Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 45 of 207
Found at i:13152023 original size:133 final size:129
Alignment explanation
Indices: 13151643--13152047 Score: 385
Period size: 133 Copynumber: 3.1 Consensus size: 129
13151633 AAGATGGAAA
* * * *
13151643 ATCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTGAAGCCAATAATCCTATCCCCCTGAAGTTGC
1 ATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGCTAATAATCCTATCTCCCTGAAGTTGC
* ** *
13151708 AGTGGAGTGGATTAAAGTAATAGATCTTATCTCTCTGAA---GCAGTAGAGTAGATCGCATCA-
66 AGAGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGAATCAG
* * * * * * * *
13151768 AGTCTTATCTCCCTGAGGTTACAGCGGAGCAGACTG-AG-TAAGCAGGTCTTATCTCCCTGAGGT
1 A-TCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGCTAA-TA-ATCCTATCTCCCTGAAGT
* * * * * * * * * * *
13151831 TACAGCGGAGCAGACT-GAGTAAGCAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCGAAG
63 TGCAGAGGAGCAGATTAAAGTAA-TAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGAA-
13151895 TTGGCAG
126 -T--CAG
* * * *
13151902 ATCTTATCTCCCTAAGGTTGCAGTGGAGTAGATTGAAGCTGATAATCCTATCTCTCTGAAGTTGT
1 ATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGCTAATAATCCTATCTCCCTGAAGTTGC
* *
13151967 AGAGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCGCATCAG
66 AGAGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGAATCAG
13152031 -TCTTATCTCCCTAAGGT
1 ATCTTATCTCCCTAAGGT
13152048 CACTGCGGAG
Statistics
Matches: 216, Mismatches: 49, Indels: 27
0.74 0.17 0.09
Matches are distributed among these distances:
124 2 0.01
125 9 0.04
126 70 0.32
128 17 0.08
129 17 0.08
131 2 0.01
133 88 0.41
134 9 0.04
135 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (129 bp):
ATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGCTAATAATCCTATCTCCCTGAAGTTGC
AGAGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGAATCAG
Found at i:13152156 original size:216 final size:215
Alignment explanation
Indices: 13151810--13152407 Score: 810
Period size: 216 Copynumber: 2.7 Consensus size: 215
13151800 ACTGAGTAAG
* * *
13151810 CAGGTCTTATCTCCCTGAGGTTACAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGT
1 CAGGTCTTATCTCCCTAAGGTCAC-GCGGAGAAGACTGAGTAAGCAGGTCTTATCCCCCT-AAG-
* * * * * *
13151875 TGCAGTGGGGCAGATCGAAGTTGGCAGATCTTATCTCCCTAAGGTTGCAGTGGAGTAGATTGAAG
63 AGTAGTGGGGCAGATCGAAGATGGCAAATATTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAG
* *
13151940 CTGATAATCCTATCTCTCTGAAGTTGTAGAGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGA
128 CTGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGA
*
13152005 AGTTGTAGTAGAGTAGATCGCAT
193 AGTTGCAGTAGAGTAGATCGCAT
* *
13152028 CA-GTCTTATCTCCCTAAGGTCACTGCGGAGAAGACTGAGTAAGCAGATCTTATCTCCCTAAGCA
1 CAGGTCTTATCTCCCTAAGGTCAC-GCGGAGAAGACTGAGTAAGCAGGTCTTATCCCCCTAAG-A
* * **
13152092 GTAGTGGAGCAGATTGAAGATGAAAAATATTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGC
64 GTAGTGGGGCAGATCGAAGATGGCAAATATTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGC
* *
13152157 CGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAA
129 TGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAA
*
13152222 GTTGCAGTAGAGTGGATCGCAT
194 GTTGCAGTAGAGTAGATCGCAT
* *
13152244 CAGGTCTTATCTCCCTGAAGTTGCA-GCGGAGTAGACTGAGTAAGCAGGTCTTATCCCCCTAA-A
1 CAGGTCTTATCTCCCT-AAGGT-CACGCGGAGAAGACTGAGTAAGCAGGTCTTATCCCCCTAAGA
* * *
13152307 GTTACAGTGGGGCAGATCGAATATGGCAAATGTTATCTCCCTGAGGTTGCAAG-GGAGCAGATTG
64 G-T--AGTGGGGCAGATCGAAGATGGCAAATATTATCTCCCTGAGGTTGC-AGTGGAGTAGATTG
*
13152371 AAG-TCGATAATCCTATCTCCCTGACGTTGTAGTGGAG
125 AAGCT-GATAATCCTATCTCCCTGAAGTTGTAGTGGAG
13152408 TGGATCGAAG
Statistics
Matches: 336, Mismatches: 36, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
215 2 0.01
216 143 0.43
217 98 0.29
218 89 0.26
219 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (215 bp):
CAGGTCTTATCTCCCTAAGGTCACGCGGAGAAGACTGAGTAAGCAGGTCTTATCCCCCTAAGAGT
AGTGGGGCAGATCGAAGATGGCAAATATTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGCTG
ATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAAGT
TGCAGTAGAGTAGATCGCAT
Found at i:13153932 original size:23 final size:22
Alignment explanation
Indices: 13153905--13153964 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
13153895 TGACATTACC
13153905 TTTAAACTTATTATTAATATAAT
1 TTTAAA-TTATTATTAATATAAT
* *
13153928 TTTAAAATGTAATA-TAATATTAT
1 TTT-AAAT-TATTATTAATATAAT
13153951 TTTAAATTATTATT
1 TTTAAATTATTATT
13153965 GACATGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.13
22 5 0.16
23 15 0.48
24 7 0.23
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTAAATTATTATTAATATAAT
Found at i:13153995 original size:21 final size:22
Alignment explanation
Indices: 13153946--13153995 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
13153936 GTAATATAAT
*
13153946 ATTATTTTAAATTATTATTGAC
1 ATTATTTTAAATTATCATTGAC
*
13153968 A-TGTTTTAAATTTATCA-T-AC
1 ATTATTTTAAA-TTATCATTGAC
13153988 ATTATTTT
1 ATTATTTT
13153996 TTTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
20 3 0.13
21 14 0.61
22 6 0.26
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (22 bp):
ATTATTTTAAATTATCATTGAC
Found at i:13155272 original size:9 final size:9
Alignment explanation
Indices: 13155258--13155677 Score: 291
Period size: 9 Copynumber: 50.2 Consensus size: 9
13155248 AAAAAACAAA
13155258 AACTTACAT
1 AACTTACAT
13155267 AACTTACAT
1 AACTTACAT
*
13155276 AA--TATCCT
1 AACTTA-CAT
*
13155284 -ACATA-AT
1 AACTTACAT
13155291 AACTTACAT
1 AACTTACAT
13155300 AA-TAATACAT
1 AACT--TACAT
*
13155310 AACCTACAT
1 AACTTACAT
* *
13155319 AAATTAAAT
1 AACTTACAT
*
13155328 AAGTTACAT
1 AACTTACAT
*
13155337 AA--TACAC
1 AACTTACAT
** *
13155344 AA-AAACAAA
1 AACTTAC-AT
13155353 AACTTACAT
1 AACTTACAT
13155362 AACTTACAT
1 AACTTACAT
13155371 AA--TACAT
1 AACTTACAT
13155378 AACTTACAT
1 AACTTACAT
* *
13155387 AACCTACTT
1 AACTTACAT
13155396 AA--TACAT
1 AACTTACAT
13155403 AACTTACAT
1 AACTTACAT
*
13155412 AA--TACAC
1 AACTTACAT
13155419 AACTTACAT
1 AACTTACAT
13155428 AACTTACAT
1 AACTTACAT
*
13155437 AACTTATAT
1 AACTTACAT
*
13155446 AA--GAC--
1 AACTTACAT
13155451 AACTTACAT
1 AACTTACAT
* *
13155460 AATTTACTT
1 AACTTACAT
13155469 AA--TACAT
1 AACTTACAT
13155476 AACTTACAT
1 AACTTACAT
13155485 AA--TACAT
1 AACTTACAT
*
13155492 AGCTTACAT
1 AACTTACAT
*
13155501 AACCTACAT
1 AACTTACAT
*
13155510 AA--GACAT
1 AACTTACAT
13155517 AACTTACAT
1 AACTTACAT
* *
13155526 AAGTTTCAT
1 AACTTACAT
*
13155535 AA--TACAC
1 AACTTACAT
13155542 AACTTACAT
1 AACTTACAT
13155551 AACTTACAT
1 AACTTACAT
13155560 AA--TACAT
1 AACTTACAT
13155567 AACTTACAT
1 AACTTACAT
* *
13155576 AATTTACTT
1 AACTTACAT
13155585 AA--TACAT
1 AACTTACAT
13155592 AACTTACAT
1 AACTTACAT
13155601 AACTTACAT
1 AACTTACAT
13155610 AA--TACAT
1 AACTTACAT
13155617 AACTTACAT
1 AACTTACAT
* *
13155626 AATTTACTT
1 AACTTACAT
13155635 AA--TACAT
1 AACTTACAT
13155642 AACTTACAT
1 AACTTACAT
* *
13155651 AATTTACTT
1 AACTTACAT
13155660 AA--TACAT
1 AACTTACAT
13155667 AACTTACAT
1 AACTTACAT
13155676 AA
1 AA
13155678 ATATATGATG
Statistics
Matches: 326, Mismatches: 46, Indels: 78
0.72 0.10 0.17
Matches are distributed among these distances:
5 2 0.01
7 87 0.27
8 9 0.03
9 219 0.67
10 9 0.03
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:13155288 original size:12 final size:12
Alignment explanation
Indices: 13155265--13155304 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
13155255 AAAAACTTAC
*
13155265 ATAACTTACATA
1 ATAACCTACATA
*
13155277 ATATCCTACATA
1 ATAACCTACATA
*
13155289 ATAACTTACATA
1 ATAACCTACATA
13155301 ATAA
1 ATAA
13155305 TACATAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAACCTACATA
Found at i:13155378 original size:16 final size:16
Alignment explanation
Indices: 13155357--13155677 Score: 203
Period size: 16 Copynumber: 20.0 Consensus size: 16
13155347 AACAAAAACT
13155357 TACATAACTTACATAA
1 TACATAACTTACATAA
13155373 TACATAACTTACAT-A
1 TACATAACTTACATAA
*
13155388 -AC----C-TACTTAA
1 TACATAACTTACATAA
13155398 TACATAACTTACATAA
1 TACATAACTTACATAA
*
13155414 TACACAACTTACATAA
1 TACATAACTTACATAA
*
13155430 CTTACATAACTTATATAA
1 --TACATAACTTACATAA
*
13155448 GAC--AACTTACATAA
1 TACATAACTTACATAA
*
13155462 TTTACTTAA--TACATAA
1 --TACATAACTTACATAA
*
13155478 CTTACATAA--TACATAGCT
1 --TACATAACTTACATA--A
*
13155496 TACATAACCTACATAA
1 TACATAACTTACATAA
*
13155512 GACATAACTTACATAA
1 TACATAACTTACATAA
* *
13155528 GTTTCATAA--TACACAA
1 --TACATAACTTACATAA
13155544 CTTACATAACTTACATAA
1 --TACATAACTTACATAA
13155562 TACATAACTTACATAA
1 TACATAACTTACATAA
*
13155578 TTTACTTAA--TACATAA
1 --TACATAACTTACATAA
13155594 CTTACATAACTTACATAA
1 --TACATAACTTACATAA
13155612 TACATAACTTACATAA
1 TACATAACTTACATAA
*
13155628 TTTACTTAA--TACATAA
1 --TACATAACTTACATAA
* *
13155644 CTTACATAATTTACTTAA
1 --TACATAACTTACATAA
13155662 TACATAACTTACATAA
1 TACATAACTTACATAA
13155678 ATATATGATG
Statistics
Matches: 247, Mismatches: 29, Indels: 58
0.74 0.09 0.17
Matches are distributed among these distances:
9 4 0.02
10 2 0.01
11 2 0.01
14 12 0.05
15 2 0.01
16 167 0.68
18 58 0.23
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:13155381 original size:25 final size:24
Alignment explanation
Indices: 13155326--13155677 Score: 302
Period size: 25 Copynumber: 14.2 Consensus size: 24
13155316 CATAAATTAA
* * **
13155326 ATAAGTTACATAATACACAAAAAC
1 ATAACTTACATAATACATAACTAC
*
13155350 AAAAACTTACATAACTTACATAA-TAC
1 -ATAACTTACATAA--TACATAACTAC
*
13155376 ATAACTTACATAACCTACTTAA-TAC
1 ATAACTTACATAA--TACATAACTAC
*
13155401 ATAACTTACATAATACACAACTTAC
1 ATAACTTACATAATACATAAC-TAC
* *
13155426 ATAACTTACATAACTTATATAA-GAC
1 ATAACTTACATAA--TACATAACTAC
*
13155451 --AACTTACATAATTTACTTAA-TAC
1 ATAACTTACATAA--TACATAACTAC
*
13155474 ATAACTTACATAATACATAGCTTAC
1 ATAACTTACATAATACATAAC-TAC
* *
13155499 ATAACCTACATAAGACATAACTTAC
1 ATAACTTACATAATACATAAC-TAC
* * *
13155524 ATAAGTTTCATAATACACAACTTAC
1 ATAACTTACATAATACATAAC-TAC
13155549 ATAACTTACATAATACATAACTTAC
1 ATAACTTACATAATACATAAC-TAC
* *
13155574 ATAATTTACTTAATACATAACTTAC
1 ATAACTTACATAATACATAAC-TAC
13155599 ATAACTTACATAATACATAACTTAC
1 ATAACTTACATAATACATAAC-TAC
* *
13155624 ATAATTTACTTAATACATAACTTAC
1 ATAACTTACATAATACATAAC-TAC
* *
13155649 ATAATTTACTTAATACATAACTTAC
1 ATAACTTACATAATACATAAC-TAC
13155674 ATAA
1 ATAA
13155678 ATATATGATG
Statistics
Matches: 282, Mismatches: 35, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
23 29 0.10
25 240 0.85
26 2 0.01
27 11 0.04
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (24 bp):
ATAACTTACATAATACATAACTAC
Found at i:13155409 original size:50 final size:50
Alignment explanation
Indices: 13155353--13155677 Score: 381
Period size: 50 Copynumber: 6.7 Consensus size: 50
13155343 CAAAAACAAA
*
13155353 AACTTACATAACTTACATAATACATAACTTACATAACCTACTTAATACAT
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
* *
13155403 AACTTACATAA--TACACAACTTACATAACTTACATAACTTA-TATAAGAC--
1 AACTTACATAACTTACATAA--TACATAACTTACATAACTTACT-TAATACAT
* *
13155451 AACTTACATAA--T---T--TACTTAA--TACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
* * * * * * *
13155492 AGCTTACATAACCTACATAAGACATAACTTACATAAGTTTCATAATACAC
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
*
13155542 AACTTACATAACTTACATAATACATAACTTACATAATTTACTTAATACAT
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
*
13155592 AACTTACATAACTTACATAATACATAACTTACATAATTTACTTAATACAT
1 AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
* *
13155642 AACTTACATAATTTACTTAATACATAACTTACATAA
1 AACTTACATAACTTACATAATACATAACTTACATAA
13155678 ATATATGATG
Statistics
Matches: 238, Mismatches: 22, Indels: 30
0.82 0.08 0.10
Matches are distributed among these distances:
39 16 0.07
41 16 0.07
43 1 0.00
46 1 0.00
48 23 0.10
49 1 0.00
50 180 0.76
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (50 bp):
AACTTACATAACTTACATAATACATAACTTACATAACTTACTTAATACAT
Found at i:13155458 original size:32 final size:34
Alignment explanation
Indices: 13155230--13155677 Score: 228
Period size: 34 Copynumber: 13.4 Consensus size: 34
13155220 GACAAATTAA
* *** *
13155230 ATAAGTTACATAATACACAAAAAACAAAAACTTAC
1 ATAACTTACATAATACACAACTTAC-ATAACTTAC
* *
13155265 ATAACTTACATAATATC-CTACATA-ATAACTTAC
1 ATAACTTACATAATA-CACAACTTACATAACTTAC
* *
13155298 ATAA--TA-ATACATA-AC--C-TACATAAATTAA
1 ATAACTTACATA-ATACACAACTTACATAACTTAC
* ** *
13155326 ATAAGTTACATAATACACAA-AAACAAAAACTTAC
1 ATAACTTACATAATACACAACTTAC-ATAACTTAC
*
13155360 ATAACTTACATAATACATAACTTACATAACCTACTTAATAC
1 ATAACTTACATAATACACAACTTACAT-A---AC-T--TAC
13155401 ATAACTTACATAATACACAACTTACATAACTTAC
1 ATAACTTACATAATACACAACTTACATAACTTAC
* * *
13155435 ATAACTTATAT-A-AGACAACTTACATAATTTAC
1 ATAACTTACATAATACACAACTTACATAACTTAC
* * *
13155467 TTAA--TACATAACTTACATAA--TACATAGCTTAC
1 ATAACTTACATAA--TACACAACTTACATAACTTAC
* * * * *
13155499 ATAACCTACATAAGACATAACTTACATAAGTTTC
1 ATAACTTACATAATACACAACTTACATAACTTAC
* *
13155533 ATAA--TACACAACTTACATAACTTACATAA--TAC
1 ATAACTTACATAA--TACACAACTTACATAACTTAC
**
13155565 ATAACTTACATAATTTACTTAA--TACATAACTTAC
1 ATAACTTACATAA--TACACAACTTACATAACTTAC
* *
13155599 ATAACTTACATAATACATAACTTACATAATTTAC
1 ATAACTTACATAATACACAACTTACATAACTTAC
* * * *
13155633 TTAA--TACATAACTTACATAATTTACTTAA--TAC
1 ATAACTTACATAA--TACACAACTTACATAACTTAC
13155665 ATAACTTACATAA
1 ATAACTTACATAA
13155678 ATATATGATG
Statistics
Matches: 330, Mismatches: 43, Indels: 81
0.73 0.09 0.18
Matches are distributed among these distances:
27 2 0.01
28 12 0.04
30 13 0.04
31 11 0.03
32 78 0.24
33 15 0.05
34 141 0.43
35 21 0.06
36 2 0.01
37 2 0.01
38 2 0.01
39 1 0.00
40 1 0.00
41 29 0.09
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.31
Consensus pattern (34 bp):
ATAACTTACATAATACACAACTTACATAACTTAC
Found at i:13161229 original size:21 final size:21
Alignment explanation
Indices: 13161203--13161253 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
13161193 CTACAACTTA
*
13161203 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
*
13161224 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
*
13161245 AAGTAGAGG
1 AAGCAGAGG
13161254 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.47, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:13161314 original size:87 final size:87
Alignment explanation
Indices: 13161163--13161328 Score: 251
Period size: 87 Copynumber: 1.9 Consensus size: 87
13161153 GACCATAGTT
* * **
13161163 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGACAGCGAAAGAAGC
* *
13161228 AGAGGCTGCAGCGAGAGAAGTA
66 AGACGCTACAGCGAGAGAAGTA
* * *
13161250 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGTAGATGCGACATCGAAAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGACAGCGAAAGAAGC
13161315 AGACGCTACAGCGA
66 AGACGCTACAGCGA
13161329 AGGAAGCAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.40, C:0.18, G:0.28, T:0.13
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGACAGCGAAAGAAGC
AGACGCTACAGCGAGAGAAGTA
Found at i:13161763 original size:43 final size:43
Alignment explanation
Indices: 13161688--13162040 Score: 435
Period size: 43 Copynumber: 8.3 Consensus size: 43
13161678 ACCAAACAAA
* * * *
13161688 TAGCTGCGTTTGTGTAAAAA-CGCTGCTAAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCT-AAAGAACATGATCTT
* * * *
13161731 TAGTGGCGTTTGCGGAAGAAGCGCCGCTAAAGAACATTATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
*
13161774 TAGCGGCGTTTGTGGAAAAAGCGCCGTTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
* *
13161817 CAGCGGCGTTTGTGGAAAAAGCGCCGCTAAGGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
*
13161860 TAGCGGCGTTTGTGGAAAAAGCGCTGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
*
13161903 TAGCGGCGTTTGTTGAAAAAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
* * * *
13161946 TAGCGGCGTTTGTAGG-AAAA-CGCCGCTAAAGACCCTAACCTT
1 TAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAGAACATGATCTT
****** * *
13161988 TAGCGGCGTTT-TTTTCGTAGCTCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
13162030 TAGCGGCGTTT
1 TAGCGGCGTTT
13162041 ATAAAAATAA
Statistics
Matches: 271, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.01
42 58 0.21
43 204 0.75
44 7 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTT
Found at i:13164235 original size:6 final size:6
Alignment explanation
Indices: 13164224--13164250 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13164214 ATATCTACCT
13164224 CAAACA CAAACA CAAACA CAAACA CAA
1 CAAACA CAAACA CAAACA CAAACA CAA
13164251 GTAAATCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAACA
Found at i:13165808 original size:23 final size:22
Alignment explanation
Indices: 13165774--13165817 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
13165764 AAATTATAAA
13165774 ATATAAAAATATATATATGTAC
1 ATATAAAAATATATATATGTAC
13165796 ATATAAGAAATATATATATGTA
1 ATATAA-AAATATATATATGTA
13165818 TGTGAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
ATATAAAAATATATATATGTAC
Found at i:13165953 original size:37 final size:37
Alignment explanation
Indices: 13165912--13165992 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
13165902 TTTATGAAAC
*
13165912 ATAAAAAATATATAAAAGTATGT-GTATATATATAT-TT
1 ATAAAAAAT-TA-AAAAATATGTAGTATATATATATATT
* *
13165949 ATAAAAAATTAAAAAATGTGTACGTATATGTATATATT
1 ATAAAAAATTAAAAAATATGTA-GTATATATATATATT
13165987 ATAAAA
1 ATAAAA
13165993 CGTATGTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
35 8 0.21
36 2 0.05
37 20 0.53
38 8 0.21
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (37 bp):
ATAAAAAATTAAAAAATATGTAGTATATATATATATT
Found at i:13166549 original size:22 final size:23
Alignment explanation
Indices: 13166514--13166602 Score: 78
Period size: 22 Copynumber: 4.0 Consensus size: 23
13166504 AAAGGATATC
*
13166514 TACAAATTAA-ATC-TCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
13166535 TACAAAATAATATCTTCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
* * *
13166558 TGC-ATATCATATCTTCTAAGAT
1 TACAAAATAATATCTTCTAAGAT
* * * *
13166580 TGC-ATATCATATCTTTTAAGAT
1 TACAAAATAATATCTTCTAAGAT
13166602 T
1 T
13166603 GCATATCATA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
21 9 0.15
22 42 0.69
23 10 0.16
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (23 bp):
TACAAAATAATATCTTCTAAGAT
Found at i:13166603 original size:22 final size:22
Alignment explanation
Indices: 13166544--13166628 Score: 140
Period size: 22 Copynumber: 4.0 Consensus size: 22
13166534 TTACAAAATA
13166544 ATATCTTCTAAGATTGCATATC
1 ATATCTTCTAAGATTGCATATC
13166566 ATATCTTCTAAGATTGCATATC
1 ATATCTTCTAAGATTGCATATC
*
13166588 ATATCTTTTAAGATTGCATATC
1 ATATCTTCTAAGATTGCATATC
13166610 ATA---TCTAAGATTGCATATC
1 ATATCTTCTAAGATTGCATATC
13166629 CTTGAAGATT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
19 15 0.25
22 46 0.75
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.41
Consensus pattern (22 bp):
ATATCTTCTAAGATTGCATATC
Found at i:13166638 original size:17 final size:17
Alignment explanation
Indices: 13166587--13166638 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
13166577 GATTGCATAT
*
13166587 CATATCTTTTAAGATTG
1 CATATCATTTAAGATTG
13166604 CATATCATATCTAAGATTG
1 CATATCAT-T-TAAGATTG
* *
13166623 CATATCCTTGAAGATT
1 CATATCATTTAAGATT
13166639 ATGTTTCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATATCATTTAAGATTG
Found at i:13167447 original size:44 final size:44
Alignment explanation
Indices: 13167399--13168039 Score: 927
Period size: 44 Copynumber: 14.8 Consensus size: 44
13167389 ATCTGTAATT
* *
13167399 TTCAACCTACTCCACTGCTG-CTCAGGGAGATAAGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
*
13167443 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
13167487 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG-------A--
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
13167522 TTC-ACCTATTCCACTACTGACCAGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
13167565 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
*
13167609 TTCAACCTATTCCACTGCTGATCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
13167653 TTCAACCTATTCCACTGCTGACCAAGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
*
13167697 TTCAACCTATTCCACTGCTGACTAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
13167741 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
* *
13167785 TTCAACCTATTCCACTTCTGACTAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
13167829 TTCAACCTATTCCACTGCTAACCAGGGAGATAGAACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
13167873 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * *
13167917 TTCAACCTATTCCAATGCTGACCAAGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
13167961 TTCAACCTATTCCACTACTGACCAGGGAGATAGGACTT-ATAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
** *
13168005 TTCAACCTATTCCACTGCTTTCCAGGGAGAAAGGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA
13168040 CTAGTATCTT
Statistics
Matches: 543, Mismatches: 34, Indels: 40
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.05
35 3 0.01
37 1 0.00
41 1 0.00
43 11 0.02
44 489 0.90
45 9 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:13167534 original size:34 final size:34
Alignment explanation
Indices: 13167491--13167560 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
13167481 ACAATCTTCA
* *
13167491 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC
1 ACCTATTCCACTACTGACCAGGGAGATAGGACTC
13167525 ACCTATTCCACTACTGACCAGGGAGATAGGACTC
1 ACCTATTCCACTACTGACCAGGGAGATAGGACTC
13167559 AC
1 AC
13167561 AATCTTCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (34 bp):
ACCTATTCCACTACTGACCAGGGAGATAGGACTC
Found at i:13169529 original size:14 final size:15
Alignment explanation
Indices: 13169506--13169538 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
13169496 ATCGATGCTT
*
13169506 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
13169520 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
13169535 TTCC
1 TTCC
13169539 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:13173803 original size:23 final size:23
Alignment explanation
Indices: 13173777--13173821 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
13173767 AAGAGATTTG
* *
13173777 AAATCAACAATATACAAATCAAT
1 AAATAAACAATACACAAATCAAT
**
13173800 AAATAAATTATACACAAATCAA
1 AAATAAACAATACACAAATCAA
13173822 CAAAATAAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (23 bp):
AAATAAACAATACACAAATCAAT
Found at i:13174069 original size:19 final size:20
Alignment explanation
Indices: 13174023--13174079 Score: 89
Period size: 22 Copynumber: 2.8 Consensus size: 20
13174013 AAATTAAATC
13174023 TCTAAGATTGCATATCATATCT
1 TCTAAGATTGCATATCATA--T
13174045 TCTAAGATTGCATATCATA-
1 TCTAAGATTGCATATCATAT
13174064 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
13174080 CTTGAAGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 16 0.46
22 19 0.54
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGCATATCATAT
Found at i:13174649 original size:29 final size:28
Alignment explanation
Indices: 13174585--13174651 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
13174575 TAGTAATATA
*
13174585 TAAATTTTAAAACTATATAAAAATAAAT
1 TAAATTTTAAAACAATATAAAAATAAAT
* *
13174613 AAATATTTTCAAAA-AATATAATAATAAATT
1 TAA-ATTTT-AAAACAATATAAAAATAAA-T
13174643 TAAATTTTA
1 TAAATTTTA
13174652 TATTAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 3 0.09
29 22 0.69
30 7 0.22
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (28 bp):
TAAATTTTAAAACAATATAAAAATAAAT
Found at i:13174654 original size:52 final size:51
Alignment explanation
Indices: 13174490--13174647 Score: 198
Period size: 51 Copynumber: 3.0 Consensus size: 51
13174480 ATTCAAAGAA
*
13174490 ATATATAAAAATACATAAATATTTTTCAAAAAATATAATAATAAATTT-AAT
1 ATATATAAAAATAAATAAATA-TTTTCAAAAAATATAATAATAAATTTAAAT
13174541 ATATATAAATAA-AAAT-AATATTGTTGACAAAAAATAGTAATATATAAATTTTAAA-
1 ATATATAAA-AATAAATAAATATT-TT--CAAAAAATA-TAATA-ATAAA-TTTAAAT
13174596 ACTATATAAAAATAAATAAATATTTTCAAAAAATATAATAATAAATTTAAAT
1 A-TATATAAAAATAAATAAATATTTTCAAAAAATATAATAATAAATTTAAAT
13174648 TTTATATTAA
Statistics
Matches: 94, Mismatches: 1, Indels: 23
0.80 0.01 0.19
Matches are distributed among these distances:
49 2 0.02
50 6 0.06
51 18 0.19
52 16 0.17
53 10 0.11
54 14 0.15
55 6 0.06
56 16 0.17
57 6 0.06
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.35
Consensus pattern (51 bp):
ATATATAAAAATAAATAAATATTTTCAAAAAATATAATAATAAATTTAAAT
Found at i:13178665 original size:67 final size:67
Alignment explanation
Indices: 13178557--13178693 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
13178547 ACTTTCGGCA
* *
13178557 TCTTCATCACAATAGCTACTCAACTCCCACACCGAAGTCGCAACGATAACTAGAAATCATCCGCG
1 TCTTCATCACAATAACTACTCAACTCCCACACCGAAGTCGCAACGATAACTAGAAATCATCCACG
13178622 CT
66 CT
*
13178624 TCTTCATCACAATAACTACTCAACTCCCACACTGAAGTCGCAACGATAACTAGAAATCATCCACG
1 TCTTCATCACAATAACTACTCAACTCCCACACCGAAGTCGCAACGATAACTAGAAATCATCCACG
13178689 CT
66 CT
13178691 TCT
1 TCT
13178694 AAAACTTTGG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.34, C:0.34, G:0.10, T:0.23
Consensus pattern (67 bp):
TCTTCATCACAATAACTACTCAACTCCCACACCGAAGTCGCAACGATAACTAGAAATCATCCACG
CT
Found at i:13194420 original size:67 final size:67
Alignment explanation
Indices: 13194305--13194432 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 67
13194295 AGTAAGTAGC
* * ** * *
13194305 TTCACATGGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTATGCTCACCATT
1 TTCACACGGCCTAGAACACGGGCGTGTGGCTTGGCCGTGTAACACAAGTCAATAAGCTCACCATT
13194370 TT
66 TT
* * *
13194372 TTCACACGGCCTAGAATATGGGCGTGTGGCTTGGCCGTGTAACCCAAGTCAATAAGCTCAC
1 TTCACACGGCCTAGAACACGGGCGTGTGGCTTGGCCGTGTAACACAAGTCAATAAGCTCAC
13194433 TAGTTTGGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 52 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.26
Consensus pattern (67 bp):
TTCACACGGCCTAGAACACGGGCGTGTGGCTTGGCCGTGTAACACAAGTCAATAAGCTCACCATT
TT
Found at i:13199820 original size:20 final size:21
Alignment explanation
Indices: 13199781--13199821 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13199771 GAAGATGAAC
**
13199781 TTGAGAGAATTTAATTAATTT
1 TTGAGAGAATTTAACAAATTT
13199802 TTGAGAGAA-TTAACAAATTT
1 TTGAGAGAATTTAACAAATTT
13199822 GATAGAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.41
Consensus pattern (21 bp):
TTGAGAGAATTTAACAAATTT
Found at i:13200247 original size:21 final size:21
Alignment explanation
Indices: 13200221--13200263 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13200211 GGTTCGCTGT
*
13200221 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
13200242 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
13200263 A
1 A
13200264 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:13200263 original size:16 final size:16
Alignment explanation
Indices: 13200244--13200276 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13200234 TGTATTGGAT
*
13200244 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
13200260 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
13200276 T
1 T
13200277 AGCAAATCAA
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:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:13200321 original size:45 final size:44
Alignment explanation
Indices: 13200255--13200349 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
13200245 GGATTAGAGG
* *
13200255 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
13200300 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
13200344 TGTAAT
1 TGTAAT
13200350 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:13200532 original size:18 final size:17
Alignment explanation
Indices: 13200511--13200545 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13200501 TTATTATTTA
*
13200511 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13200529 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13200546 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:13200539 original size:28 final size:27
Alignment explanation
Indices: 13200469--13200541 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
13200459 TTTATTATCA
*
13200469 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
13200497 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
13200524 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
13200542 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:13200658 original size:144 final size:147
Alignment explanation
Indices: 13200430--13200701 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
13200420 ATGATTATTG
13200430 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
13200495 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
13200560 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
13200579 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
13200641 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
13200702 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:13200676 original size:18 final size:17
Alignment explanation
Indices: 13200655--13200689 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13200645 TTATTATTAA
*
13200655 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13200673 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13200690 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:13200764 original size:144 final size:142
Alignment explanation
Indices: 13200442--13200831 Score: 393
Period size: 144 Copynumber: 2.8 Consensus size: 142
13200432 ATTGTTATTT
13200442 AAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTA
1 AAATTTTAATAAGATTA---A-TATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTA
* *
13200507 TTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTT
62 TTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA--AGAAATTTGTTA
* ** ***
13200572 TGGTAAATTATTTTATTT
125 TGGTAAATTACTCAAACC
*
13200590 AAATTTTAATAAGATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
1 AAATTTTAATAAGATTAATATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
*
13200655 ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A-ATATTCT-TATAT-G-
66 ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAGAAATT-TGT-TATGGT
*
13200715 AATTTACTCAAACC
129 AAATTACTCAAACC
* *** *
13200729 ATAATTATTATTAA-A-T-ATGAT--ACTGT-AA-AATATAA--A-A--T-AACATAATTATTAT
1 A-AATT-TTAATAAGATTAAT-ATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTAT
* *
13200781 TAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
63 TAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
13200832 TATTCTTATA
Statistics
Matches: 218, Mismatches: 18, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
129 61 0.28
130 2 0.01
132 1 0.00
133 1 0.00
135 6 0.03
136 2 0.01
137 2 0.01
138 2 0.01
139 11 0.05
140 11 0.05
141 10 0.05
144 91 0.42
145 1 0.00
148 17 0.08
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (142 bp):
AAATTTTAATAAGATTAATATCAAAAATAAATAATTTAATCATATTTAAACATAATTATTATTAA
ATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAAGAAATTTGTTATGGTAA
ATTACTCAAACC
Found at i:13200776 original size:129 final size:130
Alignment explanation
Indices: 13200638--13200871 Score: 425
Period size: 129 Copynumber: 1.8 Consensus size: 130
13200628 ATCATATTTA
* *
13200638 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13200703 TATTCTTATATGAATTTACTCAAACCATAAT-TATTATTAAATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATTAAATATGATACTGTAAAATATAAAAT
13200767 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13200832 TATTCTTATATGAATTTACTCAAATCATAATATATGATTA
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATTA
13200872 TAACTAATAT
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
129 93 0.93
130 7 0.07
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (130 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATTAAATATGATACTGTAAAATATAAAAT
Found at i:13200805 original size:18 final size:17
Alignment explanation
Indices: 13200784--13200818 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13200774 TTATTATTAA
13200784 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
13200802 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
13200819 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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:13200881 original size:17 final size:16
Alignment explanation
Indices: 13200859--13200905 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
13200849 ACTCAAATCA
13200859 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
13200876 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
13200890 TAAATATATGATTTAA
1 T-AATATATGATTTAA
13200906 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:13200906 original size:17 final size:17
Alignment explanation
Indices: 13200878--13200911 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13200868 ATTATAACTA
*
13200878 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
13200895 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
13200912 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:13201054 original size:93 final size:91
Alignment explanation
Indices: 13200944--13201137 Score: 284
Period size: 92 Copynumber: 2.1 Consensus size: 91
13200934 GATTATAGTT
* *
13200944 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAATTAT-ATAATAATATATAATTTC
* *
13201007 ATAAAATTCTTGATAATAAAAATTTTCTTA
63 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
13201037 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAGTGATATATAATTTCATA
1 TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
13201102 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
13201128 TATGAATTTA
1 TATGAATTTA
13201138 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 21 0.23
92 40 0.43
93 29 0.31
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTATATAATAATATATAATTTCATA
AAATTCTTAATAATAAAATGTTCTTA
Found at i:13202546 original size:11 final size:11
Alignment explanation
Indices: 13202532--13202558 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13202522 AAAAATCAAT
13202532 ACAAAAGTTTC
1 ACAAAAGTTTC
13202543 ACAAAAGTTTC
1 ACAAAAGTTTC
13202554 ACAAA
1 ACAAA
13202559 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:13204759 original size:15 final size:15
Alignment explanation
Indices: 13204739--13204769 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13204729 ATATTATGTA
13204739 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
13204754 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
13204769 T
1 T
13204770 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:13209073 original size:28 final size:30
Alignment explanation
Indices: 13209013--13209089 Score: 104
Period size: 28 Copynumber: 2.6 Consensus size: 30
13209003 ATCAAAAAAA
* *
13209013 TTTTCTTCTCTCAATTTCTCCTAACATCAT
1 TTTTCTTCTCTCATTTTCTCCCAACATCAT
*
13209043 TTTTCTTCTCCCATTTTC-CCCAACAT-AT
1 TTTTCTTCTCTCATTTTCTCCCAACATCAT
*
13209071 TTTTCTCCTCTCATTTTCT
1 TTTTCTTCTCTCATTTTCT
13209090 TTCCAACACT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 18 0.44
29 7 0.17
30 16 0.39
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTTCTTCTCTCATTTTCTCCCAACATCAT
Found at i:13210678 original size:17 final size:17
Alignment explanation
Indices: 13210637--13210678 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
13210627 CATTATTTAT
13210637 GAAA-ATTATAAGTTGA
1 GAAAGATTATAAGTTGA
*
13210653 -TAAGAATTATAAGTTGA
1 GAAAG-ATTATAAGTTGA
13210670 GAAAGATTA
1 GAAAGATTA
13210679 ATTTTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 2 0.10
17 16 0.76
18 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (17 bp):
GAAAGATTATAAGTTGA
Found at i:13215238 original size:30 final size:32
Alignment explanation
Indices: 13215199--13215264 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 32
13215189 AACTCCTAAA
13215199 CCTCTTCACTTTC-CTCCCAAAACTTTTACTC-
1 CCTCTTCACTTTCTC-CCCAAAACTTTTACTCT
* *
13215230 CCTC-TCACTTTCTCCCCATAACTTTTGCTCT
1 CCTCTTCACTTTCTCCCCAAAACTTTTACTCT
13215261 CCTC
1 CCTC
13215265 CCATCACACC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.15, C:0.44, G:0.02, T:0.39
Consensus pattern (32 bp):
CCTCTTCACTTTCTCCCCAAAACTTTTACTCT
Found at i:13215766 original size:19 final size:19
Alignment explanation
Indices: 13215742--13215779 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13215732 AAAGTTAATA
13215742 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
*
13215761 ACAAATTTGATTATGGTGG
1 ACAAATTTGATTACGGTGG
13215780 GTGACAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (19 bp):
ACAAATTTGATTACGGTGG
Found at i:13217316 original size:84 final size:84
Alignment explanation
Indices: 13217174--13217328 Score: 208
Period size: 84 Copynumber: 1.8 Consensus size: 84
13217164 TGTGTTATCG
* * * *
13217174 TGTAAGACCACGTCTGGGATGTTGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTGGGACAT
1 TGTAAGACCACGTCTGGGAAGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGACAT
13217239 TGGCATCGTATTTGATTCA
66 TGGCATCGTATTTGATTCA
* *
13217258 TGTAAGACC-CTGTCTGGGACAG-TGGCATTGA-TATGTGATTACATGTAAGACCACGTCTGGGG
1 TGTAAGACCAC-GTCTGGGA-AGTTGGCATCGACT-TGTGATTACATGTAAGACCACGTCTGGGA
13217320 CATTGGCAT
63 CATTGGCAT
13217329 TATACGAGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 59 0.95
85 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (84 bp):
TGTAAGACCACGTCTGGGAAGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGACAT
TGGCATCGTATTTGATTCA
Found at i:13217329 original size:43 final size:43
Alignment explanation
Indices: 13217159--13217328 Score: 188
Period size: 43 Copynumber: 4.0 Consensus size: 43
13217149 ATAGGATTTC
* **
13217159 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGATTA-CATGTAAGACCACGTCTGGGACATTGGCAT
* * *
13217202 CGACT-TGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGA-TATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
* *
13217245 CG-TATTTGATT-CATGTAAGACC-CTGTCTGGGACAGTGGCAT
1 CGATATGTGATTACATGTAAGACCAC-GTCTGGGACATTGGCAT
* *
13217286 TGATATGTGATTACATGTAAGACCACGTCTGGGGCATTGGCAT
1 CGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
13217329 TATACGAGTC
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
41 28 0.26
42 13 0.12
43 62 0.57
44 5 0.05
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
Found at i:13217518 original size:16 final size:17
Alignment explanation
Indices: 13217489--13217520 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13217479 TGAATTGATG
13217489 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
13217506 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
13217521 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:13231774 original size:25 final size:26
Alignment explanation
Indices: 13231746--13231807 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 26
13231736 GTATATAGAG
*
13231746 AAGCTCATGCGAGCCATAAA-TCGGA
1 AAGCTCATGCAAGCCATAAATTCGGA
*
13231771 AAGCTCATGCAAGCCATAAATTGGGA
1 AAGCTCATGCAAGCCATAAATTCGGA
13231797 AA-CTCATGCAA
1 AAGCTCATGCAA
13231808 ACCAATTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 28 0.82
26 6 0.18
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
AAGCTCATGCAAGCCATAAATTCGGA
Found at i:13235910 original size:5 final size:5
Alignment explanation
Indices: 13235900--13235947 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
13235890 TTGAAGTTTT
* *
13235900 ATCGA ATCGA ATCGA GT-GA TATAGA ATTCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA -ATCGA A-TCGA ATCGA ATCGA ATCGA AT
13235948 ATATTTGTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.05
5 29 0.78
6 6 0.16
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (5 bp):
ATCGA
Found at i:13238742 original size:14 final size:14
Alignment explanation
Indices: 13238723--13238749 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13238713 AATTAGTTTA
13238723 AAATCAAACTTAAT
1 AAATCAAACTTAAT
13238737 AAATCAAACTTAA
1 AAATCAAACTTAA
13238750 ATTTTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATCAAACTTAAT
Found at i:13245489 original size:18 final size:18
Alignment explanation
Indices: 13245466--13245503 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
13245456 TCATGGTTCT
13245466 AAAGTGTTACTGATATGA
1 AAAGTGTTACTGATATGA
13245484 AAAGTGTTACTGATATGA
1 AAAGTGTTACTGATATGA
13245502 AA
1 AA
13245504 CACTATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (18 bp):
AAAGTGTTACTGATATGA
Found at i:13249533 original size:16 final size:17
Alignment explanation
Indices: 13249512--13249554 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
13249502 AAAAAATTAG
13249512 AAAATTGTATAAAAT-T
1 AAAATTGTATAAAATCT
13249528 AAAATTG-A-AAAATCT
1 AAAATTGTATAAAATCT
13249543 AAAA-TGTATAAA
1 AAAATTGTATAAA
13249555 GTAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 7 0.29
15 7 0.29
16 10 0.42
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (17 bp):
AAAATTGTATAAAATCT
Found at i:13269649 original size:19 final size:19
Alignment explanation
Indices: 13269625--13269697 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
13269615 ATAATCTTCA
*
13269625 ATGATATGCAATCTTAGAT
1 ATGATATACAATCTTAGAT
*
13269644 ATGATATATAATCTTAGAT
1 ATGATATACAATCTTAGAT
* *
13269663 ATGATATGCAATTTTAGAT
1 ATGATATACAATCTTAGAT
13269682 ATGATATACAATCTTA
1 ATGATATACAATCTTA
13269698 AAAGATATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (19 bp):
ATGATATACAATCTTAGAT
Found at i:13269655 original size:36 final size:36
Alignment explanation
Indices: 13269615--13269706 Score: 130
Period size: 38 Copynumber: 2.5 Consensus size: 36
13269605 ATATGGAAAC
*
13269615 ATAATCTTCAATGATATGCAATCTTAGATATGATAT
1 ATAATCTTAAATGATATGCAATCTTAGATATGATAT
*
13269651 ATAATCTTAGATATGATATGCAATTTTAGATATGATAT
1 ATAATCTTA-A-ATGATATGCAATCTTAGATATGATAT
* *
13269689 ACAATCTTAAAAGATATG
1 ATAATCTTAAATGATATG
13269707 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
36 15 0.30
37 2 0.04
38 33 0.66
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (36 bp):
ATAATCTTAAATGATATGCAATCTTAGATATGATAT
Found at i:13270197 original size:13 final size:13
Alignment explanation
Indices: 13270179--13270219 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
13270169 AGTATTATTG
13270179 TTATTATTATTAT
1 TTATTATTATTAT
*
13270192 TTATTATCATTAT
1 TTATTATTATTAT
*
13270205 TT-TTTTTATT-T
1 TTATTATTATTAT
13270216 TTAT
1 TTAT
13270220 ATTCATGCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
11 3 0.12
12 7 0.29
13 14 0.58
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:13272574 original size:30 final size:30
Alignment explanation
Indices: 13272540--13272602 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
13272530 ACTTATTTTA
13272540 TTGTTAATTTTGTTATTATTTT-GAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAG-AGGCAT
13272570 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
13272600 TTG
1 TTG
13272603 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:13272740 original size:11 final size:11
Alignment explanation
Indices: 13272724--13272754 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13272714 TATGTATATT
13272724 TAAAAATTATA
1 TAAAAATTATA
*
13272735 TAAAAATAATA
1 TAAAAATTATA
13272746 TAAAAATTA
1 TAAAAATTA
13272755 ATACGGGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:13273424 original size:21 final size:22
Alignment explanation
Indices: 13273385--13273427 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
13273375 TAAAAATGGT
13273385 TTTATATTAATATTTTATATAA
1 TTTATATTAATATTTTATATAA
13273407 TTTATAATTAA-A-TTTATATAA
1 TTTAT-ATTAATATTTTATATAA
13273428 AAATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTATATTAATATTTTATATAA
Found at i:13275021 original size:27 final size:27
Alignment explanation
Indices: 13274983--13275037 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
13274973 AGATTGATAA
*
13274983 TAACATATGAAATCTAGGTGAATTCTT
1 TAACAGATGAAATCTAGGTGAATTCTT
13275010 TAACAGATGAAATCTAGGTGAATTCTT
1 TAACAGATGAAATCTAGGTGAATTCTT
13275037 T
1 T
13275038 CCTAAGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (27 bp):
TAACAGATGAAATCTAGGTGAATTCTT
Found at i:13285840 original size:23 final size:23
Alignment explanation
Indices: 13285814--13285907 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
13285804 AAGTTAGAAG
13285814 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
13285837 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
13285860 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
13285883 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
13285906 AG
1 AG
13285908 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:13290340 original size:23 final size:23
Alignment explanation
Indices: 13290314--13290407 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
13290304 AAGTTAGAAG
13290314 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
13290337 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
13290360 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
13290383 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
13290406 AG
1 AG
13290408 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:13295601 original size:21 final size:19
Alignment explanation
Indices: 13295577--13295644 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 19
13295567 TACAAATGTG
13295577 TTAATATCTAATTATAAATAT
1 TTAATAT-TAATT-TAAATAT
13295598 TTAATGATTATATTTAAATAT
1 TTAAT-ATTA-ATTTAAATAT
* *
13295619 TTAAAATATAATTTATATAT
1 TTAATAT-TAATTTAAATAT
13295639 TCTAAT
1 T-TAAT
13295645 TAAATTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 12 0.30
21 23 0.57
22 5 0.12
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (19 bp):
TTAATATTAATTTAAATAT
Found at i:13295648 original size:33 final size:32
Alignment explanation
Indices: 13295611--13295707 Score: 85
Period size: 33 Copynumber: 2.9 Consensus size: 32
13295601 ATGATTATAT
13295611 TTAAATATTTAAAATATAATTTATATATTCTAA
1 TTAAATATTTAAAATATAATTTATATATT-TAA
13295644 TTAAAT-TTTATAAATAATTAATATT-TATTATTTAA
1 TTAAATATTTA-AAAT-A-TAAT-TTATA-TATTTAA
*
13295679 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
13295708 AAAATATTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 19
0.73 0.01 0.26
Matches are distributed among these distances:
31 4 0.07
32 10 0.19
33 20 0.37
34 5 0.09
35 9 0.17
36 6 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (32 bp):
TTAAATATTTAAAATATAATTTATATATTTAA
Found at i:13295682 original size:24 final size:23
Alignment explanation
Indices: 13295650--13295699 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
13295640 CTAATTAAAT
* *
13295650 TTTATAAATAATTAATATTTATTA
1 TTTAAAAATAATTAAAATTTA-TA
*
13295674 TTTAAAAATATTTAAAATTTATA
1 TTTAAAAATAATTAAAATTTATA
13295697 TTT
1 TTT
13295700 CATATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAAAAATAATTAAAATTTATA
Found at i:13295698 original size:30 final size:30
Alignment explanation
Indices: 13295613--13295716 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
13295603 GATTATATTT
*
13295613 AAATATTTAAAATATA-ATTTATATATTCTAA
1 AAATATTTAAAATTTATATTTAT-TATT-TAA
13295644 TTAAAT-TTTATAAATAATTAATATTTATTATTTAA
1 --AAATATTTA-AAAT--TT-ATATTTATTATTTAA
13295679 AAATATTTAAAATTTATATTTCA-TATATT-A
1 AAATATTTAAAATTTATATTT-ATTAT-TTAA
13295709 AAATATTT
1 AAATATTT
13295717 TCAATAAGTT
Statistics
Matches: 62, Mismatches: 1, Indels: 19
0.76 0.01 0.23
Matches are distributed among these distances:
30 18 0.29
31 5 0.08
32 4 0.06
33 16 0.26
34 4 0.06
35 4 0.06
36 5 0.08
37 6 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
AAATATTTAAAATTTATATTTATTATTTAA
Found at i:13295911 original size:14 final size:14
Alignment explanation
Indices: 13295894--13295940 Score: 71
Period size: 13 Copynumber: 3.5 Consensus size: 14
13295884 TAAACCAAAC
*
13295894 TTTTTCAAAAGTA-
1 TTTTTCAAAAATAT
13295907 TTTTTCAAAAATAT
1 TTTTTCAAAAATAT
13295921 TTTTT-AAAAATAT
1 TTTTTCAAAAATAT
13295934 TTTTTCA
1 TTTTTCA
13295941 CAACACTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
13 25 0.81
14 6 0.19
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (14 bp):
TTTTTCAAAAATAT
Found at i:13295923 original size:26 final size:25
Alignment explanation
Indices: 13295890--13295960 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 25
13295880 ATTTTAAACC
13295890 AAAC-TTTTTCAAAAGTATTTTTCAA
1 AAACATTTTTCAAAAGTATTTTTC-A
* * *
13295915 AAATATTTTTTAAAAATATTTTTTCA
1 AAACATTTTTCAAAAGTA-TTTTTCA
* *
13295941 CAACACTTTTCAAAAGTATT
1 AAACATTTTTCAAAAGTATT
13295961 GCTAGACTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 5 0.14
26 25 0.69
27 6 0.17
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (25 bp):
AAACATTTTTCAAAAGTATTTTTCA
Found at i:13307291 original size:92 final size:92
Alignment explanation
Indices: 13307182--13307808 Score: 544
Period size: 92 Copynumber: 6.8 Consensus size: 92
13307172 ATTGTTTATA
* * * * * * *
13307182 GTTATACATTGTCGAAATTGATTTGCATATAGATATAAGTTGCCTAATTGATTTGTATATGATTG
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTA
13307247 TACATTGCTGAAATTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTACATG
* *
13307274 GTTATACATTTTTGAAATTAAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTA
* *
13307339 TATATTGCTGAATTTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTACATG
* *
13307366 GTTATACATTATTGAACTTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTA
*
13307431 TATATTGCTGAAATTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTACATG
* ** * * *
13307458 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAATTGCTAAAATTAATTTGTACATGGTT
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTG-TCGAATTGATTTGTATATGATT
* *
13307523 ATACATTGTTGAAATTGAA-TTGTATATG
65 ATACATTGCTGAAATT-AATTTGTACATG
* *** * * *
13307551 GATATA-AGTTACCG-AATTGATTTGTATAT-GATTATATA-TTG-CTGAAATTAATTTGTAAAT
1 GTTATACA-TTGTTGAAATTGAATTGTATATGGA-TATA-AGTTGTC-G-AATTGATTTGTATAT
* * * *
13307611 GGTTATACACTGTTGAAATTGAA-TTGTATATG
61 GATTATACATTGCTGAAATT-AATTTGTACATG
* ** * *
13307643 GATATA-AGTTGCCG-AATTG-ATTCGTATATGGTTATACA-TTG-CTGAATTTAATTTGTATAT
1 GTTATACA-TTGTTGAAATTGAATT-GTATATGGATATA-AGTTGTC-GAA-TTGATTTGTATAT
* * * * *
13307703 GATTATACATTGCCGAACTTGATTCGTATATG
61 GATTATACATTGCTGAAATTAATTTGTACATG
* * * * * * * * *
13307735 GTTATACATTGTCG-ATTTTATTTGTATATAGATATACA-TTGCCGAATTTGGTTCGTATATGAA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATA-AGTTGTCGAA-TTGATTTGTATATGAT
*
13307798 TATATATTGCT
64 TATACATTGCT
13307809 TAATTGATTT
Statistics
Matches: 461, Mismatches: 60, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
91 7 0.02
92 399 0.87
93 53 0.11
94 2 0.00
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (92 bp):
GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTA
TACATTGCTGAAATTAATTTGTACATG
Found at i:13307672 original size:246 final size:246
Alignment explanation
Indices: 13307227--13307745 Score: 790
Period size: 246 Copynumber: 2.1 Consensus size: 246
13307217 TAAGTTGCCT
* * * *
13307227 AATTGATTTGTATAT-GATTGTACATTGCTGAAATTAATTTGTACATGGTTATACATTTTTGAAA
1 AATTGAATTGTATATGGA-TATACATTGCTAAAATTAATTTGTACATGGTTATACATTGTTGAAA
** *
13307291 TTAAATTGTATATGGATATAAGTTGTCGAATTGATTTGTATATGATTATATATTGCTGAATTTAA
65 TTAAATTGTATATGGATATAAGTTACCGAATTGATTTGTATATGATTATATATTGCTGAAATTAA
* * * * *
13307356 TTTGTACATGGTTATACATTATTGAACTTGAATTGTATATGGATATAAGTTGTCGAATTGATTTG
130 TTTGTAAATGGTTATACACTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCG
* * **
13307421 TATATGATTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGA
195 TATATGATTATACATTGCTGAAATTAATTTGTACATGATTATACATTGCCGA
*
13307473 AATTGAATTGTATATGGATATAAATTGCTAAAATTAATTTGTACATGGTTATACATTGTTGAAAT
1 AATTGAATTGTATATGGATATACATTGCTAAAATTAATTTGTACATGGTTATACATTGTTGAAAT
*
13307538 TGAATTGTATATGGATATAAGTTACCGAATTGATTTGTATATGATTATATATTGCTGAAATTAAT
66 TAAATTGTATATGGATATAAGTTACCGAATTGATTTGTATATGATTATATATTGCTGAAATTAAT
*
13307603 TTGTAAATGGTTATACACTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGT
131 TTGTAAATGGTTATACACTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGT
* * *
13307668 ATATGGTTATACATTGCTGAATTTAATTTGTATATGATTATACATTGCCGA
196 ATATGATTATACATTGCTGAAATTAATTTGTACATGATTATACATTGCCGA
* *
13307719 ACTTG-ATTCGTATATGGTTATACATTG
1 AATTGAATT-GTATATGGATATACATTG
13307746 TCGATTTTAT
Statistics
Matches: 246, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
245 3 0.01
246 241 0.98
247 2 0.01
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (246 bp):
AATTGAATTGTATATGGATATACATTGCTAAAATTAATTTGTACATGGTTATACATTGTTGAAAT
TAAATTGTATATGGATATAAGTTACCGAATTGATTTGTATATGATTATATATTGCTGAAATTAAT
TTGTAAATGGTTATACACTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCGT
ATATGATTATACATTGCTGAAATTAATTTGTACATGATTATACATTGCCGA
Found at i:13307801 original size:31 final size:31
Alignment explanation
Indices: 13307298--13307807 Score: 175
Period size: 31 Copynumber: 16.6 Consensus size: 31
13307288 AAATTAAATT
* * *
13307298 GTATATGGATATA-AGTTGTCGAA-TTGATTT
1 GTATATGAATATACA-TTGCCGAATTTGATTC
* * * * *
13307328 GTATATGATTATATATTGCTGAATTTAATTT
1 GTATATGAATATACATTGCCGAATTTGATTC
* ** *** *
13307359 GTACATGGTTATACATTATTGAACTTGAATT-
1 GTATATGAATATACATTGCCGAATTTG-ATTC
* * *
13307390 GTATATGGATATA-AGTTGTCGAA-TTGATTT
1 GTATATGAATATACA-TTGCCGAATTTGATTC
* * * * * *
13307420 GTATATGATTATATATTGCTGAAATTAATTT
1 GTATATGAATATACATTGCCGAATTTGATTC
* ** ** *
13307451 GTACATGGTTATACATTGTTGAAATTGAATT-
1 GTATATGAATATACATTGCCGAATTTG-ATTC
* * ** * * *
13307482 GTATATGGATATAAATTGCTAAAATTAATTT
1 GTATATGAATATACATTGCCGAATTTGATTC
* ** ** *
13307513 GTACATGGTTATACATTGTTGAAATTGAATT-
1 GTATATGAATATACATTGCCGAATTTG-ATTC
* * *
13307544 GTATATGGATATA-AGTTACCGAA-TTGATTT
1 GTATATGAATATACA-TTGCCGAATTTGATTC
* * * * * *
13307574 GTATATGATTATATATTGCTGAAATTAATTT
1 GTATATGAATATACATTGCCGAATTTGATTC
* ** * ** *
13307605 GTAAATGGTTATACACTGTTGAAATTGAATT-
1 GTATATGAATATACATTGCCGAATTTG-ATTC
*
13307636 GTATATGGATATA-AGTTGCCGAA-TTGATTC
1 GTATATGAATATACA-TTGCCGAATTTGATTC
** * * *
13307666 GTATATGGTTATACATTGCTGAATTTAATTT
1 GTATATGAATATACATTGCCGAATTTGATTC
* *
13307697 GTATATGATTATACATTGCCGAACTTGATTC
1 GTATATGAATATACATTGCCGAATTTGATTC
** * * *
13307728 GTATATGGTTATACATTGTCG-ATTTTATTT
1 GTATATGAATATACATTGCCGAATTTGATTC
*
13307758 GTATAT-AGATATACATTGCCGAATTTGGTTC
1 GTATATGA-ATATACATTGCCGAATTTGATTC
*
13307789 GTATATGAATATATATTGC
1 GTATATGAATATACATTGC
13307808 TTAATTGATT
Statistics
Matches: 378, Mismatches: 80, Indels: 43
0.75 0.16 0.09
Matches are distributed among these distances:
29 9 0.02
30 108 0.29
31 248 0.66
32 13 0.03
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (31 bp):
GTATATGAATATACATTGCCGAATTTGATTC
Found at i:13307819 original size:61 final size:59
Alignment explanation
Indices: 13307182--13307819 Score: 371
Period size: 61 Copynumber: 10.4 Consensus size: 59
13307172 ATTGTTTATA
* * *
13307182 GTTATACATTG-TCGAAATTGATTTGCATATAGATATA-AGTTGCCTAATTGATTTGTATATG
1 GTTATACATTGCT-G-AATTGATTTGTATAT-GATATACA-TTGCCGAATTGATTCGTATATG
* * * * * *** *
13307243 ATTGTACATTGCTGAAATTAATTTGTACATGGTTATACATTTTTGAAATTAAATT-GTATATG
1 GTTATACATTGCTG-AATTGATTTGTATAT-GATATACATTGCCG-AATT-GATTCGTATATG
* * * * * *
13307305 GATATA-AGTTG-TCGAATTGATTTGTATATGATTATATATTGCTGAATTTAATTTGTACATG
1 GTTATACA-TTGCT-GAATTGATTTGTATATGA-TATACATTGCCGAA-TTGATTCGTATATG
** * * *
13307366 GTTATACATTATTGAACTTGAATTGTATATGGATATA-AGTTGTCGAATTGATTTGTATATG
1 GTTATACATTGCTGAA-TTGATTTGTATAT-GATATACA-TTGCCGAATTGATTCGTATATG
* * * * * **
13307427 ATTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATT-GTATATG
1 GTTATACATTGCTG-AATTGATTTGTATAT-GATATACATTGCCG-AATTG-ATTCGTATATG
* * * * * * **
13307489 GATATAAATTGCTAAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATT-GTATATG
1 GTTATACATTGCT-GAATTGATTTGTATAT-GATATACATTGCCG-AATTG-ATTCGTATATG
* * * * * * * *
13307551 GATATA-AGTTACCGAATTGATTTGTATATGATTATATATTGCTGAAATTAATTTGTAAATG
1 GTTATACA-TTGCTGAATTGATTTGTATATGA-TATACATTGCCG-AATTGATTCGTATATG
* * *
13307612 GTTATACACTGTTGAAATTGAATTGTATATGGATATA-AGTTGCCGAATTGATTCGTATATG
1 GTTATACATTGCTG-AATTGATTTGTATAT-GATATACA-TTGCCGAATTGATTCGTATATG
*
13307673 GTTATACATTGCTGAATTTAATTTGTATATGATTATACATTGCCGAACTTGATTCGTATATG
1 GTTATACATTGCTGAA-TTGATTTGTATATGA-TATACATTGCCGAA-TTGATTCGTATATG
* * *
13307735 GTTATACATTG-TCGATTTTATTTGTATATAGATATACATTGCCGAATTTGGTTCGTATATG
1 GTTATACATTGCT-GAATTGATTTGTATAT-GATATACATTGCCGAA-TTGATTCGTATATG
** * *
13307796 AATATATATTGCTTAATTGATTTG
1 GTTATACATTGCTGAATTGATTTG
13307820 AGCATTGGAT
Statistics
Matches: 468, Mismatches: 76, Indels: 66
0.77 0.12 0.11
Matches are distributed among these distances:
60 15 0.03
61 263 0.56
62 180 0.38
63 10 0.02
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (59 bp):
GTTATACATTGCTGAATTGATTTGTATATGATATACATTGCCGAATTGATTCGTATATG
Found at i:13311728 original size:12 final size:12
Alignment explanation
Indices: 13311713--13311744 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
13311703 AAACCGAGCC
13311713 ATAAATATTTTT
1 ATAAATATTTTT
13311725 ATAAATA--TTT
1 ATAAATATTTTT
13311735 ATAAATATTT
1 ATAAATATTT
13311745 ATGGAGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:13312471 original size:18 final size:18
Alignment explanation
Indices: 13312428--13312473 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
13312418 TAGGGAAAGT
*
13312428 ATTAATTAAGAAAATTAG
1 ATTAATTGAGAAAATTAG
13312446 ATTAATTGAGAAAATTAG
1 ATTAATTGAGAAAATTAG
13312464 ATTAATTGAG
1 ATTAATTGAG
13312474 GGATTAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (18 bp):
ATTAATTGAGAAAATTAG
Found at i:13313918 original size:46 final size:45
Alignment explanation
Indices: 13313851--13314140 Score: 395
Period size: 46 Copynumber: 6.6 Consensus size: 45
13313841 TTTGAGTACT
* *
13313851 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
13313897 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
13313933 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* *
13313979 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
13314025 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACCTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
13314071 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
13314116 TCTGATCAAG-G-ACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
13314141 ATCATACGTA
Statistics
Matches: 223, Mismatches: 10, Indels: 25
0.86 0.04 0.10
Matches are distributed among these distances:
36 28 0.13
38 1 0.00
39 2 0.01
40 4 0.02
42 4 0.02
43 15 0.07
44 2 0.01
45 22 0.10
46 144 0.65
47 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:13313933 original size:36 final size:36
Alignment explanation
Indices: 13313887--13313959 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
13313877 GGTAGCTTTA
13313887 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
13313923 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
13313959 G
1 G
13313960 GTAGCTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:13319437 original size:25 final size:26
Alignment explanation
Indices: 13319399--13319448 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
13319389 TAATTATAGA
* *
13319399 TATACATTGTCGAATTTG-ATTGTTT
1 TATACATTGCCGAATTCGAATTGTTT
*
13319424 TATATATTGCCGAATTCGAATTGTT
1 TATACATTGCCGAATTCGAATTGTT
13319449 CATAGTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (26 bp):
TATACATTGCCGAATTCGAATTGTTT
Found at i:13319530 original size:61 final size:62
Alignment explanation
Indices: 13319423--13320028 Score: 475
Period size: 61 Copynumber: 9.9 Consensus size: 62
13319413 TTTGATTGTT
* * * * *
13319423 TTATATATTGCCG-AATTCGAATTGT-TCATAGTTATACATTGTTGAAATTGATTTGCATATGG
1 TTATACATTGCCGAAATT-GATTTGTAT-ATGGTTATACATTGCTGAAATTGATTTGTATATGG
* * * * *
13319485 GTATA-AGTTGCCG-AATTGATTTGTATATGATTGTACATTGCTGAAATTAATTTGTACATGG
1 TTATACA-TTGCCGAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGG
* * * * * *
13319546 TTATACATTGTCGAAATTGATTTGCATATGGGTATA-AGTTACCG-AATTGATTTGTATATGA
1 TTATACATTGCCGAAATTGATTTGTATATGGTTATACA-TTGCTGAAATTGATTTGTATATGG
* * * * * * *
13319607 TTGTACATTGCTGAAATTAATTTGTACATGGTTATAAATTGTTGAAATTGAATTGTATATGG
1 TTATACATTGCCGAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGG
* * * * *
13319669 ATATA-AGTTGCCG-AATTGATTTGTATATGATTATATATTGCTGAAATTAATTTGTACATGG
1 TTATACA-TTGCCGAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGG
** * * * *
13319730 TTATACATTGTTGAAATTGAATTGTATATGGATATA-AGTTGCCG-AATTGATTTGTATATGA
1 TTATACATTGCCGAAATTGATTTGTATATGGTTATACA-TTGCTGAAATTGATTTGTATATGG
* * * * * *
13319791 TTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGG
1 TTATACATTGCCGAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGG
* * * * * *
13319853 ATATA-AGTTGCCG-AATCGATTCGTATATGGTTATACATTGCTGAATTTAATTTGTATATGA
1 TTATACA-TTGCCGAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGG
** * * ** * ** *
13319914 TTATACATTTTCGAACTAGATTCATATATGGTTATACATTGCTG-ATTTTTTTTGTATATAG
1 TTATACATTGCCGAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGG
* * * * ** * *
13319975 ATATACATTGCCGAATTTGGTTCGTATATGAATATATATTGCTG-AATTTATTTG
1 TTATACATTGCCGAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTTG
13320029 AGCATTGGAT
Statistics
Matches: 432, Mismatches: 96, Indels: 33
0.77 0.17 0.06
Matches are distributed among these distances:
61 292 0.68
62 140 0.32
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (62 bp):
TTATACATTGCCGAAATTGATTTGTATATGGTTATACATTGCTGAAATTGATTTGTATATGG
Found at i:13319538 original size:31 final size:31
Alignment explanation
Indices: 13319454--13320028 Score: 357
Period size: 31 Copynumber: 18.8 Consensus size: 31
13319444 TTGTTCATAG
* * * *
13319454 TTATACATTGTTGAAATTGATTTGCATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * *
13319485 GTATA-AGTTGCCG-AATTGATTTGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * *
13319515 TTGTACATTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * *
13319546 TTATACATTG-TCGAAATTGATTTGCATATGG
1 TTATACATTGCT-GAAATTAATTTGTATATGA
* * * *
13319577 GTATA-AGTTACCG-AATTGATTTGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * *
13319607 TTGTACATTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
* *
13319638 TTATAAATTGTTGAAATTGAA-TTGTATATGGA
1 TTATACATTGCTGAAATT-AATTTGTATAT-GA
* *
13319670 -TATA-AGTTGCCG-AATTGATTTGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * *
13319699 TTATATATTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
*
13319730 TTATACATTGTTGAAATTGAA-TTGTATATGGA
1 TTATACATTGCTGAAATT-AATTTGTATAT-GA
* *
13319762 -TATA-AGTTGCCG-AATTGATTTGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
* * *
13319791 TTATATATTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGA
*
13319822 TTATACATTGTTGAAATTGAA-TTGTATATGGA
1 TTATACATTGCTGAAATT-AATTTGTATAT-GA
* ** * *
13319854 -TATA-AGTTGCCG-AATCGATTCGTATATGG
1 TTATACA-TTGCTGAAATTAATTTGTATATGA
*
13319883 TTATACATTGCTGAATTTAATTTGTATATGA
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * ** *
13319914 TTATACATT-TTCG-AACTAGATTCATATATGG
1 TTATACATTGCT-GAAATTA-ATTTGTATATGA
* **
13319945 TTATACATTGCTG-ATTTTTTTTGTATATAGA
1 TTATACATTGCTGAAATTAATTTGTATAT-GA
* * ** *
13319976 -TATACATTGCCGAATTTGGTTCGTATATGA
1 TTATACATTGCTGAAATTAATTTGTATATGA
* * *
13320006 ATATATATTGCTG-AATTTATTTG
1 TTATACATTGCTGAAATTAATTTG
13320029 AGCATTGGAT
Statistics
Matches: 419, Mismatches: 90, Indels: 71
0.72 0.16 0.12
Matches are distributed among these distances:
29 8 0.02
30 142 0.34
31 259 0.62
32 10 0.02
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
TTATACATTGCTGAAATTAATTTGTATATGA
Found at i:13319944 original size:276 final size:275
Alignment explanation
Indices: 13319423--13319991 Score: 770
Period size: 276 Copynumber: 2.1 Consensus size: 275
13319413 TTTGATTGTT
* * *
13319423 TTATATATTGCCGAATTCGAATTGTTCATAGTTATACATTGTTGAAATTGATTTGCATATGGGTA
1 TTATATATTGCCGAATTC-AATTGTACATAGTTATACATTGTTGAAATTGAATTGCATATGGATA
*
13319488 TAAGTTGCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATTTGTACATGGTTATACA
65 TAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATACA
* * * * *
13319553 TTGTCGAAATTGATTTGCATATGGGTATAAGTTACCGAATTGATTTGTATATGATTGTACATTGC
130 TTGTCGAAATTGAATTGCATATGGATATAAGTTACCGAATCGATTCGTATATGATTATACATTGC
* * *
13319618 TGAAATTAATTTGTACATGGTTATAAATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGA
195 TGAAATTAATTTGTACATGATTATAAATTGTTGAAATAGAATTATATATGGATATAAGTTGCCGA
13319683 ATTGATTTGTATATGA
260 ATTGATTTGTATATGA
* * *
13319699 TTATATATTGCTGAAATT-AATTTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGAT
1 TTATATATTGCCG-AATTCAA-TTGTACATAGTTATACATTGTTGAAATTGAATTGCATATGGAT
*
13319763 ATAAGTTGCCGAATTGATTTGTATATGATTATATATTGCTGAAATTAATTTGTACATGGTTATAC
64 ATAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATAC
* * * *
13319828 ATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATCGATTCGTATATGGTTATACATTG
129 ATTGTCGAAATTGAATTGCATATGGATATAAGTTACCGAATCGATTCGTATATGATTATACATTG
* * * * *
13319893 CTGAATTTAATTTGTATATGATTATACATT-TTCGAACTAG-ATTCATATATGGTTATACA-TTG
194 CTGAAATTAATTTGTACATGATTATAAATTGTT-GAAATAGAATT-ATATATGGATATA-AGTTG
* * **
13319955 CTGATTTTTTTTGTATATAGA
256 CCGAATTGATTTGTATAT-GA
*
13319976 -TATACATTGCCGAATT
1 TTATATATTGCCGAATT
13319992 TGGTTCGTAT
Statistics
Matches: 256, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
275 11 0.04
276 238 0.93
277 7 0.03
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (275 bp):
TTATATATTGCCGAATTCAATTGTACATAGTTATACATTGTTGAAATTGAATTGCATATGGATAT
AAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATACAT
TGTCGAAATTGAATTGCATATGGATATAAGTTACCGAATCGATTCGTATATGATTATACATTGCT
GAAATTAATTTGTACATGATTATAAATTGTTGAAATAGAATTATATATGGATATAAGTTGCCGAA
TTGATTTGTATATGA
Found at i:13319970 original size:184 final size:183
Alignment explanation
Indices: 13319444--13319985 Score: 757
Period size: 184 Copynumber: 2.9 Consensus size: 183
13319434 CGAATTCGAA
* * * * *
13319444 TTGTTCATAGTTATACATTGTTGAAATTGATTTGCATATGGGTATAAGTTGCCGAATTGATTTGT
1 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* * *
13319509 ATATGATTGTACATTGCTGAAATTAATTTGTACATGGTTATACATTGTCGAAATTGATTTGCATA
66 ATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATACATTTTCGAAATTGA-TTGTATA
* * *
13319574 TGGGTATAAGTTACCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAAT
130 TGGATATAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAAT
*
13319628 TTGTACATGGTTATAAATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
*
13319693 ATATGATTATATATTGCTGAAATTAATTTGTACATGGTTATACATTGTT-GAAATTGAATTGTAT
66 ATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATACATT-TTCGAAATTG-ATTGTAT
*
13319757 ATGGATATAAGTTGCCGAATTGATTTGTATATGATTATATATTGCTGAAATTAAT
129 ATGGATATAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAAT
* *
13319812 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATCGATTCGT
1 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* * * * * * *
13319877 ATATGGTTATACATTGCTGAATTTAATTTGTATATGATTATACATTTTCGAACTAGATTCATATA
66 ATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATACATTTTCGAAATTGATT-GTATA
* * * **
13319942 TGGTTATACA-TTGCTGATTTTTTTTGTATATAGA-TATACATTGC
130 TGGATATA-AGTTGCCGAATTGATTTGTATAT-GATTATACATTGC
13319986 CGAATTTGGT
Statistics
Matches: 321, Mismatches: 31, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
183 5 0.02
184 311 0.97
185 5 0.02
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.43
Consensus pattern (183 bp):
TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
ATATGATTATACATTGCTGAAATTAATTTGTACATGGTTATACATTTTCGAAATTGATTGTATAT
GGATATAAGTTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTAAT
Found at i:13319985 original size:92 final size:92
Alignment explanation
Indices: 13319444--13319922 Score: 769
Period size: 92 Copynumber: 5.2 Consensus size: 92
13319434 CGAATTCGAA
* * * * *
13319444 TTGTTCATAGTTATACATTGTTGAAATTGATTTGCATATGGGTATAAGTTGCCGAATTGATTTGT
1 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
*
13319509 ATATGATTGTACATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * * * *
13319536 TTGTACATGGTTATACATTGTCGAAATTGATTTGCATATGGGTATAAGTTACCGAATTGATTTGT
1 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
*
13319601 ATATGATTGTACATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
*
13319628 TTGTACATGGTTATAAATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
*
13319693 ATATGATTATATATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
13319720 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
*
13319785 ATATGATTATATATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* *
13319812 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATCGATTCGT
1 TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* *
13319877 ATATGGTTATACATTGCTGAATTTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* *
13319904 TTGTATATGATTATACATT
1 TTGTACATGGTTATACATT
13319923 TTCGAACTAG
Statistics
Matches: 367, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 367 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (92 bp):
TTGTACATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
ATATGATTATACATTGCTGAAATTAAT
Found at i:13332689 original size:16 final size:16
Alignment explanation
Indices: 13332668--13332701 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13332658 TGTATTCTTT
13332668 TTTTGGTTAATCTAAC
1 TTTTGGTTAATCTAAC
**
13332684 TTTTGGTTCCTCTAAC
1 TTTTGGTTAATCTAAC
13332700 TT
1 TT
13332702 GTCGGCTCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTTGGTTAATCTAAC
Found at i:13334067 original size:38 final size:38
Alignment explanation
Indices: 13334016--13334093 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
13334006 AAGCCAGGTC
13334016 TGATTTTCACGAACACAGTGCATTAACTTTTCAAAACT
1 TGATTTTCACGAACACAGTGCATTAACTTTTCAAAACT
13334054 TGATTTTCACGAACACAGTGCATTAACTTTTCAAAACT
1 TGATTTTCACGAACACAGTGCATTAACTTTTCAAAACT
13334092 TG
1 TG
13334094 TATCCAAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (38 bp):
TGATTTTCACGAACACAGTGCATTAACTTTTCAAAACT
Found at i:13338754 original size:17 final size:17
Alignment explanation
Indices: 13338712--13338758 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
13338702 AATTCAATTT
13338712 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
13338728 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
13338746 TAATATAAATAAT
1 TAATATAAATAAT
13338759 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:13339019 original size:30 final size:31
Alignment explanation
Indices: 13338980--13339039 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
13338970 GGGAGGTGGA
*
13338980 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
13339011 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
13339040 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:13339270 original size:9 final size:9
Alignment explanation
Indices: 13339252--13339297 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
13339242 TATAGTTTGA
*
13339252 TATTCAAAT
1 TATTCGAAT
13339261 TATTCGAAT
1 TATTCGAAT
*
13339270 TATTCAAAT
1 TATTCGAAT
**
13339279 TATTCGAGC
1 TATTCGAAT
13339288 TATTCGAAT
1 TATTCGAAT
13339297 T
1 T
13339298 CGAAAACTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:13339291 original size:18 final size:18
Alignment explanation
Indices: 13339252--13339297 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
13339242 TATAGTTTGA
*
13339252 TATTCAAATTATTCGAAT
1 TATTCAAATTATTCGAAC
*
13339270 TATTCAAATTATTCGAGC
1 TATTCAAATTATTCGAAC
*
13339288 TATTCGAATT
1 TATTCAAATT
13339298 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (18 bp):
TATTCAAATTATTCGAAC
Found at i:13344761 original size:16 final size:16
Alignment explanation
Indices: 13344740--13344773 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
13344730 CAAAAATACA
13344740 GAACAAATGTATATTC
1 GAACAAATGTATATTC
13344756 GAACAAATGTATATTC
1 GAACAAATGTATATTC
13344772 GA
1 GA
13344774 GTCTGCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (16 bp):
GAACAAATGTATATTC
Found at i:13347283 original size:20 final size:22
Alignment explanation
Indices: 13347255--13347295 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13347245 TAAGAAATGT
13347255 GGAAAAAG-A-AAGAAAAAAAG
1 GGAAAAAGAAGAAGAAAAAAAG
*
13347275 GGAAGAAGAAGAAGAAAAAAA
1 GGAAAAAGAAGAAGAAAAAAA
13347296 ATAAAGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (22 bp):
GGAAAAAGAAGAAGAAAAAAAG
Found at i:13348120 original size:10 final size:10
Alignment explanation
Indices: 13348107--13348136 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13348097 AATATAAAAA
*
13348107 ATAATTTATT
1 ATAACTTATT
13348117 ATAACTTATT
1 ATAACTTATT
13348127 ATAACTTATT
1 ATAACTTATT
13348137 TTTAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (10 bp):
ATAACTTATT
Found at i:13348609 original size:21 final size:21
Alignment explanation
Indices: 13348585--13348624 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13348575 TTTGATTCAC
*
13348585 CGTCATCATCATTATCATCGT
1 CGTCATCATCATCATCATCGT
* *
13348606 CGTCGTCGTCATCATCATC
1 CGTCATCATCATCATCATC
13348625 ACTTTCTCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (21 bp):
CGTCATCATCATCATCATCGT
Found at i:13350110 original size:72 final size:73
Alignment explanation
Indices: 13350018--13350192 Score: 239
Period size: 72 Copynumber: 2.4 Consensus size: 73
13350008 TCACATATAA
* * *
13350018 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
13350082 GACCAAAC
66 AACCAAAC
* * *
13350090 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAA
13350153 AAACCAAAC
65 AAACCAAAC
* *
13350162 ATAAATAACTATTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
13350193 TTGTTGTTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
71 1 0.01
72 84 0.95
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.26
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
AACCAAAC
Found at i:13351991 original size:44 final size:45
Alignment explanation
Indices: 13351926--13352024 Score: 168
Period size: 44 Copynumber: 2.2 Consensus size: 45
13351916 ACGCCTCCTC
13351926 CTTTTACCT-ATTGCTATCTTCTTCTTTTTC-TTTTTCTCCC-CTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTTC-CCCACTT
13351969 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTTCCCCACTT
1 CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTTCCCCACTT
13352014 CTTTTACCTAA
1 CTTTTACCTAA
13352025 ATCAGATTGC
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
43 9 0.17
44 24 0.45
45 20 0.38
ACGTcount: A:0.11, C:0.29, G:0.02, T:0.58
Consensus pattern (45 bp):
CTTTTACCTAATTGCTATCTTCTTCTTTTTCTTTTTTCCCCACTT
Found at i:13353725 original size:25 final size:25
Alignment explanation
Indices: 13353678--13353725 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13353668 AACCAACACC
*
13353678 AGCACCAACAGAAGAACAGAGAACT
1 AGCACCAACAGAAGAACAAAGAACT
* * *
13353703 AGCACCAGCAGAGGATCAAAGAA
1 AGCACCAACAGAAGAACAAAGAA
13353726 GCAGCGATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.04
Consensus pattern (25 bp):
AGCACCAACAGAAGAACAAAGAACT
Found at i:13369000 original size:45 final size:45
Alignment explanation
Indices: 13368925--13369058 Score: 187
Period size: 45 Copynumber: 3.0 Consensus size: 45
13368915 ATGTGTACCG
* *
13368925 GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCTCCT
1 GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCA
* ** * *
13368970 GGTATCATTGATTATAAAGGTGACTATTGTGTGTTGATTCCACCA
1 GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCA
* *
13369015 GGTACCATTGATTATGAAGGTGGTTGTTATGTGCTGATTCCACC
1 GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACC
13369059 GTGTATCTGT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (45 bp):
GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCA
Found at i:13375525 original size:26 final size:29
Alignment explanation
Indices: 13375464--13375527 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 29
13375454 TACACGTAAA
13375464 ATATAT-TAAAAATAATTAAATAATATCT
1 ATATATATAAAAATAATTAAATAATATCT
* *
13375492 ACAT-TATAAAAA-AA-TAAAT-ATATGT
1 ATATATATAAAAATAATTAAATAATATCT
13375517 ATATATATAAA
1 ATATATATAAA
13375528 CATGAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 8 0.26
26 11 0.35
27 3 0.10
28 9 0.29
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (29 bp):
ATATATATAAAAATAATTAAATAATATCT
Found at i:13394421 original size:47 final size:47
Alignment explanation
Indices: 13394199--13394795 Score: 825
Period size: 47 Copynumber: 12.4 Consensus size: 47
13394189 CAGCCAAGAG
* * *
13394199 AGTGTATATGTGTAATAAGGCCTAATGGCCGATGTGATGACTGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
13394246 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
13394295 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
13394346 AGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AG----TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
13394397 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
13394444 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
13394491 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
13394542 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
13394589 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
13394636 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
13394683 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
13394730 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
13394777 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
13394796 TCCCGAAAGG
Statistics
Matches: 507, Mismatches: 31, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
47 327 0.64
49 42 0.08
51 134 0.26
53 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:13394493 original size:145 final size:144
Alignment explanation
Indices: 13394201--13394744 Score: 860
Period size: 145 Copynumber: 3.7 Consensus size: 144
13394191 GCCAAGAGAG
* * *
13394201 TGTATATGTGTAATAAGGCCTAATGGCCGATGTGATGACTGTGAAAGTGTATGTATATGTGATAA
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA--TATATGTGATAA
* *
13394266 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTGATAAGGCCTAATGGCCGA
64 GGCCTAATAGCCGACGTGATGAATGTGAAA--G--TGTATATATGTGATAAGGCCTAATGGCCGA
13394331 TGTGATGAATGTGAAAGTATA
125 TGTGATGAATGTGAAAGT-TA
*
13394352 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
13394417 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGAT
66 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
13394482 GAATGTGAAAGTGTA
131 GAATGTGAAAGT-TA
*
13394497 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
13394562 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGAT
66 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
13394627 GAATGTGAAAG---
131 GAATGTGAAAGTTA
* * *
13394638 TGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
13394703 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
66 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGA
13394745 CAGGGCCGAG
Statistics
Matches: 376, Mismatches: 17, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
141 100 0.27
145 188 0.50
147 1 0.00
149 39 0.10
151 48 0.13
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (144 bp):
TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTTA
Found at i:13394970 original size:37 final size:37
Alignment explanation
Indices: 13394914--13394992 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
13394904 CCGAGCTCTA
* * *
13394914 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
13394951 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13394988 AAGAC
1 AAGAC
13394993 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13396823 original size:48 final size:48
Alignment explanation
Indices: 13396752--13396847 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
13396742 TTTCTTTGCT
* * *
13396752 TAAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
1 TAAAAACGCCTAAATCAGCCTAACTCACAATAATAAAGGATTCAACAG
* *
13396800 TAAAAACGCCTAAATCGGCCTAACTTACAATAATAAAGGATTCAACAG
1 TAAAAACGCCTAAATCAGCCTAACTCACAATAATAAAGGATTCAACAG
13396848 AATTCCCTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAATCAGCCTAACTCACAATAATAAAGGATTCAACAG
Found at i:13397082 original size:19 final size:19
Alignment explanation
Indices: 13397058--13397111 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
13397048 AAAGCTGTAT
13397058 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
13397077 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
13397094 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
13397112 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:13397090 original size:36 final size:36
Alignment explanation
Indices: 13397043--13397111 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
13397033 TAAAGGCTAT
13397043 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAC
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAC
*
13397079 AATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGA
13397112 TTACATAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.26
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGACAC
Found at i:13397099 original size:17 final size:17
Alignment explanation
Indices: 13397043--13397103 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
13397033 TAAAGGCTAT
*
13397043 AATTAAAAGCTGTATAC
1 AATTAGAAGCTGTATAC
* *
13397060 AATTAGAA-CTCTAAGACAC
1 AATTAGAAGCTGT---ATAC
13397079 AATTAGAAGCTGTATAC
1 AATTAGAAGCTGTATAC
13397096 AATTAGAA
1 AATTAGAA
13397104 CTCTAAGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
19 11 0.31
20 3 0.09
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (17 bp):
AATTAGAAGCTGTATAC
Found at i:13399434 original size:48 final size:48
Alignment explanation
Indices: 13399363--13399457 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
13399353 TTCTTTGCTT
* *
13399363 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCACAATAATAAAGGATTCAACAGC
*
13399411 AAAAACGCCTAAGTCAGCCTAACTTACAATAATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCACAATAATAAAGGATTCAACAG
13399458 AATTCCCTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCACAATAATAAAGGATTCAACAGC
Found at i:13399683 original size:17 final size:17
Alignment explanation
Indices: 13399661--13399724 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
13399651 CATCAAATGC
*
13399661 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
13399678 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
13399697 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
13399714 TACAATTAGAA
1 TACAATTAGAA
13399725 CTTTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:13399710 original size:36 final size:36
Alignment explanation
Indices: 13399662--13399732 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
13399652 ATCAAATGCT
13399662 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
* *
13399698 ACAATTAGAAGCTGTATACAATTAGAACTTTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
13399733 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:13401445 original size:24 final size:24
Alignment explanation
Indices: 13401400--13401446 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
13401390 CATATTTTAA
* **
13401400 ATTTAATTTTATTTAAGTATTTTT
1 ATTTAAATTTATTTAAAAATTTTT
13401424 ATTTAAATTTATTTAAAAATTTT
1 ATTTAAATTTATTTAAAAATTTT
13401447 ATCAAATTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTAAATTTATTTAAAAATTTTT
Found at i:13406665 original size:21 final size:21
Alignment explanation
Indices: 13406640--13406681 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13406630 CTAGGTTTTA
*
13406640 ATTTGGGTC-TGTTTGGGTTTG
1 ATTTGGGCCATGTTT-GGTTTG
13406661 ATTTGGGCCATGTTTGGTTTG
1 ATTTGGGCCATGTTTGGTTTG
13406682 TTTATTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.07, C:0.07, G:0.36, T:0.50
Consensus pattern (21 bp):
ATTTGGGCCATGTTTGGTTTG
Found at i:13411321 original size:221 final size:222
Alignment explanation
Indices: 13410938--13411382 Score: 874
Period size: 221 Copynumber: 2.0 Consensus size: 222
13410928 GTTTTAACTT
13410938 CTGTCTATATCAATCCATGTGACCAACATTGTAACAACTAAGATTGACAAAGAAAGAAGAGGAAA
1 CTGTCTATATCAATCCATGTGACCAACATTGTAACAACTAAGATTGACAAAGAAAGAAGAGGAAA
13411003 CAATAGAAGTGAATGCAGAGAGATAACAGTTTTAGCAATTGAGGCCAAAATATGTCAGTTTCCAC
66 CAATAGAAGTGAATGCAGAGAGATAACAGTTTTAGCAATTGAGGCCAAAATATGTCAGTTTCCAC
13411068 TCAACAACCTAAATCCTAGCTTTTGGGGTTCTAGAAAAAT-AAAAAAATATTGAAACTCGCACTC
131 TCAACAACCTAAATCCTAGCTTTTGGGGTTCTAGAAAAATAAAAAAAATATTGAAACTCGCACTC
*
13411132 TTACGACAACCTAAATTCATGTTCTCA
196 TTACGACAACCTAAATCCATGTTCTCA
13411159 CTGTCTATATCAATCCATGTGACCAACATTGTAACAACTAAGATTGACAAAGAAAGAAGAGGAAA
1 CTGTCTATATCAATCCATGTGACCAACATTGTAACAACTAAGATTGACAAAGAAAGAAGAGGAAA
13411224 CAATAGAAGTGAATGCAGAGAGATAACAGTTTTAGCAATTGAGGCCAAAATATGTCAGTTTCCAC
66 CAATAGAAGTGAATGCAGAGAGATAACAGTTTTAGCAATTGAGGCCAAAATATGTCAGTTTCCAC
13411289 TCAACAACCTAAATCCTAGCTTTTGGGGTTCTAGAAAAATAAAAAAAATATTGAAACTCGCACTC
131 TCAACAACCTAAATCCTAGCTTTTGGGGTTCTAGAAAAATAAAAAAAATATTGAAACTCGCACTC
13411354 TTACGACAACCTAAATCCATGTTCTCA
196 TTACGACAACCTAAATCCATGTTCTCA
13411381 CT
1 CT
13411383 TCTTTTCCAA
Statistics
Matches: 222, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
221 170 0.77
222 52 0.23
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (222 bp):
CTGTCTATATCAATCCATGTGACCAACATTGTAACAACTAAGATTGACAAAGAAAGAAGAGGAAA
CAATAGAAGTGAATGCAGAGAGATAACAGTTTTAGCAATTGAGGCCAAAATATGTCAGTTTCCAC
TCAACAACCTAAATCCTAGCTTTTGGGGTTCTAGAAAAATAAAAAAAATATTGAAACTCGCACTC
TTACGACAACCTAAATCCATGTTCTCA
Found at i:13418868 original size:3 final size:3
Alignment explanation
Indices: 13418860--13418899 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
13418850 ATTTATGACC
13418860 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13418900 GTTTTAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13420146 original size:14 final size:14
Alignment explanation
Indices: 13420129--13420194 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 14
13420119 ATAAAAATTA
13420129 AAAAAAAGTATTTT
1 AAAAAAAGTATTTT
13420143 --AAAAA-TATTTT
1 AAAAAAAGTATTTT
13420154 AAAATTAAAAAAAGTATTTT
1 --AA--AA-AAA-GTATTTT
13420174 AAAAAAAGTATTTT
1 AAAAAAAGTATTTT
13420188 AAAAAAA
1 AAAAAAA
13420195 ATTTAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 18
0.70 0.00 0.30
Matches are distributed among these distances:
11 6 0.14
12 5 0.12
14 14 0.33
15 3 0.07
16 2 0.05
17 2 0.05
18 5 0.12
20 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
AAAAAAAGTATTTT
Found at i:13420153 original size:45 final size:42
Alignment explanation
Indices: 13420103--13420249 Score: 158
Period size: 45 Copynumber: 3.5 Consensus size: 42
13420093 ACCAAAAATT
13420103 TATTTTAAAAATTAAAATAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAA-AAAAATT-AAAAAAAGTATTTTAAAAA
*
13420148 TATTTTAAAATTAAAAAAAGTATTTTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAA--A-ATTAAAAAAAGTATTTTAAAAA
* * * *
13420193 AAATTTAAAA-T-AAAAAAAA-TAAAAATA-TATTTTAAAAG
1 TATTTTAAAATTAAAAAAAAATTAAAAAAAGTATTTTAAAAA
*
13420231 TATTTTAAAAATAAAAAAA
1 TATTTTAAAATTAAAAAAA
13420250 TAAAAATATT
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
38 18 0.20
39 8 0.09
40 6 0.07
41 1 0.01
43 9 0.10
44 11 0.12
45 34 0.38
46 2 0.02
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (42 bp):
TATTTTAAAATTAAAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:13420179 original size:13 final size:14
Alignment explanation
Indices: 13420158--13420194 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
13420148 TATTTTAAAA
13420158 TTAAAAAAAGTATT
1 TTAAAAAAAGTATT
13420172 TTAAAAAAAGTATT
1 TTAAAAAAAGTATT
13420186 TTAAAAAAA
1 TTAAAAAAA
13420195 ATTTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (14 bp):
TTAAAAAAAGTATT
Found at i:13420195 original size:31 final size:29
Alignment explanation
Indices: 13420128--13420195 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 29
13420118 AATAAAAATT
13420128 AAAAAAAAGTATTTTAAAAATATTTTAAA
1 AAAAAAAAGTATTTTAAAAATATTTTAAA
13420157 ATTAAAAAAAGTATTTTAAAAAAAGTATTTTAAA
1 A--AAAAAAAGTATTTT--AAAAA-TATTTTAAA
13420191 AAAAA
1 AAAAA
13420196 TTTAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
29 1 0.03
31 14 0.41
32 4 0.12
33 5 0.15
34 10 0.29
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAAAAAAGTATTTTAAAAATATTTTAAA
Found at i:13420217 original size:15 final size:16
Alignment explanation
Indices: 13420187--13420219 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13420177 AAAAGTATTT
*
13420187 TAAAAAAAATTTAAAA
1 TAAAAAAAATTAAAAA
13420203 TAAAAAAAA-TAAAAA
1 TAAAAAAAATTAAAAA
13420218 TA
1 TA
13420220 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAAAAAAATTAAAAA
Found at i:13423117 original size:15 final size:15
Alignment explanation
Indices: 13423075--13423127 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13423065 TTATATACTT
*
13423075 TTAATTAAA-TCTAA
1 TTAATTAAACTTTAA
* *
13423089 TTAATCATAA-TTTAT
1 TTAATTA-AACTTTAA
13423104 TTAATTAAACTTTAA
1 TTAATTAAACTTTAA
13423119 TTAATTAAA
1 TTAATTAAA
13423128 AATTAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 8 0.25
15 24 0.75
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAATTAAACTTTAA
Done.