:16
Alignment explanation
Indices: 14199878--14199917 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
14199868 GGAGTATGGG
14199878 TTTAGGGA-TTATAGA
1 TTTAGGGATTTATAGA
14199893 -TTAGGGATTTA-AGA
1 TTTAGGGATTTATAGA
14199907 TTTAGGG-TTTA
1 TTTAGGGATTTA
14199918 GGGGTTAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (16 bp):
TTTAGGGATTTATAGA
Found at i:14200181 original size:7 final size:7
Alignment explanation
Indices: 14200171--14200236 Score: 51
Period size: 7 Copynumber: 9.1 Consensus size: 7
14200161 GATTTAAGGT
*
14200171 TTAGGAG
1 TTAGGGG
14200178 TTAGGGG
1 TTAGGGG
14200185 TTAGGGG
1 TTAGGGG
14200192 TTTAGGGG
1 -TTAGGGG
***
14200200 TTAGATA
1 TTAGGGG
14200207 TTAGGGG
1 TTAGGGG
* *
14200214 TTAAGAG
1 TTAGGGG
*
14200221 TTAGGGAT
1 TTAGGG-G
14200229 TTAGGGG
1 TTAGGGG
14200236 T
1 T
14200237 CGGGTTAGGG
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
7 31 0.70
8 13 0.30
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:14200196 original size:15 final size:15
Alignment explanation
Indices: 14200147--14200203 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
14200137 TAGAGATTAT
14200147 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
* *
14200161 GATTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
* *
14200176 AG-TTAGGGGTTAGG
1 GGTTTAAGGGTTAGG
*
14200190 GGTTTAGGGGTTAG
1 GGTTTAAGGGTTAG
14200204 ATATTAGGGG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 21 0.62
15 13 0.38
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:14200196 original size:22 final size:22
Alignment explanation
Indices: 14200168--14200236 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
14200158 TGGGATTTAA
*
14200168 GGTTTAGGAGTTAGGGGTTAGG
1 GGTTTAGGAGTTAGGGATTAGG
* **
14200190 GGTTTAGGGGTTAGATATTAGG
1 GGTTTAGGAGTTAGGGATTAGG
*
14200212 GG-TTAAGAGTTAGGGATTTAGG
1 GGTTTAGGAGTTAGGGA-TTAGG
14200234 GGT
1 GGT
14200237 CGGGTTAGGG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 10 0.27
22 27 0.73
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (22 bp):
GGTTTAGGAGTTAGGGATTAGG
Found at i:14203437 original size:43 final size:42
Alignment explanation
Indices: 14203340--14203649 Score: 304
Period size: 43 Copynumber: 7.3 Consensus size: 42
14203330 GATATGTTTT
* * ** *
14203340 TAGCGGTGTTTGTGTGAAAATTGCCGCTAAAGGTC-TGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA-GTCATGATCTA
*
14203382 TAGCGGCGTTTGTGGGAAAAGCGCCGCTACAAGTCATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTA-AAGTCATGATCTA
* *
14203425 TAGCGGCGTTTGTGGGAAAAGCACCGTTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGTCATGATCTA
* * * *
14203468 TA-CTGGTGTTTGT-GGAATAAGCACCGCTAAAGATCTTGAGCTA
1 TAGC-GGCGTTTGTGGGAA-AAGCGCCGCTAAAG-TCATGATCTA
** *
14203511 TAGCGGCGTTTGT-ATAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA-GTCATGATCTA
* * * *
14203553 TAGCGGCGTTTATGGAAAAAGCACCGCTAAAAGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGTCATGATCTA
* * **
14203596 TAGCGGTGTTTGTGGAAAAAGCGCTACTAAAGGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA-GTCATGATCTA
14203639 TAGCGGCGTTT
1 TAGCGGCGTTT
14203650 ATTTCTAAAA
Statistics
Matches: 227, Mismatches: 30, Indels: 21
0.82 0.11 0.08
Matches are distributed among these distances:
42 72 0.32
43 150 0.66
44 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGTCATGATCTA
Found at i:14203573 original size:128 final size:129
Alignment explanation
Indices: 14203379--14203649 Score: 368
Period size: 128 Copynumber: 2.1 Consensus size: 129
14203369 AAGGTCTGTT
* * *
14203379 CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTACAAGTCATGACCTATAGCGGCGTTTGTGGGAAA
1 CTATAGCGGCGTTTGTGAGAAAAGCGCCGCTACAAGTCATGACCTATAGCGGCGTTTATGGAAAA
* * * *
14203444 AGCACCGTTAAAAGTCATGATCTATA-CTGGTGTTTGTGGAATAAGCACCGCTAAAGATCTTGAG
66 AGCACCGCTAAAAGTCATGATCTATAGC-GGTGTTTGTGGAAAAAGCACCACTAAAGATCATGAG
* * *
14203508 CTATAGCGGCGTTTGT-ATAAAAGCGCCGCTA-AAGGTCCTGATCTATAGCGGCGTTTATGGAAA
1 CTATAGCGGCGTTTGTGAGAAAAGCGCCGCTACAA-GTCATGACCTATAGCGGCGTTTATGGAAA
* * * * *
14203571 AAGCACCGCTAAAAGTCCTGATCTATAGCGGTGTTTGTGGAAAAAGCGCTACTAAAGGTCATGAT
65 AAGCACCGCTAAAAGTCATGATCTATAGCGGTGTTTGTGGAAAAAGCACCACTAAAGATCATGAG
14203636 CTATAGCGGCGTTT
1 CTATAGCGGCGTTT
14203650 ATTTCTAAAA
Statistics
Matches: 125, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
127 2 0.02
128 106 0.85
129 17 0.14
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (129 bp):
CTATAGCGGCGTTTGTGAGAAAAGCGCCGCTACAAGTCATGACCTATAGCGGCGTTTATGGAAAA
AGCACCGCTAAAAGTCATGATCTATAGCGGTGTTTGTGGAAAAAGCACCACTAAAGATCATGAG
Found at i:14206345 original size:43 final size:43
Alignment explanation
Indices: 14206284--14206399 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 43
14206274 CATGCGTTAT
* *
14206284 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TGTGTTTG
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATGTGATTA
*
14206327 CGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATGTGATTA
* *
14206370 CATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
14206400 TGTACTAGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.05
43 57 0.92
44 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
Found at i:14209808 original size:43 final size:42
Alignment explanation
Indices: 14209761--14209884 Score: 137
Period size: 41 Copynumber: 2.9 Consensus size: 42
14209751 TCCCAAACGT
14209761 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACA-GTAATCAAATATCGATGCCACTGTCCCAGACAG
** * *
14209804 GGTCTTACACAAATCAAATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACAGTAATCAAATATCGATGCCACTGTCCCAGACAG
* *
14209845 GGTCTTACACGTAAACACAA-GTCGATGCCAAC-GTCCCAGA
1 GGTCTTACA-GTAATCA-AATATCGATGCC-ACTGTCCCAGA
14209885 TGTGGTCTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
41 28 0.41
42 13 0.19
43 26 0.38
44 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (42 bp):
GGTCTTACAGTAATCAAATATCGATGCCACTGTCCCAGACAG
Found at i:14209883 original size:84 final size:84
Alignment explanation
Indices: 14209742--14209897 Score: 201
Period size: 84 Copynumber: 1.9 Consensus size: 84
14209732 GACTTGTACA
* * *
14209742 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAAACAAATATCGATGCCACTGTCCCAGA-AGTGG
14209806 TCTTACACAAATCAAATACG
65 TCTTACACAAATCAAATACG
* * * *
14209826 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAA-GTCGATGCCAAC-GTCCCAGATGTG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAAACA-AATATCGATGCC-ACTGTCCCAGAAGTG
14209889 GTCTTACAC
64 GTCTTACAC
14209898 GAAAACACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
83 1 0.02
84 57 0.92
85 4 0.06
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGTAAACAAATATCGATGCCACTGTCCCAGAAGTGGT
CTTACACAAATCAAATACG
Found at i:14209891 original size:43 final size:41
Alignment explanation
Indices: 14209742--14209904 Score: 163
Period size: 43 Copynumber: 3.9 Consensus size: 41
14209732 GACTTGTACA
* * *
14209742 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAAC-AA-ATCG
14209785 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC--AAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAA-CAAAT-CG
* *
14209826 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACA-AA-TCG
* *
14209869 ATGCCAACGTCCCAGATGTGGTCTTACACGAAAACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACA
14209905 CATATCGAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
40 2 0.02
41 30 0.30
42 6 0.06
43 61 0.60
44 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACAAATCG
Found at i:14216144 original size:43 final size:43
Alignment explanation
Indices: 14216056--14216167 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
14216046 CGTTATCGTT
* * *
14216056 TAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTGCGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATG
**
14216099 TAAGACCTTGTCTGGGACAG-TGGCATCGA-TATGTGATTACATG
1 TAAGACCACGTCTGGGAC-GTTGGCATCGACT-TGTGATTACATG
*
14216142 TAAGATCACGTCTGGGACGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
14216168 TGTACTAGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 2 0.03
43 55 0.95
44 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATG
Found at i:14218595 original size:20 final size:19
Alignment explanation
Indices: 14218527--14218597 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
14218517 TATCAAAATA
*
14218527 TCTAAGGATTTACCAAAATT
1 TCTAA-GATTTACCAATATT
* **
14218547 GCTAAGAATTTACCAATGCT
1 TCTAAG-ATTTACCAATATT
*
14218567 TCGAAAGATTTACCAATATT
1 TC-TAAGATTTACCAATATT
14218587 TCTAGAGATTT
1 TCTA-AGATTT
14218598 CCTTAGTGCC
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 2 0.05
20 34 0.87
21 3 0.08
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (19 bp):
TCTAAGATTTACCAATATT
Found at i:14218665 original size:20 final size:20
Alignment explanation
Indices: 14218640--14218753 Score: 112
Period size: 20 Copynumber: 5.7 Consensus size: 20
14218630 TTTGGCATAT
14218640 CAAAATTTCTAAGGATTTAC
1 CAAAATTTCTAAGGATTTAC
*
14218660 CAAAATTTAGT-AGG-TTATAC
1 CAAAATTT-CTAAGGATT-TAC
14218680 CAAAATATT-TAAGGATTTAC
1 CAAAAT-TTCTAAGGATTTAC
14218700 CAAAA-TTCTTAAGG-TTATAC
1 CAAAATTTC-TAAGGATT-TAC
* *
14218720 CAAAATTTCCAAGGAGTTAC
1 CAAAATTTCTAAGGATTTAC
*
14218740 CAATATTTCTAAGG
1 CAAAATTTCTAAGG
14218754 GTTTTTAACT
Statistics
Matches: 79, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
18 2 0.03
19 5 0.06
20 63 0.80
21 9 0.11
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (20 bp):
CAAAATTTCTAAGGATTTAC
Found at i:14218693 original size:40 final size:39
Alignment explanation
Indices: 14218640--14218753 Score: 142
Period size: 40 Copynumber: 2.8 Consensus size: 39
14218630 TTTGGCATAT
14218640 CAAAATTTCTAAGGATTTACCAAAA-TTTAGTAGGTTATAC
1 CAAAATTTCTAAGGATTTACCAAAATTTTA--AGGTTATAC
14218680 CAAAATATT-TAAGGATTTACCAAAATTCTTAAGGTTATAC
1 CAAAAT-TTCTAAGGATTTACCAAAATT-TTAAGGTTATAC
* * *
14218720 CAAAATTTCCAAGGAGTTACCAATATTTCTAAGG
1 CAAAATTTCTAAGGATTTACCAAAATTT-TAAGG
14218754 GTTTTTAACT
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
39 3 0.05
40 57 0.86
41 3 0.05
42 3 0.05
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (39 bp):
CAAAATTTCTAAGGATTTACCAAAATTTTAAGGTTATAC
Found at i:14218855 original size:20 final size:19
Alignment explanation
Indices: 14218832--14218891 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
14218822 CAAAAAACCT
14218832 TAAGAATTTACCAAAATTTC
1 TAAG-ATTTACCAAAATTTC
*
14218852 TAAGATTATACCAAAATATC
1 TAAGATT-TACCAAAATTTC
*
14218872 TAAGGATTTACAAAAATTTC
1 TAA-GATTTACCAAAATTTC
14218892 CAAGTAGCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.09
20 28 0.80
21 4 0.11
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (19 bp):
TAAGATTTACCAAAATTTC
Found at i:14218936 original size:20 final size:19
Alignment explanation
Indices: 14218899--14219012 Score: 77
Period size: 20 Copynumber: 5.7 Consensus size: 19
14218889 TTCCAAGTAG
* *
14218899 CCTTAAGAACTTTAGTAAAT
1 CCTT-AGAAATTTGGTAAAT
*
14218919 CCTTAGATATGTTGGTAAAT
1 CCTTAGAAAT-TTGGTAAAT
* * *
14218939 CCATGGATATTTTGGTATAA-
1 CCTTAGA-AATTTGGTA-AAT
*
14218959 CCTTAGAAATTTTGTAAAT
1 CCTTAGAAATTTGGTAAAT
* * *
14218978 CATTATAAATATTGATAAAT
1 CCTTAGAAAT-TTGGTAAAT
14218998 CCTTAGAAAATTTGG
1 CCTTAG-AAATTTGG
14219013 GTATGCCAAA
Statistics
Matches: 70, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
18 2 0.03
19 19 0.27
20 42 0.60
21 7 0.10
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.39
Consensus pattern (19 bp):
CCTTAGAAATTTGGTAAAT
Found at i:14223574 original size:24 final size:24
Alignment explanation
Indices: 14223542--14223636 Score: 136
Period size: 24 Copynumber: 4.0 Consensus size: 24
14223532 ATTAATATAA
*
14223542 TGGTATCCTTTTCAACCTTTTCAT
1 TGGTAACCTTTTCAACCTTTTCAT
* *
14223566 TGGTATCCTTTTCGACCTTTTCAT
1 TGGTAACCTTTTCAACCTTTTCAT
*
14223590 TGATAACCTTTTCAACCTTTTCAT
1 TGGTAACCTTTTCAACCTTTTCAT
* *
14223614 TAGTAACCTTTTCAAACTTTTCA
1 TGGTAACCTTTTCAACCTTTTCA
14223637 CTATTTCGGG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.21, C:0.24, G:0.07, T:0.47
Consensus pattern (24 bp):
TGGTAACCTTTTCAACCTTTTCAT
Found at i:14231421 original size:21 final size:20
Alignment explanation
Indices: 14231397--14231442 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
14231387 CGAAATGCAA
14231397 TCAACCT-AATTCGAATTAAAT
1 TCAACCTAAATT-G-ATTAAAT
*
14231418 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
14231438 T-AACC
1 TCAACC
14231443 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 8 0.36
21 7 0.32
22 4 0.18
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:14231708 original size:18 final size:19
Alignment explanation
Indices: 14231682--14231718 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14231672 AATTTTGGAA
14231682 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
14231700 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
14231719 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:14232126 original size:22 final size:22
Alignment explanation
Indices: 14232101--14232145 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
14232091 TTATTAACCC
14232101 AAATTAAATATGA-TATAAATTA
1 AAATTAAATAT-ATTATAAATTA
*
14232123 AAATTAATTATATTATAAATTA
1 AAATTAAATATATTATAAATTA
14232145 A
1 A
14232146 TACATATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTAAATATATTATAAATTA
Found at i:14237999 original size:5 final size:6
Alignment explanation
Indices: 14237981--14238005 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14237971 TAAATCAATT
14237981 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
14238006 TTGCTAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:14251941 original size:21 final size:21
Alignment explanation
Indices: 14251908--14251963 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
14251898 AGCGATTTAT
* *
14251908 TAAGTTCATGTGGTAAGACCC
1 TAAGGTCAAGTGGTAAGACCC
**
14251929 TAAGGTCAAGTGGTTTGACCC
1 TAAGGTCAAGTGGTAAGACCC
14251950 TAAGGTCAAGTGGT
1 TAAGGTCAAGTGGT
14251964 TTTAGAAAAT
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:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (21 bp):
TAAGGTCAAGTGGTAAGACCC
Found at i:14251964 original size:21 final size:21
Alignment explanation
Indices: 14251924--14251965 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
14251914 CATGTGGTAA
14251924 GACCCTAAGGTCAAGTGGTTT
1 GACCCTAAGGTCAAGTGGTTT
14251945 GACCCTAAGGTCAAGTGGTTT
1 GACCCTAAGGTCAAGTGGTTT
14251966 TAGAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
GACCCTAAGGTCAAGTGGTTT
Found at i:14258475 original size:29 final size:28
Alignment explanation
Indices: 14258440--14258517 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
14258430 TCATGAGATT
14258440 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
14258470 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
14258497 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
14258518 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:14258736 original size:175 final size:174
Alignment explanation
Indices: 14258470--14258798 Score: 613
Period size: 175 Copynumber: 1.9 Consensus size: 174
14258460 AAATTGTACA
14258470 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
14258535 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
14258600 TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
14258645 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
14258710 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
14258775 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
14258799 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
174 11 0.07
175 139 0.93
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:14262395 original size:29 final size:29
Alignment explanation
Indices: 14262362--14262421 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
14262352 TAGGAATAGG
14262362 AAATTCCATTAGGATATCTTAGGTTAATT
1 AAATTCCATTAGGATATCTTAGGTTAATT
* *
14262391 AAATTCCATTAGGTTATTTTAGGTTAATT
1 AAATTCCATTAGGATATCTTAGGTTAATT
14262420 AA
1 AA
14262422 TTTAATTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.43
Consensus pattern (29 bp):
AAATTCCATTAGGATATCTTAGGTTAATT
Found at i:14277441 original size:25 final size:25
Alignment explanation
Indices: 14277413--14277466 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
14277403 CCCAAACATG
*
14277413 CAAATAACCCATTTTCTTTTACACC
1 CAAATAACCCATTTTATTTTACACC
*
14277438 CAAATTACCCATTTTATTTTACACC
1 CAAATAACCCATTTTATTTTACACC
14277463 CAAA
1 CAAA
14277467 CATGCTAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (25 bp):
CAAATAACCCATTTTATTTTACACC
Found at i:14286119 original size:17 final size:18
Alignment explanation
Indices: 14286097--14286130 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14286087 TAATATAAGT
14286097 AAATTTTAAT-TATTTTA
1 AAATTTTAATATATTTTA
*
14286114 AAATTTTTATATATTTT
1 AAATTTTAATATATTTT
14286131 TCGATAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AAATTTTAATATATTTTA
Found at i:14291331 original size:14 final size:15
Alignment explanation
Indices: 14291303--14291335 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14291293 AAGGTTTATA
14291303 GATTATGGAATTAGG
1 GATTATGGAATTAGG
14291318 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
14291332 GATT
1 GATT
14291336 CTAGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:14291376 original size:14 final size:14
Alignment explanation
Indices: 14291359--14291405 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14291349 TGTGATTTAG
*
14291359 GGGTTAAGGGTTAA
1 GGGTTAAGGATTAA
14291373 GGGTT-AGAGATTAA
1 GGGTTAAG-GATTAA
* *
14291387 GAGTTAAGGATTTA
1 GGGTTAAGGATTAA
14291401 GGGTT
1 GGGTT
14291406 TATGGATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 2 0.07
14 23 0.85
15 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.38, T:0.32
Consensus pattern (14 bp):
GGGTTAAGGATTAA
Found at i:14296302 original size:42 final size:42
Alignment explanation
Indices: 14296266--14296409 Score: 191
Period size: 43 Copynumber: 3.4 Consensus size: 42
14296256 AAAGGTTATG
14296266 TTTTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCAAGA
1 TTTTTAGCGGCGTTTGTGATAAAAGCG-CACTAAAGGTCAAGA
* * *
14296309 TCTTTT-GCGGCGCTTGTGATAAAAGTGGCGCTAAAGGTCAAGA
1 T-TTTTAGCGGCGTTTGTGATAAAAG-CGCACTAAAGGTCAAGA
* **
14296352 TTTTTTGCGGCGTTTGTGATAAAAGCGCAGCTAAAGGTCATTA
1 TTTTTAGCGGCGTTTGTGATAAAAGCGCA-CTAAAGGTCAAGA
14296395 TTTTTAGCGGCGTTT
1 TTTTTAGCGGCGTTT
14296410 TTTCAGATAA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
42 6 0.07
43 77 0.88
44 5 0.06
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (42 bp):
TTTTTAGCGGCGTTTGTGATAAAAGCGCACTAAAGGTCAAGA
Found at i:14296664 original size:14 final size:14
Alignment explanation
Indices: 14296645--14296701 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
14296635 GAAAAACACC
14296645 TAAATATAATACAA
1 TAAATATAATACAA
*
14296659 TAAATATAGTACAA
1 TAAATATAATACAA
14296673 T-AATATCAATACAA
1 TAAATAT-AATACAA
14296687 -AAATACTAA-ACAA
1 TAAATA-TAATACAA
14296700 TA
1 TA
14296702 TATAATAAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.24
14 27 0.73
15 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAATATAATACAA
Found at i:14296699 original size:27 final size:27
Alignment explanation
Indices: 14296647--14296708 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
14296637 AAAACACCTA
*
14296647 AATATAATACAATAAATATAGTACAAT
1 AATATAATACAATAAATATAGAACAAT
14296674 AATATCAATACAA-AAATACTA-AACAAT
1 AATAT-AATACAATAAATA-TAGAACAAT
14296701 -ATATAATA
1 AATATAATA
14296709 AGCTTATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 4 0.12
26 4 0.12
27 15 0.47
28 9 0.28
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (27 bp):
AATATAATACAATAAATATAGAACAAT
Found at i:14297080 original size:22 final size:22
Alignment explanation
Indices: 14297008--14297085 Score: 65
Period size: 22 Copynumber: 3.7 Consensus size: 22
14296998 TCACAATCTC
14297008 AATAAATCAAAAACATTTGTT-A
1 AATAAATCAAAAACATTT-TTCA
* *** *
14297030 AATAATTC-AAAA-A-TAACCC
1 AATAAATCAAAAACATTTTTCA
14297049 AATAAATCAAAAACATTTTTCA
1 AATAAATCAAAAACATTTTTCA
*
14297071 AATAATTCAAAAACA
1 AATAAATCAAAAACA
14297086 ACAAAAACAA
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
19 8 0.20
20 5 0.12
21 5 0.12
22 23 0.56
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (22 bp):
AATAAATCAAAAACATTTTTCA
Found at i:14297285 original size:31 final size:31
Alignment explanation
Indices: 14297225--14297286 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
14297215 TTTTTTAACA
*
14297225 TTTTTAAACCCTAAACAAAGCCCTCTAATCC
1 TTTTTAAACCCTAAACAAACCCCTCTAATCC
*
14297256 TTTTTTAACCCTAAACAAAACCCCT-TAATCC
1 TTTTTAAACCCTAAAC-AAACCCCTCTAATCC
14297287 CTATTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.35, C:0.32, G:0.02, T:0.31
Consensus pattern (31 bp):
TTTTTAAACCCTAAACAAACCCCTCTAATCC
Found at i:14297949 original size:25 final size:26
Alignment explanation
Indices: 14297907--14297960 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
14297897 TTCTCCTAAA
* *
14297907 TTTCAATTCTATTTAATTATTTAAT-T
1 TTTCAAATCTATTGAATTA-TTAATAT
14297933 TTTCAAAT-TATTGAATTATTAATAT
1 TTTCAAATCTATTGAATTATTAATAT
14297958 TTT
1 TTT
14297961 ATACTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 13 0.52
26 7 0.28
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTCAAATCTATTGAATTATTAATAT
Found at i:14301774 original size:51 final size:52
Alignment explanation
Indices: 14301687--14301788 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 52
14301677 TTGATTTTTG
* *
14301687 TTCCTTATCCTTTTAATTTTATTGTTGTTTTTATGAACATGTCTATGAATAC
1 TTCCTTATCCTTTTAATTTTATTGTTGTTTTGATGAACATGCCTATGAATAC
* *
14301739 TTCC-TATCCTTTTAATTTTGTTGTT-TTTATGATGAACGTGCCTATGAATA
1 TTCCTTATCCTTTTAATTTTATTGTTGTTT-TGATGAACATGCCTATGAATA
14301789 TTTGTGATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
50 3 0.07
51 38 0.84
52 4 0.09
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.52
Consensus pattern (52 bp):
TTCCTTATCCTTTTAATTTTATTGTTGTTTTGATGAACATGCCTATGAATAC
Found at i:14306425 original size:3 final size:3
Alignment explanation
Indices: 14306408--14306446 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
14306398 GTGTTATAAA
*
14306408 AAG AA- AAG GAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
14306447 ATGGACACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14315103 original size:22 final size:23
Alignment explanation
Indices: 14315076--14315118 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
14315066 ATACTTATTC
14315076 TTTATAT-AA-AAATATATTTTCT
1 TTTATATCAATAAATA-ATTTTCT
14315098 TTTATATCAATAAATAATTTT
1 TTTATATCAATAAATAATTTT
14315119 TTTAAGATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTATATCAATAAATAATTTTCT
Found at i:14316585 original size:27 final size:27
Alignment explanation
Indices: 14316545--14316772 Score: 282
Period size: 27 Copynumber: 8.5 Consensus size: 27
14316535 TTGTGATTCG
* *
14316545 TGGGT-AAATAACCGAAATACTCTCGA
1 TGGGTAAAATGACCGAAATACCCTCGA
*
14316571 TGGGTAAAATGACCGAAATACTCTCGA
1 TGGGTAAAATGACCGAAATACCCTCGA
14316598 TGGGTAAAATGACCGAAATACCCTCGA
1 TGGGTAAAATGACCGAAATACCCTCGA
*
14316625 TGGGTAAAATAACCGAAATACCCTCGA
1 TGGGTAAAATGACCGAAATACCCTCGA
* **
14316652 TGGGTAAAATGGCTAAAATACCCTCGA
1 TGGGTAAAATGACCGAAATACCCTCGA
* * **
14316679 TGGGCAAAATAATTGAAATACCCTCGA
1 TGGGTAAAATGACCGAAATACCCTCGA
* *
14316706 TAGGTAAAATGATCGAAATAACCC-CGA
1 TGGGTAAAATGACCGAAAT-ACCCTCGA
*
14316733 AGGGTAAAATGACCGAAATACCC-CGA
1 TGGGTAAAATGACCGAAATACCCTCGA
*
14316759 TAGGATAAAATGAC
1 T-GGGTAAAATGAC
14316773 TGTTATACCC
Statistics
Matches: 178, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
26 12 0.07
27 162 0.91
28 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (27 bp):
TGGGTAAAATGACCGAAATACCCTCGA
Found at i:14316986 original size:26 final size:26
Alignment explanation
Indices: 14316952--14317023 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
14316942 CACATATACT
*
14316952 GTTATTGGCAGCTTTGCTGCATTACC
1 GTTACTGGCAGCTTTGCTGCATTACC
* *
14316978 GTTACTGGCAGCTTTGTTGCATTACT
1 GTTACTGGCAGCTTTGCTGCATTACC
14317004 GTTACTGGCAGCTTTGCTGC
1 GTTACTGGCAGCTTTGCTGC
14317024 GATATTGGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.14, C:0.22, G:0.25, T:0.39
Consensus pattern (26 bp):
GTTACTGGCAGCTTTGCTGCATTACC
Found at i:14317197 original size:28 final size:28
Alignment explanation
Indices: 14317130--14317197 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
14317120 ACTGCATTGT
*
14317130 ACTGTTACTGTATTGGGCTAAGACCCAC
1 ACTGTTACTGTATAGGGCTAAGACCCAC
** * * *
14317158 ACTGTTGTTGTATAGGGCTCAGGCCCAG
1 ACTGTTACTGTATAGGGCTAAGACCCAC
*
14317186 ACTGCTACTGTA
1 ACTGTTACTGTA
14317198 CGTTGTTACT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (28 bp):
ACTGTTACTGTATAGGGCTAAGACCCAC
Found at i:14327710 original size:3 final size:3
Alignment explanation
Indices: 14327702--14327762 Score: 59
Period size: 3 Copynumber: 20.3 Consensus size: 3
14327692 ATAATCACCG
* * * * * *
14327702 ACA ACA ACA ACA ACA ACA ACA ACA GCA GCA GCA GCA GCA ACA ACA GCA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
*
14327750 ACA ACA GCA ACA A
1 ACA ACA ACA ACA A
14327763 TCTCAGCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.56, C:0.33, G:0.11, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:14327716 original size:9 final size:9
Alignment explanation
Indices: 14327703--14327762 Score: 75
Period size: 9 Copynumber: 6.7 Consensus size: 9
14327693 TAATCACCGA
*
14327703 CAACAACAA
1 CAACAACAG
*
14327712 CAACAACAA
1 CAACAACAG
*
14327721 CAACAGCAG
1 CAACAACAG
* *
14327730 CAGCAGCAG
1 CAACAACAG
14327739 CAACAACAG
1 CAACAACAG
14327748 CAACAACAG
1 CAACAACAG
14327757 CAACAA
1 CAACAA
14327763 TCTCAGCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.55, C:0.33, G:0.12, T:0.00
Consensus pattern (9 bp):
CAACAACAG
Found at i:14347317 original size:27 final size:27
Alignment explanation
Indices: 14347234--14347319 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
14347224 TTATACTGTT
* * * *
14347234 ATGACCGAAACACCCCTATAGGGTAGA
1 ATGACCAAAATACCCCCATAGGGTAAA
* *
14347261 ATAACCAAAATACCCTCATAGGGTAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
*
14347288 ATGACCAAAATACCCCCATAGGATAAA
1 ATGACCAAAATACCCCCATAGGGTAAA
14347315 ATGAC
1 ATGAC
14347320 TGTTATACCC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.16
Consensus pattern (27 bp):
ATGACCAAAATACCCCCATAGGGTAAA
Found at i:14347754 original size:29 final size:31
Alignment explanation
Indices: 14347719--14347778 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
14347709 TATCTGCACT
14347719 GATTAATGATATT-ATACTGTT-ACTGCATC
1 GATTAATGATATTAATACTGTTCACTGCATC
14347748 GATTAATGATATTACATACTGTTCACTGCAT
1 GATTAATGATATTA-ATACTGTTCACTGCAT
14347779 GACTAATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 13 0.46
31 8 0.29
32 7 0.25
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (31 bp):
GATTAATGATATTAATACTGTTCACTGCATC
Found at i:14350260 original size:27 final size:27
Alignment explanation
Indices: 14350229--14350540 Score: 269
Period size: 27 Copynumber: 11.6 Consensus size: 27
14350219 ATTCATGGGC
* * *
14350229 AAATTACCGAAATGCCCTTGATGGGTA
1 AAATTACTGAAATACCCTCGATGGGTA
*
14350256 AAATTACTGAAATACCGTCGATGGGTA
1 AAATTACTGAAATACCCTCGATGGGTA
* * *
14350283 AAATTA-TCAAAATAACATCGATGGGT-
1 AAATTACT-GAAATACCCTCGATGGGTA
* * * *
14350309 AAAGT-CCGAGATACCCTCGAAGGGTA
1 AAATTACTGAAATACCCTCGATGGGTA
*
14350335 AAATTACTGAAATAGCCC-CGAAGGGTA
1 AAATTACTGAAATA-CCCTCGATGGGTA
* * *
14350362 AAACTACTAAAATACCCTCGAAGGGTA
1 AAATTACTGAAATACCCTCGATGGGTA
* *
14350389 AAATTATTGAAATACCCTCGATTGGTA
1 AAATTACTGAAATACCCTCGATGGGTA
*
14350416 AAATTA-TCGAAATACCCTTGATGGGTA
1 AAATTACT-GAAATACCCTCGATGGGTA
* * **
14350443 AAGTTACTGAAATACCCTCAATGAATA
1 AAATTACTGAAATACCCTCGATGGGTA
* *
14350470 AAATTTCTGAAATACTCC-CGAAGGGTA
1 AAATTACTGAAATAC-CCTCGATGGGTA
* * * *
14350497 ATATTACCGAAATACCCTCGAAGGATA
1 AAATTACTGAAATACCCTCGATGGGTA
*
14350524 AAATGACT-AAATTACCC
1 AAATTACTGAAA-TACCC
14350541 CTGAAGAGTA
Statistics
Matches: 230, Mismatches: 44, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
25 13 0.06
26 18 0.08
27 193 0.84
28 6 0.03
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATGGGTA
Found at i:14350428 original size:81 final size:81
Alignment explanation
Indices: 14350319--14350623 Score: 268
Period size: 81 Copynumber: 3.8 Consensus size: 81
14350309 AAAGTCCGAG
14350319 ATACCCTCGAAGGGTAAAATTA-CTGAAATAGCCC-CGAAGGGTAAAACT-ACTAAAATACCCTC
1 ATACCCTCGAAGGGTAAAATTATC-GAAATA-CCCTCGAAGGGTAAAA-TGACTAAAATACCCTC
*
14350381 GAAGGGTAAAATTATTGAA
63 GAAGAGTAAAATTATTGAA
** * * * * *
14350400 ATACCCTCGATTGGTAAAATTATCGAAATACCCTTGATGGGTAAAGTTACTGAAATACCCTC-AA
1 ATACCCTCGAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATGACTAAAATACCCTCGAA
*
14350464 TGAATAAAATT-TCTGAA
66 -GAGTAAAATTAT-TGAA
* * * *
14350481 ATACTCC-CGAAGGGTAATATTACCGAAATACCCTCGAAGGATAAAATGACTAAATTACCC-CTG
1 ATAC-CCTCGAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATGACTAAAATACCCTC-G
* **
14350544 AAGAGTAAAATGA-CCAA
64 AAGAGTAAAATTATTGAA
* * * * * *
14350561 ATTACCCTTGAAAGGTAACATGATCGAATTATCCCT-GAAGGGTAAAATGACTAAGATACCCTC
1 A-TACCCTCGAAGGGTAAAATTATCGAAATA-CCCTCGAAGGGTAAAATGACTAAAATACCCTC
14350624 TTAGGGTAAA
Statistics
Matches: 179, Mismatches: 32, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
80 13 0.07
81 156 0.87
82 10 0.06
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (81 bp):
ATACCCTCGAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATGACTAAAATACCCTCGAA
GAGTAAAATTATTGAA
Found at i:14350546 original size:27 final size:26
Alignment explanation
Indices: 14350511--14350662 Score: 119
Period size: 27 Copynumber: 5.6 Consensus size: 26
14350501 TACCGAAATA
14350511 CCCTCGAAGGATAAAATGACTAAATTAC
1 CCCT-GAAGG-TAAAATGACTAAATTAC
*
14350539 CCCTGAAGAGTAAAATGACCAAATTAC
1 CCCTGAAG-GTAAAATGACTAAATTAC
* * * *
14350566 CCTTGAAAGGTAACATGA-TCGAATTAT
1 CCCTG-AAGGTAAAATGACT-AAATTAC
14350593 CCCTGAAGGGTAAAATGACTAAGA-TAC
1 CCCTGAA-GGTAAAATGACTAA-ATTAC
* * * *
14350620 CCTCTTAGGGTAAAATGACCAAAATAC
1 CC-CTGAAGGTAAAATGACTAAATTAC
*
14350647 CACTGTAAGGTAAAAT
1 CCCTG-AAGGTAAAAT
14350663 AACCGTAATG
Statistics
Matches: 99, Mismatches: 16, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
26 5 0.05
27 81 0.82
28 13 0.13
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.22
Consensus pattern (26 bp):
CCCTGAAGGTAAAATGACTAAATTAC
Found at i:14350567 original size:54 final size:52
Alignment explanation
Indices: 14350508--14350662 Score: 134
Period size: 54 Copynumber: 2.9 Consensus size: 52
14350498 TATTACCGAA
14350508 ATACCCTCGAAGGATAAAATGACTAAATTACCCCTGAAGAGTAAAATGACCAA-
1 ATACCCTCGAAGG-TAAAATGACTAAATTACCCCTGAAG-GTAAAATGACCAAG
* * * * *
14350561 ATTACCCTTGAAAGGTAACATGA-TCGAATTATCCCTGAAGGGTAAAATGACTAAG
1 A-TACCCTCG-AAGGTAAAATGACT-AAATTACCCCTGAA-GGTAAAATGACCAAG
* * * * *
14350616 ATACCCTCTTAGGGTAAAATGACCAAAATACCACTGTAAGGTAAAAT
1 ATACCCTC-GAAGGTAAAATGACTAAATTACCCCTG-AAGGTAAAAT
14350663 AACCGTAATG
Statistics
Matches: 80, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
53 2 0.03
54 70 0.88
55 8 0.10
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.23
Consensus pattern (52 bp):
ATACCCTCGAAGGTAAAATGACTAAATTACCCCTGAAGGTAAAATGACCAAG
Found at i:14350959 original size:32 final size:32
Alignment explanation
Indices: 14350915--14351100 Score: 221
Period size: 32 Copynumber: 5.8 Consensus size: 32
14350905 TGGGATGTTG
* *
14350915 CTGATGGTTTTGTGCTGATCATATTACCGTTA
1 CTGATGGCTTTGTGCCGATCATATTACCGTTA
* *
14350947 CTGATGACTTTGTGCCGATCATATTATCGTTA
1 CTGATGGCTTTGTGCCGATCATATTACCGTTA
* * ** *
14350979 CTGATGGCTGTGTGCCGATCATATCATTGCTA
1 CTGATGGCTTTGTGCCGATCATATTACCGTTA
14351011 CTGATGGCTTTGTGCCGATCATATTACCGTTA
1 CTGATGGCTTTGTGCCGATCATATTACCGTTA
* * * *
14351043 TTGATGG-TTATGTGCCGATCATATCACTGCTA
1 CTGATGGCTT-TGTGCCGATCATATTACCGTTA
* *
14351075 TTGATGGCTTTGTGCCAATCATATTA
1 CTGATGGCTTTGTGCCGATCATATTA
14351101 TTGTATTTAT
Statistics
Matches: 132, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
31 2 0.02
32 128 0.97
33 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (32 bp):
CTGATGGCTTTGTGCCGATCATATTACCGTTA
Found at i:14350999 original size:64 final size:64
Alignment explanation
Indices: 14350915--14351101 Score: 257
Period size: 64 Copynumber: 2.9 Consensus size: 64
14350905 TGGGATGTTG
* * * * * *
14350915 CTGATGGTTTTGTGCTGATCATATTACCGTTACTGATGACTTTGTGCCGATCATATTATCGTTA
1 CTGATGGTTATGTGCCGATCATATCACTGCTACTGATGGCTTTGTGCCGATCATATTATCGTTA
* * * *
14350979 CTGATGGCTGTGTGCCGATCATATCATTGCTACTGATGGCTTTGTGCCGATCATATTACCGTTA
1 CTGATGGTTATGTGCCGATCATATCACTGCTACTGATGGCTTTGTGCCGATCATATTATCGTTA
* * *
14351043 TTGATGGTTATGTGCCGATCATATCACTGCTATTGATGGCTTTGTGCCAATCATATTAT
1 CTGATGGTTATGTGCCGATCATATCACTGCTACTGATGGCTTTGTGCCGATCATATTAT
14351102 TGTATTTATG
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 107 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (64 bp):
CTGATGGTTATGTGCCGATCATATCACTGCTACTGATGGCTTTGTGCCGATCATATTATCGTTA
Found at i:14351080 original size:96 final size:96
Alignment explanation
Indices: 14350915--14351103 Score: 256
Period size: 96 Copynumber: 2.0 Consensus size: 96
14350905 TGGGATGTTG
* * * *
14350915 CTGATGGTTTTGTGCTGATCATATTACCGTTACTGATGACTTTGTGCCGATCATATTATCGTTAC
1 CTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGACTTTGTGCCGATCATATCATCGCTAC
*
14350980 TGATGGCTGTGTGCCGATCATATCATTGCTA
66 TGATGGCTGTGTGCCAATCATATCATTGCTA
* *
14351011 CTGATGGCTTTGTGCCGATCATATTACCGTTATTGATG-GTTATGTGCCGATCATATCA-CTGCT
1 CTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGACTT-TGTGCCGATCATATCATC-GCT
* * *
14351074 ATTGATGGCTTTGTGCCAATCATATTATTG
64 ACTGATGGCTGTGTGCCAATCATATCATTG
14351104 TATTTATGGC
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
95 3 0.04
96 78 0.96
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.40
Consensus pattern (96 bp):
CTGATGGCTTTGTGCCGATCATATTACCGTTACTGATGACTTTGTGCCGATCATATCATCGCTAC
TGATGGCTGTGTGCCAATCATATCATTGCTA
Found at i:14351132 original size:22 final size:21
Alignment explanation
Indices: 14351104--14351176 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
14351094 CATATTATTG
14351104 TATTTATGGCTTGTAGCCATTC
1 TATTTATGGCTT-TAGCCATTC
* * *
14351126 TATTTATAGCTTATAGCTATCC
1 TATTTATGGCTT-TAGCCATTC
* *
14351148 TGTTTACGGCTCTTAGCCATTC
1 TATTTATGGCT-TTAGCCATTC
*
14351170 TAATTAT
1 TATTTAT
14351177 TGGCAGCTTT
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
22 37 0.97
23 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (21 bp):
TATTTATGGCTTTAGCCATTC
Found at i:14353235 original size:12 final size:13
Alignment explanation
Indices: 14353218--14353246 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14353208 GGGTCATAAA
14353218 AGTTGG-AAAATT
1 AGTTGGAAAAATT
14353230 AGTTGGAAAAATT
1 AGTTGGAAAAATT
14353243 AGTT
1 AGTT
14353247 TCTATTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (13 bp):
AGTTGGAAAAATT
Found at i:14354295 original size:25 final size:25
Alignment explanation
Indices: 14354236--14354319 Score: 96
Period size: 26 Copynumber: 3.3 Consensus size: 25
14354226 TGTACTTGAA
* *
14354236 TAGCAGGCTTTGAGCCGATGATTACT
1 TAGCAGGCTTTGAGCCG-GGATTATT
* *
14354262 TAGCAGGCTATGAGCCGGGTTTATT
1 TAGCAGGCTTTGAGCCGGGATTATT
* *
14354287 TAGCAGGCTTTGAGCTGGTGAATATT
1 TAGCAGGCTTTGAGCCGG-GATTATT
14354313 TAGCAGG
1 TAGCAGG
14354320 TATTATGTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 21 0.43
26 28 0.57
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (25 bp):
TAGCAGGCTTTGAGCCGGGATTATT
Found at i:14362227 original size:37 final size:37
Alignment explanation
Indices: 14362186--14362272 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
14362176 TGTCAAGGTG
* *
14362186 TGTTATTGGTTGGATTAGGTCTCATGAGTGTTTGGCA
1 TGTTATTGGTTGGATTAGCTCTCATGAGCGTTTGGCA
* *
14362223 TGTTATTGGTTGGATTAGCTCTTATGAGCGTTTGGCG
1 TGTTATTGGTTGGATTAGCTCTCATGAGCGTTTGGCA
14362260 TGTT-TTGGTTGGA
1 TGTTATTGGTTGGA
14362273 CTACTTGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 9 0.20
37 37 0.80
ACGTcount: A:0.14, C:0.08, G:0.33, T:0.45
Consensus pattern (37 bp):
TGTTATTGGTTGGATTAGCTCTCATGAGCGTTTGGCA
Found at i:14368001 original size:25 final size:25
Alignment explanation
Indices: 14367967--14368015 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
14367957 TGTGTTATTA
14367967 ATTTCCGAGGCAATTGGGAGGAGTG
1 ATTTCCGAGGCAATTGGGAGGAGTG
14367992 ATTTCCGAGGCAATTGGGAGGAGT
1 ATTTCCGAGGCAATTGGGAGGAGT
14368016 ACTTGCCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.39, T:0.24
Consensus pattern (25 bp):
ATTTCCGAGGCAATTGGGAGGAGTG
Found at i:14370773 original size:27 final size:28
Alignment explanation
Indices: 14370741--14370809 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
14370731 TGTATTTCTG
14370741 AGACTGTATCTAAATGGGCTA-AGGCCCA
1 AGACTGTATCTAAATGGGC-ACAGGCCCA
*
14370769 A-ACTG-ATTCTATGATGGGCACAGGCCCA
1 AGACTGTA-TCTA-AATGGGCACAGGCCCA
*
14370797 AGACTGTAGCTAA
1 AGACTGTATCTAA
14370810 CTGAATTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
26 1 0.03
27 9 0.27
28 15 0.45
29 7 0.21
30 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (28 bp):
AGACTGTATCTAAATGGGCACAGGCCCA
Found at i:14375724 original size:11 final size:11
Alignment explanation
Indices: 14375705--14375735 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
14375695 TTAAAGTTAG
*
14375705 AAATTAAATAA
1 AAATCAAATAA
14375716 AAATCAAATAA
1 AAATCAAATAA
14375727 AAATCAAAT
1 AAATCAAAT
14375736 TGCAAACAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATCAAATAA
Found at i:14377672 original size:31 final size:31
Alignment explanation
Indices: 14377637--14377705 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
14377627 CTTAATTGTC
*
14377637 CAATGACTTAAATGAAATGTTTTGAATAGTT
1 CAATGACTTAAATGAAATCTTTTGAATAGTT
*
14377668 CAATGACTTAAGTGAAATCTTTTGAATAGTT
1 CAATGACTTAAATGAAATCTTTTGAATAGTT
14377699 CAATGAC
1 CAATGAC
14377706 CGTTTTGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (31 bp):
CAATGACTTAAATGAAATCTTTTGAATAGTT
Found at i:14384712 original size:31 final size:31
Alignment explanation
Indices: 14384676--14384768 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 31
14384666 TTTGGGTCAA
14384676 GACTAAACTTGACCAATTCAAAAAGTATAGG
1 GACTAAACTTGACCAATTCAAAAAGTATAGG
* *
14384707 GACTAAACTTGACCAATTCAAAAAGTAAAAG
1 GACTAAACTTGACCAATTCAAAAAGTATAGG
* *
14384738 GACTAAACTTGACCGATTTAAAAAGTATAGG
1 GACTAAACTTGACCAATTCAAAAAGTATAGG
14384769 TGTAACAGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.23
Consensus pattern (31 bp):
GACTAAACTTGACCAATTCAAAAAGTATAGG
Found at i:14388866 original size:25 final size:25
Alignment explanation
Indices: 14388838--14388928 Score: 94
Period size: 25 Copynumber: 3.6 Consensus size: 25
14388828 CGTATAAGCA
*
14388838 TACCGATTTATAGCTCGTGAGAGCT
1 TACCGATTCATAGCTCGTGAGAGCT
* *
14388863 TACCAATTC-TCAGCTCGTGTGAGCT
1 TACCGATTCAT-AGCTCGTGAGAGCT
** * *
14388888 TTTCGATTCATAGCTCATGAGAGCA
1 TACCGATTCATAGCTCGTGAGAGCT
*
14388913 TATCGATTCATAGCTC
1 TACCGATTCATAGCTC
14388929 ATATGAACAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.96
26 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (25 bp):
TACCGATTCATAGCTCGTGAGAGCT
Found at i:14388939 original size:25 final size:25
Alignment explanation
Indices: 14388890--14388939 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
14388880 TGTGAGCTTT
*
14388890 TCGATTCATAGCTCATGAGAGCATA
1 TCGATTCATAGCTCATGAGAACATA
14388915 TCGATTCATAGCTCAT-ATGAACATA
1 TCGATTCATAGCTCATGA-GAACATA
14388940 CATGTATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (25 bp):
TCGATTCATAGCTCATGAGAACATA
Found at i:14393991 original size:359 final size:359
Alignment explanation
Indices: 14393332--14394052 Score: 1343
Period size: 359 Copynumber: 2.0 Consensus size: 359
14393322 AAGTTTTAAG
* *
14393332 AAGCTCAAATATCAAACATTTTCAACTTCAAGAAGAGATTCATAGCCTACGAGTTTCAGGCGTGA
1 AAGCTCAAATATCAAACATTTTAAACTTCAAGAAGAGATTCATAGCCTACGAGTTTCAGGCATGA
14393397 AGGATTTAGTAGATCAACTATTTTTATGGCAAGCTCTAGAGGGTCTAGAGTAATAAGAAATGTTA
66 AGGATTTAGTAGATCAACTATTTTTATGGCAAGCTCTAGAGGGTCTAGAGTAATAAGAAATGTTA
*
14393462 ACTATGAACACTTCGGTAGAAGCCATGGAGGAGAATGTTGGAGACGTTCTGGGGCATGTTTCGGA
131 ACTATGAACACTTCGGTAGAAGCCATGGAGGAGAATGTTGGAGACGTTCTGAGGCATGTTTCGGA
* *
14393527 TATGGATCCAAGGATCAGTTGATTAAGGGTTGTCCCTCCAAGATAGAAGCAAGCATAGAGCAGTC
196 TATGGATCCAAGGATCAGTTGATTAAGGATTGTCCCTCCAAGATAGAAGCAAGCACAGAGCAGTC
*
14393592 TATTCATGGGCCTTAGAAGTTTCAGTAAGAGACCAGATCTGGAGTGGCAACAAAGTCTGGCTCAA
261 TATTCATGGGCCCTAGAAGTTTCAGTAAGAGACCAGATCTGGAGTGGCAACAAAGTCTGGCTCAA
* *
14393657 TGCAAGGAGCACTAAGGAAAAATTCTAGTAAGTC
326 TGCAAGGAGCACTAAGAAAAAATCCTAGTAAGTC
14393691 AAGCTCAAATATCAAACATTTTAAACTTCAAGAAGAGATTCATAGCCTACGAGTTTCAGGCATGA
1 AAGCTCAAATATCAAACATTTTAAACTTCAAGAAGAGATTCATAGCCTACGAGTTTCAGGCATGA
14393756 AGGATTTAGTAGATCAACTATTTTTATGGCAAGCTCTAGAGGGTCTAGAGTAATAAGAAATGTTA
66 AGGATTTAGTAGATCAACTATTTTTATGGCAAGCTCTAGAGGGTCTAGAGTAATAAGAAATGTTA
*
14393821 ACTATGAACACTTCGGTAGAAGCTATGGAGGAGAATGTTGGAGACGTTCTGAGGCATGTTTCGGA
131 ACTATGAACACTTCGGTAGAAGCCATGGAGGAGAATGTTGGAGACGTTCTGAGGCATGTTTCGGA
*
14393886 TATGGATCCAAGGATCATTTGATTAAGGATTGTCCCTCCAAGATAGAAGCAAGCACAGAGCAGTC
196 TATGGATCCAAGGATCAGTTGATTAAGGATTGTCCCTCCAAGATAGAAGCAAGCACAGAGCAGTC
14393951 TATTCATGGGCCCTAGAAGTTTCAGTAAGAGACCAGATCTGGAGTGGCAACAAAGTCTGGCTCAA
261 TATTCATGGGCCCTAGAAGTTTCAGTAAGAGACCAGATCTGGAGTGGCAACAAAGTCTGGCTCAA
*
14394016 TGCAAGGAGCATTAAGAAAAAATCCTAGTAAGTC
326 TGCAAGGAGCACTAAGAAAAAATCCTAGTAAGTC
14394050 AAG
1 AAG
14394053 TTCTTGAGTG
Statistics
Matches: 351, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
359 351 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (359 bp):
AAGCTCAAATATCAAACATTTTAAACTTCAAGAAGAGATTCATAGCCTACGAGTTTCAGGCATGA
AGGATTTAGTAGATCAACTATTTTTATGGCAAGCTCTAGAGGGTCTAGAGTAATAAGAAATGTTA
ACTATGAACACTTCGGTAGAAGCCATGGAGGAGAATGTTGGAGACGTTCTGAGGCATGTTTCGGA
TATGGATCCAAGGATCAGTTGATTAAGGATTGTCCCTCCAAGATAGAAGCAAGCACAGAGCAGTC
TATTCATGGGCCCTAGAAGTTTCAGTAAGAGACCAGATCTGGAGTGGCAACAAAGTCTGGCTCAA
TGCAAGGAGCACTAAGAAAAAATCCTAGTAAGTC
Found at i:14400170 original size:30 final size:31
Alignment explanation
Indices: 14400110--14400170 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
14400100 TTTATGCATA
*
14400110 TTCCCTTAAATTTTCATTATTTTTACAATTT
1 TTCCCTTAAATTTTCATTATCTTTACAATTT
14400141 TTCCC-TAAACTTTTGCATT-TCTTT-CAATTT
1 TTCCCTTAAA-TTTT-CATTATCTTTACAATTT
14400171 AGCCCCTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 10 0.37
31 13 0.48
32 4 0.15
ACGTcount: A:0.23, C:0.20, G:0.02, T:0.56
Consensus pattern (31 bp):
TTCCCTTAAATTTTCATTATCTTTACAATTT
Found at i:14400636 original size:17 final size:17
Alignment explanation
Indices: 14400614--14400650 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14400604 GCTTAATTCC
* *
14400614 TTTTCTTTTTCTTTTTA
1 TTTTCTTTTTATTATTA
14400631 TTTTCTTTTTATTATTA
1 TTTTCTTTTTATTATTA
14400648 TTT
1 TTT
14400651 AACTTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTTATTATTA
Found at i:14401307 original size:24 final size:24
Alignment explanation
Indices: 14401280--14401331 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14401270 TTAGTAAGTC
*
14401280 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14401304 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14401328 AAAT
1 AAAT
14401332 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14402907 original size:32 final size:32
Alignment explanation
Indices: 14402871--14402932 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
14402861 ACAAATCAAG
14402871 GCATTACCAACTGATACGAGTCACAAAGGCAT
1 GCATTACCAACTGATACGAGTCACAAAGGCAT
14402903 GCATTACCAACTGATACGAGTCACAAAGGC
1 GCATTACCAACTGATACGAGTCACAAAGGC
14402933 CTTAGGATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (32 bp):
GCATTACCAACTGATACGAGTCACAAAGGCAT
Found at i:14410247 original size:20 final size:20
Alignment explanation
Indices: 14410222--14410262 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14410212 TTTTCCGAGC
14410222 TTTTGAAGGGACTTGACCTT
1 TTTTGAAGGGACTTGACCTT
14410242 TTTTGAAGGGACTTGACCTT
1 TTTTGAAGGGACTTGACCTT
14410262 T
1 T
14410263 AAGTAAACGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (20 bp):
TTTTGAAGGGACTTGACCTT
Found at i:14416677 original size:18 final size:18
Alignment explanation
Indices: 14416656--14416708 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
14416646 GCTGATGAAA
14416656 AAGATATAGGTGAGGAAC
1 AAGATATAGGTGAGGAAC
* * *
14416674 AAGATAT-GATCGATGAAG
1 AAGATATAGGT-GAGGAAC
*
14416692 AAGATGTAGGTGAGGAA
1 AAGATATAGGTGAGGAA
14416709 TAAGGGACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.34, T:0.19
Consensus pattern (18 bp):
AAGATATAGGTGAGGAAC
Found at i:14420222 original size:24 final size:24
Alignment explanation
Indices: 14420194--14420245 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
14420184 TTAGTAAGCC
* *
14420194 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14420218 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14420242 AAAT
1 AAAT
14420246 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14428632 original size:4 final size:4
Alignment explanation
Indices: 14428623--14428654 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
14428613 ATATATGTGA
14428623 ATGT ATGT ATGT ATGT ATGT ATGT AATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT -ATGT ATG
14428655 CTGCCCTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:14428640 original size:12 final size:13
Alignment explanation
Indices: 14428616--14428654 Score: 62
Period size: 12 Copynumber: 3.0 Consensus size: 13
14428606 AGAAAACATA
14428616 TATGTGAATGTATG
1 TATGT-AATGTATG
14428630 TATGT-ATGTATG
1 TATGTAATGTATG
14428642 TATGTAATGTATG
1 TATGTAATGTATG
14428655 CTGCCCTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.50
13 7 0.29
14 5 0.21
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (13 bp):
TATGTAATGTATG
Found at i:14429515 original size:20 final size:22
Alignment explanation
Indices: 14429477--14429521 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
14429467 AAACGAACTT
*
14429477 TTTATTTTATTTTTCTTTCAAA
1 TTTATTTTATTTATCTTTCAAA
*
14429499 TTTATTTT-TTTAT-TTTCTAA
1 TTTATTTTATTTATCTTTCAAA
14429519 TTT
1 TTT
14429522 TTACTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTATTTTATTTATCTTTCAAA
Found at i:14435614 original size:20 final size:20
Alignment explanation
Indices: 14435589--14435629 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14435579 ATTTTAATTC
14435589 TAAAAAAT-ATAAAATATATT
1 TAAAAAATCATAAAA-ATATT
*
14435609 TAAAAAATCTTAAAAATATT
1 TAAAAAATCATAAAAATATT
14435629 T
1 T
14435630 TTACATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAAATCATAAAAATATT
Found at i:14444121 original size:89 final size:89
Alignment explanation
Indices: 14443970--14444147 Score: 320
Period size: 89 Copynumber: 2.0 Consensus size: 89
14443960 TTAATTAGGG
*
14443970 GCAGCCACCGTCCATTTTATCCACTAGAAAAGAGCCATGTAAATTGTGCTTTTATTGAGAAATGG
1 GCAGCCACCGTCCATTTCATCCACTAGAAAAGAGCCATGTAAATTGTGCTTTTATTGAGAAATGG
*
14444035 TAACCATAAAGTTTCTATCAATTT
66 TAACCATAAAGTTTCTATAAATTT
* *
14444059 GCAGCCACCGTCCGTTTCATCCACTAGAAAAGAGCCATGTAAATTGTGCTTTTATTGAGAAATGT
1 GCAGCCACCGTCCATTTCATCCACTAGAAAAGAGCCATGTAAATTGTGCTTTTATTGAGAAATGG
14444124 TAACCATAAAGTTTCTATAAATTT
66 TAACCATAAAGTTTCTATAAATTT
14444148 TTTAATAAAG
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (89 bp):
GCAGCCACCGTCCATTTCATCCACTAGAAAAGAGCCATGTAAATTGTGCTTTTATTGAGAAATGG
TAACCATAAAGTTTCTATAAATTT
Found at i:14447368 original size:31 final size:30
Alignment explanation
Indices: 14447311--14447369 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
14447301 AAACAAACAT
*
14447311 ACAAAAATTAAAATTAATTAATAAAAAAATA
1 ACAAAAATTAAAATT-ATTAAAAAAAAAATA
*
14447342 ACAAAAATTTAAAATT-TTGAAAAAAAAA
1 ACAAAAA-TTAAAATTATTAAAAAAAAAA
14447370 CTTGAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 7 0.28
32 8 0.32
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.25
Consensus pattern (30 bp):
ACAAAAATTAAAATTATTAAAAAAAAAATA
Found at i:14450068 original size:9 final size:9
Alignment explanation
Indices: 14450054--14450090 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14450044 TATAGTTTGA
14450054 TATTCGAAT
1 TATTCGAAT
14450063 TATTCGAAT
1 TATTCGAAT
*
14450072 TATTCGAGT
1 TATTCGAAT
*
14450081 TATTTGAAT
1 TATTCGAAT
14450090 T
1 T
14450091 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14450831 original size:19 final size:17
Alignment explanation
Indices: 14450782--14450832 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
14450772 TTTTAATGGT
14450782 TAAA-TAAGTAAATTAG
1 TAAATTAAGTAAATTAG
*
14450798 TAAATAAATGATAAATTAAG
1 TAAATTAA-G-TAAATT-AG
14450818 TAAAATTAAGTAAAT
1 T-AAATTAAGTAAAT
14450833 GTATCATCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 4 0.14
17 2 0.07
18 1 0.04
19 11 0.39
20 4 0.14
21 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
TAAATTAAGTAAATTAG
Found at i:14451705 original size:42 final size:41
Alignment explanation
Indices: 14451646--14451724 Score: 113
Period size: 42 Copynumber: 1.9 Consensus size: 41
14451636 GATACGTATG
* *
14451646 TTGTGTAAGACCATGTCTGGGACATTGGCATCGCATATGATT
1 TTGTGTAAAACCATGTCTGGGACAATGGCATCG-ATATGATT
* *
14451688 TTGTGTAAAACCCTGTCTGGGATAATGGCATCGATAT
1 TTGTGTAAAACCATGTCTGGGACAATGGCATCGATAT
14451725 ATTATAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 4 0.12
42 29 0.88
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
TTGTGTAAAACCATGTCTGGGACAATGGCATCGATATGATT
Found at i:14452336 original size:23 final size:23
Alignment explanation
Indices: 14452306--14452405 Score: 87
Period size: 23 Copynumber: 4.3 Consensus size: 23
14452296 GATAAGATGT
14452306 TGTCCAAATTAGTGCTTAAATGC
1 TGTCCAAATTAGTGCTTAAATGC
*
14452329 TGTCCAAATT-GATGCTTAATTGC
1 TGTCCAAATTAG-TGCTTAAATGC
** * *
14452352 TGTCCATTGTTGAGT-ATATTAATGC
1 TGTCCA-AATT-AGTGCT-TAAATGC
* *
14452377 TGTCCAAATTGGTGCTTAAATGT
1 TGTCCAAATTAGTGCTTAAATGC
14452400 TGTCCA
1 TGTCCA
14452406 TTTTTGTACA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
22 1 0.02
23 39 0.66
24 6 0.10
25 12 0.20
26 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (23 bp):
TGTCCAAATTAGTGCTTAAATGC
Found at i:14452424 original size:48 final size:48
Alignment explanation
Indices: 14452324--14452425 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
14452314 TTAGTGCTTA
* * * *
14452324 AATGCTGTCCAAATTGATGCTTAATTGCTGTCCATTGTTGAGTATATT
1 AATGCTGTCCAAATTGATGCTTAAATGCTGTCCATTGTTGAGCAAATC
* * *
14452372 AATGCTGTCCAAATTGGTGCTTAAATGTTGTCCATTTTTGTA-CAAATC
1 AATGCTGTCCAAATTGATGCTTAAATGCTGTCCATTGTTG-AGCAAATC
14452420 AATGCT
1 AATGCT
14452426 ATCCGAATGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
48 45 0.98
49 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (48 bp):
AATGCTGTCCAAATTGATGCTTAAATGCTGTCCATTGTTGAGCAAATC
Found at i:14454686 original size:20 final size:20
Alignment explanation
Indices: 14454661--14454699 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
14454651 GGCCGAGTAA
14454661 CACTGCAGTTAGAGGTAGAC
1 CACTGCAGTTAGAGGTAGAC
14454681 CACTGCAGTTAGAGGTAGA
1 CACTGCAGTTAGAGGTAGA
14454700 ACACCCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.21
Consensus pattern (20 bp):
CACTGCAGTTAGAGGTAGAC
Found at i:14458563 original size:20 final size:21
Alignment explanation
Indices: 14458538--14458589 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
14458528 TTTTTAATGG
14458538 TTAAATAAGTAAATT-AGTAA
1 TTAAATAAGTAAATTAAGTAA
*
14458558 TTAAATGA-TAAATTAAGTAA
1 TTAAATAAGTAAATTAAGTAA
*
14458578 --AATTAAGTAAAT
1 TTAAATAAGTAAAT
14458590 GTATCATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.15
19 11 0.41
20 12 0.44
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.35
Consensus pattern (21 bp):
TTAAATAAGTAAATTAAGTAA
Found at i:14460327 original size:23 final size:22
Alignment explanation
Indices: 14460292--14460375 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 22
14460282 TTTTAGCATA
*
14460292 TTAATGCTATCCAAATTGATGC
1 TTAATGCTGTCCAAATTGATGC
** **
14460314 TTAATTGCTGTCCATTGTTGAGTATA
1 TTAA-TGCTGTCCA-AATTGA-T-GC
*
14460340 TTAATGCTGTCCAAATTGGTGC
1 TTAATGCTGTCCAAATTGATGC
14460362 TTAAATGCTGTCCA
1 TT-AATGCTGTCCA
14460376 TTTTTGTACA
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
22 6 0.13
23 20 0.43
24 7 0.15
25 10 0.21
26 4 0.09
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (22 bp):
TTAATGCTGTCCAAATTGATGC
Found at i:14460399 original size:48 final size:49
Alignment explanation
Indices: 14460251--14460383 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 49
14460241 GATAAGATGT
*
14460251 TGTCCAAATTAGTGCTTAAATGCTGTCCATTTTT-TAGCATATTAATGC
1 TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTAGCATATTAATGC
* * * * *
14460299 TATCCAAATTGATGCTTAATTGCTGTCCATTGTTG-AGTATATTAATGC
1 TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTAGCATATTAATGC
14460347 TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTA
1 TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTA
14460384 CAAATCAATG
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
48 72 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.42
Consensus pattern (49 bp):
TGTCCAAATTGGTGCTTAAATGCTGTCCATTTTTGTAGCATATTAATGC
Done.