Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 71 of 182
Found at i:21487542 original size:13 final size:13
Alignment explanation
Indices: 21487526--21487565 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
21487516 TTACTCTCTC
21487526 TTTTTTGCGCTTT
1 TTTTTTGCGCTTT
*
21487539 TTTTTT-TGCTTT
1 TTTTTTGCGCTTT
*
21487551 TTTTTGGCGCTTT
1 TTTTTTGCGCTTT
21487564 TT
1 TT
21487566 ACTCTCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.72
Consensus pattern (13 bp):
TTTTTTGCGCTTT
Found at i:21487546 original size:46 final size:46
Alignment explanation
Indices: 21487482--21487587 Score: 166
Period size: 46 Copynumber: 2.3 Consensus size: 46
21487472 TAGGCAACTT
21487482 TTTTTTGCG--TTTTTTTTTGC-TTTTTTT-GCGCTTTTTACTCTCTC
1 TTTTTTGCGCTTTTTTTTTTGCTTTTTTTTGGCGCTTTTTA--CTCTC
21487526 TTTTTTGCGCTTTTTTTTTTGCTTTTTTTTGGCGCTTTTTACTCTC
1 TTTTTTGCGCTTTTTTTTTTGCTTTTTTTTGGCGCTTTTTACTCTC
21487572 TTTTTTGCGCTTTTTT
1 TTTTTTGCGCTTTTTT
21487588 GCTTTTTTTG
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
44 9 0.16
46 32 0.55
47 7 0.12
48 10 0.17
ACGTcount: A:0.02, C:0.17, G:0.12, T:0.69
Consensus pattern (46 bp):
TTTTTTGCGCTTTTTTTTTTGCTTTTTTTTGGCGCTTTTTACTCTC
Found at i:21487551 original size:10 final size:10
Alignment explanation
Indices: 21487538--21487633 Score: 63
Period size: 10 Copynumber: 9.4 Consensus size: 10
21487528 TTTTGCGCTT
21487538 TTTTTTTTGC
1 TTTTTTTTGC
21487548 TTTTTTTTGGCGC
1 TTTTTTTT---GC
**
21487561 TTTTTACT-C
1 TTTTTTTTGC
*
21487570 TCTTTTTTGC
1 TTTTTTTTGC
**
21487580 GCTTTTTTGC
1 TTTTTTTTGC
*
21487590 -TTTTTTTGT
1 TTTTTTTTGC
21487599 TTTTTTTTGC
1 TTTTTTTTGC
*
21487609 -TGTTTTTGC
1 TTTTTTTTGC
21487618 TGTTTTTTTTGC
1 --TTTTTTTTGC
21487630 TTTT
1 TTTT
21487634 ATTTAAAGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
9 21 0.31
10 30 0.45
12 8 0.12
13 8 0.12
ACGTcount: A:0.01, C:0.12, G:0.14, T:0.73
Consensus pattern (10 bp):
TTTTTTTTGC
Found at i:21487602 original size:48 final size:47
Alignment explanation
Indices: 21487491--21487603 Score: 149
Period size: 48 Copynumber: 2.3 Consensus size: 47
21487481 TTTTTTTGCG
*
21487491 TTTTTTTTTGCTTTTTTTGCGCTTTTTACTCTCTCTTTTTTGCGCTTTT
1 TTTTTTTTTG-TTTTTTGGCGCTTTTTAC-CTCTCTTTTTTGCGCTTTT
*
21487540 TTTTTTGCTT-TTTTTTGGCGCTTTTTA-CTCTCTTTTTTGCGCTTTT
1 TTTTTT-TTTGTTTTTTGGCGCTTTTTACCTCTCTTTTTTGCGCTTTT
21487586 TTGCTTTTTTTGTTTTTT
1 TT--TTTTTTTGTTTTTT
21487604 TTTGCTGTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
46 21 0.37
47 2 0.04
48 26 0.46
49 6 0.11
50 2 0.04
ACGTcount: A:0.02, C:0.16, G:0.12, T:0.71
Consensus pattern (47 bp):
TTTTTTTTTGTTTTTTGGCGCTTTTTACCTCTCTTTTTTGCGCTTTT
Found at i:21488233 original size:31 final size:32
Alignment explanation
Indices: 21488174--21488238 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
21488164 GGCAAATTAC
21488174 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
21488206 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
21488237 AA
1 AA
21488239 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:21490436 original size:22 final size:22
Alignment explanation
Indices: 21490406--21490477 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
21490396 AGCTCAACCC
*
21490406 ATATTAAATATATATATTTAAT
1 ATATAAAATATATATATTTAAT
*
21490428 ATATAAAATATATATATTTGAT
1 ATATAAAATATATATATTTAAT
*
21490450 -TA-AAAGTAAATATATATTTAAT
1 ATATAAA--ATATATATATTTAAT
21490472 ATATAA
1 ATATAA
21490478 TTCGAGCTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
20 3 0.07
21 2 0.05
22 33 0.79
23 2 0.05
24 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (22 bp):
ATATAAAATATATATATTTAAT
Found at i:21491068 original size:2 final size:2
Alignment explanation
Indices: 21491061--21491089 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21491051 CAAATGAGGA
21491061 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21491090 AGAAAGCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21492150 original size:15 final size:16
Alignment explanation
Indices: 21492130--21492180 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 16
21492120 ACACTATAAA
21492130 ATATTTAT-TATTAAT
1 ATATTTATATATTAAT
*
21492145 ATATTTATAATTTTAAT
1 ATATTTAT-ATATTAAT
* * *
21492162 ATATTAAAACATTAAT
1 ATATTTATATATTAAT
21492178 ATA
1 ATA
21492181 AATATTTTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 8 0.28
16 9 0.31
17 12 0.41
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATTTATATATTAAT
Found at i:21492268 original size:7 final size:7
Alignment explanation
Indices: 21492211--21492254 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
21492201 GAATAATATT
*
21492211 ATTTGAA
1 ATTTAAA
21492218 ATTTAAA
1 ATTTAAA
21492225 ATTTAAA
1 ATTTAAA
**
21492232 A-TTATT
1 ATTTAAA
21492238 ATTTAAA
1 ATTTAAA
21492245 ATTTAAA
1 ATTTAAA
21492252 ATT
1 ATT
21492255 ATTATTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 4 0.13
7 27 0.87
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (7 bp):
ATTTAAA
Found at i:21492275 original size:20 final size:20
Alignment explanation
Indices: 21492218--21492269 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
21492208 ATTATTTGAA
21492218 ATTTAAAATTTAAAATTATT
1 ATTTAAAATTTAAAATTATT
21492238 ATTTAAAATTTAAAATTATT
1 ATTTAAAATTTAAAATTATT
*
21492258 ATTTTAAATTTA
1 ATTTAAAATTTA
21492270 TTATTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTAAAATTTAAAATTATT
Found at i:21492283 original size:31 final size:30
Alignment explanation
Indices: 21492224--21492312 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 30
21492214 TGAAATTTAA
*
21492224 AATTTAAAATTATTATTTAAAATTTAAAATTATT
1 AATTTTAAATTATTA-TTAAAA--TAAAATT-TT
21492258 -ATTTTAAATTTATTATTAAAATAAAATTTT
1 AATTTTAAA-TTATTATTAAAATAAAATTTT
* *
21492288 AATATTAAATAATTTATTAAAATAA
1 AATTTTAAATTA-TTATTAAAATAA
21492313 TAATATGTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
30 4 0.08
31 26 0.53
33 13 0.27
34 6 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
AATTTTAAATTATTATTAAAATAAAATTTT
Found at i:21496949 original size:50 final size:49
Alignment explanation
Indices: 21496874--21497545 Score: 270
Period size: 50 Copynumber: 13.5 Consensus size: 49
21496864 GCAATTAAAA
* * * * *
21496874 AGATTGAAGCTGCAATGGTGAATCTTACTTCCCTGGCGATGCAGTGGAGC
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAAC
* * * * * ** *
21496924 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCA-TGCAGTGGAAC
* * * * *
21496974 AGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCCATGTAGTGGATC
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGG-CATGCAGTGGAAC
* * * * * * ** *
21497024 AGATTGAAGCTACAACGGTGAATCTT-GTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCA-TGCAGTGGAAC
** * * * * * * *
21497073 AGATTGAAGCCGCAACGACAAATCTTACTTTCTTGGCAGTGTAGTGGAGC
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCA-TGCAGTGGAAC
* * * * * * * *
21497123 AGATT-AAGGCTACGACGGTGAATCATGCTTCCCCGACATCGCAAT-TAAA
1 AGATTGAA-GCTACGACGGCGAATCTTACTTCCCTGGCAT-GCAGTGGAAC
* *
21497172 AGATTGAAG-T-CGCAACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACG--ACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAAC
* * * * ** *
21497222 AGATTGAAGCTACAACGGTGAATCTTA-TTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCA-TGCAGTGGAAC
* * *
21497271 AGATTGAAG-T-CGTAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCTACG--ACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAAC
* *** * * ** * * *
21497321 AGATTAAAGCTACGACGAAAAATCTTGCTTCCCCGATATCGCAAT-TAAA
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCAT-GCAGTGGAAC
* * * *
21497370 AGATTGAAG-T-CGCAACGACGAATCTTACTTCCTTGGCGGTGCAGTGGAAT
1 AGATTGAAGCTACG--ACGGCGAATCTTACTTCCCTGGC-ATGCAGTGGAAC
* * * * ** *
21497420 AGATTGAAGCTACAACGGCGAATCCTA-TTCCCTGACATTGCAATTTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCA-TGC-AGTGGAAC
* * * * * * * * *
21497470 AAATTAAAGCTGCAACGACGAATCTTACTTCTCTGGTAATGTAGTAGAAC
1 AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGG-CATGCAGTGGAAC
* *
21497520 AGATTGAAGCTACAACAGCGAATCTT
1 AGATTGAAGCTACGACGGCGAATCTT
21497546 GTTCCTCGAC
Statistics
Matches: 438, Mismatches: 153, Indels: 62
0.67 0.23 0.09
Matches are distributed among these distances:
47 5 0.01
48 5 0.01
49 139 0.32
50 271 0.62
51 13 0.03
52 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (49 bp):
AGATTGAAGCTACGACGGCGAATCTTACTTCCCTGGCATGCAGTGGAAC
Found at i:21497102 original size:99 final size:99
Alignment explanation
Indices: 21496861--21497558 Score: 783
Period size: 99 Copynumber: 7.0 Consensus size: 99
21496851 TACCTCTGAG
* * *
21496861 ATTGCAATTAAAAAGATTGAAGCTGCAATGGTGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* *
21496926 ATTAAAGCTACGACGGCGAATCTTGCTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTTG-TTCCCCGAC
* * * * *
21496961 ATTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCCATGTAGTGGATCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
*
21497026 ATTGAAGCTACAACGGTGAATCTTGTTCCCCGAC
66 ATTGAAGCTACAACGGCGAATCTTGTTCCCCGAC
* * * * *
21497060 ATTGCAATTAAAAAGATTGAAGCCGCAACGACAAATCTTACTTTCTTGGC-AGTGTAGTGGAGCA
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGA-TGCAGTGGAGCA
* * *
21497124 GATT-AAGGCTACGACGGTGAATCATGCTTCCCCGAC
65 GATTGAA-GCTACAACGGCGAATCTTG-TTCCCCGAC
* * * * *
21497160 ATCGCAATT-AAAAGATTGAAGTCGCAACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* * *
21497224 ATTGAAGCTACAACGGTGAATCTTATTCCCTGAC
66 ATTGAAGCTACAACGGCGAATCTTGTTCCCCGAC
* * * *
21497258 ATTGCAATTAAAAAGATTGAAGTCGTAACGGCGAATCTTACTTTCCTGGCGGTGCAGTGGAGCAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* * *** *
21497323 ATTAAAGCTACGACGAAAAATCTTGCTTCCCCGAT
66 ATTGAAGCTACAACGGCGAATCTTG-TTCCCCGAC
* * * * * **
21497358 ATCGCAATT-AAAAGATTGAAGTCGCAACGACGAATCTTACTTCCTTGGCGGTGCAGTGGAATAG
1 ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
* * *
21497422 ATTGAAGCTACAACGGCGAATCCTATTCCCTGAC
66 ATTGAAGCTACAACGGCGAATCTTGTTCCCCGAC
* * * * * ** * * *
21497456 ATTGCAATTTAAAAAAATTAAAGCTGCAACGACGAATCTTACTTCTCTGGTAATGTAGTAGAACA
1 ATTGCAA-TTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCA
* *
21497521 GATTGAAGCTACAACAGCGAATCTTGTTCCTCGAC
65 GATTGAAGCTACAACGGCGAATCTTGTTCCCCGAC
21497556 ATT
1 ATT
21497559 ACAGTTAGTT
Statistics
Matches: 512, Mismatches: 77, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
98 32 0.06
99 290 0.57
100 190 0.37
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (99 bp):
ATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGATGCAGTGGAGCAG
ATTGAAGCTACAACGGCGAATCTTGTTCCCCGAC
Found at i:21497297 original size:198 final size:197
Alignment explanation
Indices: 21496856--21497499 Score: 912
Period size: 198 Copynumber: 3.2 Consensus size: 197
21496846 ATTCATACCT
* * ** *
21496856 CTGAGATTGCAATTAAAAAGATTGAAGCTGCAATGGTGAATCTTACTTCCCTGGCGATGCAGTGG
1 CTGACATTGCAATTAAAAAGATTGAAGCTGCAACGACGAATCTTACTTTCCTGGCG-TGCAGTGG
* * * *
21496921 AGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCA
65 AGCAGATTAAAGCTACGACGGAGAATCTTGCTTCCCCGACATCGCAATT-AAAAGATTGAAGTCG
* * ** * * *
21496986 CAACGGTGAATCTTACTTCCCTGGCCATGTAGTGGATCAGATTGAAGCTACAACGGTGAATCTTG
129 CAACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTA
21497051 TTCC
194 TTCC
* * * * *
21497055 CCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACAAATCTTACTTTCTTGGCAGTGTAGTGG
1 CTGACATTGCAATTAAAAAGATTGAAGCTGCAACGACGAATCTTACTTTCCTGGC-GTGCAGTGG
* * *
21497120 AGCAGATTAAGGCTACGACGGTGAATCATGCTTCCCCGACATCGCAATTAAAAGATTGAAGTCGC
65 AGCAGATTAAAGCTACGACGGAGAATCTTGCTTCCCCGACATCGCAATTAAAAGATTGAAGTCGC
21497185 AACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTAT
130 AACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTAT
21497250 TCC
195 TCC
* *
21497253 CTGACATTGCAATTAAAAAGATTGAAG-TCGTAACGGCGAATCTTACTTTCCTGGCGGTGCAGTG
1 CTGACATTGCAATTAAAAAGATTGAAGCT-GCAACGACGAATCTTACTTTCCTGGC-GTGCAGTG
* * *
21497317 GAGCAGATTAAAGCTACGACGAAAAATCTTGCTTCCCCGATATCGCAATTAAAAGATTGAAGTCG
64 GAGCAGATTAAAGCTACGACGGAGAATCTTGCTTCCCCGACATCGCAATTAAAAGATTGAAGTCG
* * * *
21497382 CAACGACGAATCTTACTTCCTTGGCGGTGCAGTGGAATAGATTGAAGCTACAACGGCGAATCCTA
129 CAACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTA
21497447 TTCC
194 TTCC
* *
21497451 CTGACATTGCAATTTAAAAAAATTAAAGCTGCAACGACGAATCTTACTT
1 CTGACATTGCAA-TTAAAAAGATTGAAGCTGCAACGACGAATCTTACTT
21497500 CTCTGGTAAT
Statistics
Matches: 396, Mismatches: 45, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
198 266 0.67
199 128 0.32
200 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (197 bp):
CTGACATTGCAATTAAAAAGATTGAAGCTGCAACGACGAATCTTACTTTCCTGGCGTGCAGTGGA
GCAGATTAAAGCTACGACGGAGAATCTTGCTTCCCCGACATCGCAATTAAAAGATTGAAGTCGCA
ACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTATT
CC
Found at i:21497723 original size:90 final size:90
Alignment explanation
Indices: 21497568--21497978 Score: 606
Period size: 90 Copynumber: 4.6 Consensus size: 90
21497558 TACAGTTAGT
* ** * * * *
21497568 TAGACTGAAGATAGCAGATGTTACCTTCCTATATTGACAGTGAAATAGATCGAAGATAGCTAGTC
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
* *
21497633 TTGTCTTCTTGTATTGGCAGCAAAG
66 TTGTCTTCCTGTATTGGCAGCGAAG
*
21497658 TAGACTGAAGATAGCAGATCTTGTCTTTCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
** *
21497723 TTGTCTTCCTGTATTGGTGGCTAAG
66 TTGTCTTCCTGTATTGGCAGCGAAG
* * * *
21497748 TAGACTGAATATAGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATGGAAGATAGTAAGTC
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
* *
21497813 TTGTCTTCCTATATTGGTAGCGAAG
66 TTGTCTTCCTGTATTGGCAGCGAAG
* *
21497838 TAGACTGAAGATAGCAGTTCTTGTCTTCATGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
21497903 TTGTCTTCCTGTATTGGCAGCGAAG
66 TTGTCTTCCTGTATTGGCAGCGAAG
* **
21497928 TAGACTGAAGATAGCAGATCTTGTCTTCCTATATTGGCAACGAAGTAGATC
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
21497979 AAAAACCACA
Statistics
Matches: 288, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 288 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (90 bp):
TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAAGTC
TTGTCTTCCTGTATTGGCAGCGAAG
Found at i:21497972 original size:45 final size:45
Alignment explanation
Indices: 21497568--21497976 Score: 465
Period size: 45 Copynumber: 9.1 Consensus size: 45
21497558 TACAGTTAGT
* ** * * * *
21497568 TAGACTGAAGATAGCAGATGTTACCTTCCTATATTGACAGTGAAA
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAG
* *
21497613 TAGA-TCGAAGATAGCTAG-TCTTGTCTTCTTGTATTGGCAGCAAAG
1 TAGACT-GAAGATAGC-AGATCTTGTCTTCCTGTATTGGCAGCGAAG
* *
21497658 TAGACTGAAGATAGCAGATCTTGTCTTTCTGTATTGGCAGTGAAG
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAG
** *
21497703 TAGA-TCGAAGATAGCA-AGTCTTGTCTTCCTGTATTGGTGGCTAAG
1 TAGACT-GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAG
* * *
21497748 TAGACTGAATATAGTAGATCTTGTCTTCCTGTATTGGCAGTGAAG
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAG
* * *
21497793 TAGA-TGGAAGATAGTA-AGTCTTGTCTTCCTATATTGGTAGCGAAG
1 TAGACT-GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAG
* * *
21497838 TAGACTGAAGATAGCAGTTCTTGTCTTCATGTATTGGCAGTGAAG
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAG
21497883 TAGA-TCGAAGATAGCA-AGTCTTGTCTTCCTGTATTGGCAGCGAAG
1 TAGACT-GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAG
* *
21497928 TAGACTGAAGATAGCAGATCTTGTCTTCCTATATTGGCAACGAAG
1 TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAG
21497973 TAGA
1 TAGA
21497977 TCAAAAACCA
Statistics
Matches: 309, Mismatches: 39, Indels: 32
0.81 0.10 0.08
Matches are distributed among these distances:
44 8 0.03
45 293 0.95
46 8 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (45 bp):
TAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAG
Found at i:21499685 original size:18 final size:19
Alignment explanation
Indices: 21499659--21499703 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
21499649 TGTAATTTTT
* *
21499659 TTTCTTTTATATA-TATTA
1 TTTCATTTAAATAGTATTA
*
21499677 TTTCATTTAAATAGTTTTA
1 TTTCATTTAAATAGTATTA
21499696 TTTCATTT
1 TTTCATTT
21499704 TTACGTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTCATTTAAATAGTATTA
Found at i:21499981 original size:13 final size:13
Alignment explanation
Indices: 21499963--21499990 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21499953 TTTTTCATAT
21499963 ATAATATTTTGAA
1 ATAATATTTTGAA
21499976 ATAATATTTTGAA
1 ATAATATTTTGAA
21499989 AT
1 AT
21499991 TGTTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAATATTTTGAA
Found at i:21501083 original size:51 final size:52
Alignment explanation
Indices: 21500984--21501085 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 52
21500974 AAGACCATGT
*
21500984 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTGAAGACCATATTCTTTAGCGG
1 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATATTCTTTAGCGG
* * * *
21501036 TCTTTAGTGGCGCTTA-AAAAAAACGCCGCTAAAGATCATGTTTTTTAGCG
1 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATATTCTTTAGCG
21501086 CTATTTTTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 30 0.67
52 15 0.33
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (52 bp):
TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATATTCTTTAGCGG
Found at i:21501435 original size:21 final size:21
Alignment explanation
Indices: 21501386--21501435 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
21501376 TTTTGGCCTG
*
21501386 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
21501407 TTCCGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
21501428 CTCTGCTT
1 CTCTGCTT
21501436 TAAGTTGTAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.46, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:21506969 original size:9 final size:9
Alignment explanation
Indices: 21506951--21507184 Score: 204
Period size: 9 Copynumber: 25.8 Consensus size: 9
21506941 TGATATATTT
*
21506951 TTATCTAAG
1 TTATGTAAG
*
21506960 TTATGCAAG
1 TTATGTAAG
21506969 TTTATGTAAG
1 -TTATGTAAG
21506979 TTATGTAAG
1 TTATGTAAG
*
21506988 TTACT-TAAT
1 TTA-TGTAAG
21506997 TTATGTAAG
1 TTATGTAAG
*
21507006 TTATGGAAG
1 TTATGTAAG
* *
21507015 TTATTTAAT
1 TTATGTAAG
*
21507024 TTATGTAGG
1 TTATGTAAG
21507033 TTATGTAAG
1 TTATGTAAG
* *
21507042 TTATTTAAT
1 TTATGTAAG
*
21507051 TTATGCAAG
1 TTATGTAAG
*
21507060 TTTATGTATG
1 -TTATGTAAG
*
21507070 TTATGTAGG
1 TTATGTAAG
*
21507079 TTACT-TAAT
1 TTA-TGTAAG
21507088 TTATGTAAG
1 TTATGTAAG
21507097 TTATGTAAG
1 TTATGTAAG
* *
21507106 TTATTTAAT
1 TTATGTAAG
*
21507115 TTATGTAGG
1 TTATGTAAG
21507124 TTATGTAAG
1 TTATGTAAG
*
21507133 TTATGTAAC
1 TTATGTAAG
* *
21507142 TTATTTAAT
1 TTATGTAAG
21507151 TTAT-TCAAG
1 TTATGT-AAG
21507160 TTATGTAAG
1 TTATGTAAG
* * *
21507169 TAATTTAAT
1 TTATGTAAG
21507178 TTATGTA
1 TTATGTA
21507185 TAAGCTTGTA
Statistics
Matches: 178, Mismatches: 39, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
8 3 0.02
9 157 0.88
10 18 0.10
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:21507457 original size:27 final size:26
Alignment explanation
Indices: 21507417--21507468 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
21507407 TATTTAAACA
21507417 TTAACATTCAATAAATTACATTAATTGT
1 TTAACATTCAATAAATT--ATTAATTGT
*
21507445 TTAACA-TCGATAAATTATTAATTG
1 TTAACATTCAATAAATTATTAATTG
21507469 ACATAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
27 9 0.39
28 6 0.26
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (26 bp):
TTAACATTCAATAAATTATTAATTGT
Found at i:21510984 original size:76 final size:75
Alignment explanation
Indices: 21510858--21511014 Score: 260
Period size: 76 Copynumber: 2.1 Consensus size: 75
21510848 ATGTGCTTCA
* * **
21510858 GCGGCGTTTTTATAGAAACGCCACCAATTTTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
1 GCGGCGTTTTTACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
21510923 AACATTTTTTT
66 AACA-TTTTTT
*
21510934 GCGGCGTTTTTACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTACGCTGTGTTTTGTTT
1 GCGGCGTTTTTACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
21510999 AACATTTTTT
66 AACATTTTTT
21511009 GCGGCG
1 GCGGCG
21511015 CTTACAAACA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 12 0.16
76 64 0.84
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.39
Consensus pattern (75 bp):
GCGGCGTTTTTACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
AACATTTTTT
Found at i:21511134 original size:114 final size:114
Alignment explanation
Indices: 21510934--21511832 Score: 1519
Period size: 114 Copynumber: 7.9 Consensus size: 114
21510924 ACATTTTTTT
* * *
21510934 GCGGCGTTTTTACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTACGCTGTGTTTTGTTT
1 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
* *
21510999 AACATTTTTTGCGGCGCTTACAAACAAACGCCACTAATGATACACTTCA
66 AACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCACTTCA
* * * *
21511048 GCGGCATTTTTACAGAAACGCCACTAATTCTACTATACCTCAATCTTGCACGTTGCGTTTTGTTT
1 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
* * *
21511113 AACATTTTTTGCGGTGCTTACAAGCAAACGCTGCTAATGATCCACTTCA
66 AACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCACTTCA
* * *
21511162 GCGGCGTTTTGACAGAAACGCCACCAATTCTACTATACCTCAATCCTATACGCTGCGTTTTGTTT
1 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
* *
21511227 AACATTTTTTGCGGCGCTTACAAACAAATGCCGCTAATGATACACTTCA
66 AACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCACTTCA
*
21511276 GCGGCGTTTTTACAGAAATGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
1 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
* *
21511341 AACATTTTTTGCGGCGCTTACAAACAAATGCCGCTAATGATACACTTCA
66 AACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCACTTCA
*
21511390 GCGGCGTTTTTACAGAAATGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
1 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
* * *
21511455 AACATTTTTTGCGGCGCTTACAAACAAACACCGCTATTTATCCACTTCA
66 AACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCACTTCA
21511504 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
1 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
* * *
21511569 AACATTTTTTGCGGCGCTTACAAACAAACACCGCTATTTATCCACTTCA
66 AACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCACTTCA
21511618 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
1 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
*
21511683 AACATTTTTTGCGGCGCTTACAAACAAACGTCGCTAATGATCCACTTCA
66 AACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCACTTCA
*
21511732 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACTTCAATCTTGTACGCTGCGTTTTGTTT
1 GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
* *
21511797 AACATTGTTTGCGGCGCTTACAAACAAATGCCGCTA
66 AACATTTTTTGCGGCGCTTACAAACAAACGCCGCTA
21511833 CTGCCACTAT
Statistics
Matches: 744, Mismatches: 41, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 744 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (114 bp):
GCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTT
AACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCACTTCA
Found at i:21513768 original size:32 final size:32
Alignment explanation
Indices: 21513723--21513804 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 32
21513713 ATTTTTCACA
21513723 AGGCTAAGA-TAGAACCCTTCTCCTAGCTTTTAT
1 AGGCTAA-ACTAGAACCCTTCT-CTAGCTTTTAT
21513756 -GGCTAAACTAGAA-CC--CTCTAGCTTTTAT
1 AGGCTAAACTAGAACCCTTCTCTAGCTTTTAT
21513784 AAGGCTAAACTAGCAACCCTT
1 -AGGCTAAACTAG-AACCCTT
21513805 TTAATCCCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
28 11 0.26
29 2 0.05
30 11 0.26
31 5 0.12
32 13 0.31
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (32 bp):
AGGCTAAACTAGAACCCTTCTCTAGCTTTTAT
Found at i:21513792 original size:30 final size:29
Alignment explanation
Indices: 21513745--21513803 Score: 93
Period size: 28 Copynumber: 2.0 Consensus size: 29
21513735 AACCCTTCTC
21513745 CTAGCTTTTATGGCTAAACTAG-AACCCT
1 CTAGCTTTTATGGCTAAACTAGCAACCCT
21513773 CTAGCTTTTATAAGGCTAAACTAGCAACCCT
1 CTAGCTTTTAT--GGCTAAACTAGCAACCCT
21513804 TTTAATCCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (29 bp):
CTAGCTTTTATGGCTAAACTAGCAACCCT
Found at i:21519446 original size:46 final size:46
Alignment explanation
Indices: 21519393--21519484 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
21519383 GACCTATCTC
*
21519393 TCAAATAATTAGTCTCACCTTAATAAATTAGTATTAACTCTTATTA
1 TCAAATAATTAGTCTCAACTTAATAAATTAGTATTAACTCTTATTA
21519439 TCAAATAATTAGTCTCAACTTAATAAATTAGTATTAACTCTTATTA
1 TCAAATAATTAGTCTCAACTTAATAAATTAGTATTAACTCTTATTA
21519485 AATTAATAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.40, C:0.14, G:0.04, T:0.41
Consensus pattern (46 bp):
TCAAATAATTAGTCTCAACTTAATAAATTAGTATTAACTCTTATTA
Found at i:21523934 original size:2 final size:2
Alignment explanation
Indices: 21523927--21523969 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
21523917 CCAAAAACTA
21523927 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21523969 C
1 C
21523970 ATGATTTACC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:21531226 original size:7 final size:7
Alignment explanation
Indices: 21531214--21531243 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
21531204 ACAAGTGAAG
21531214 GTCTTGA
1 GTCTTGA
21531221 GTCTTGA
1 GTCTTGA
21531228 GTCTTGA
1 GTCTTGA
21531235 GTCTTGA
1 GTCTTGA
21531242 GT
1 GT
21531244 ATTTAAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.30, T:0.43
Consensus pattern (7 bp):
GTCTTGA
Found at i:21531418 original size:28 final size:28
Alignment explanation
Indices: 21531387--21531443 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
21531377 ATTTGTGATG
21531387 TAAGAGTTTGATTTATCATTGTAATTAT
1 TAAGAGTTTGATTTATCATTGTAATTAT
21531415 TAAGAGTTTGATTTATCATTGTAATTAT
1 TAAGAGTTTGATTTATCATTGTAATTAT
21531443 T
1 T
21531444 CAAATAATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.51
Consensus pattern (28 bp):
TAAGAGTTTGATTTATCATTGTAATTAT
Found at i:21546634 original size:171 final size:172
Alignment explanation
Indices: 21546303--21546792 Score: 464
Period size: 172 Copynumber: 2.8 Consensus size: 172
21546293 AAAGAGTTTG
* * * * *
21546303 TCAAAAATTAAAATAT-AAGTTTAAATCTTAAATTTAAATGTAGTAT-AGAGATCAAAATTGAAT
1 TCAAAAATTAAAATATAAAGATTAAATCTCAAATTTAAACGTAGTATAAG-GAACAAAATTGAAA
* * * *
21546366 TTTGATCATTGTTATATAACTTGAAAAAAATAGAGGGATCAAAATTG-AAATTCAA-CCTTTTAT
65 TTTGATCATTATTATATAA-TTAAAAAAAATAGAAGGATCAAATTTGAAAATT-AACCCTTTTAT
* *
21546429 AATGTCAAAAAAAAAGGAAAGGACAGAAGTCTTAT-TGAAGGGCCT
128 AATGTCAAAAAAAAAGGAAACGACAGAAGTCTTATAGGAA-GGCCT
* *
21546474 T-AAAAATTAAAATATAAAGATTAAATCTCAAATTTGAACGTAGTATAAGGAACAAAATTAAAAT
1 TCAAAAATTAAAATATAAAGATTAAATCTCAAATTTAAACGTAGTATAAGGAACAAAATTGAAAT
* * * * * *
21546538 TTAATCATTTTTATATTATTTAAAAAAGTAGAAGGATCAAATTTGAAAATTGACCACTTCTTATA
66 TTGATCATTATTATATAATTAAAAAAAATAGAAGGATCAAATTTGAAAATTAACC-CTT-TTATA
* * *
21546603 ATGTCAAATAAAAA-GAAACCGA-TG-TGTCTTATAGGAAGGCCT
129 ATGTCAAAAAAAAAGGAAA-CGACAGAAGTCTTATAGGAAGGCCT
* * * * * * * * *
21546645 TCGATAATTAAAATATAGAGATCAAAACTCAAATTTAAACATAATATAA-GAATTATAATTGAAA
1 TCAAAAATTAAAATATAAAGATTAAATCTCAAATTTAAACGTAGTATAAGGAA-CAAAATTGAAA
* *
21546709 TTTGACCATTATTATATAATTCAAAAAAAAATAG-AGAGATTAAATTT-AAAATTTAACCCCTTT
65 TTTGATCATTATTATATAATT--AAAAAAAATAGAAG-GATCAAATTTGAAAA-TTAA-CCC-TT
21546772 TTATAATGTCAAAGAAAAAAG
124 TTATAATGTCAAA-AAAAAAG
21546793 AGAGAGAAAG
Statistics
Matches: 261, Mismatches: 40, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
170 38 0.15
171 76 0.29
172 77 0.30
173 26 0.10
174 35 0.13
175 9 0.03
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (172 bp):
TCAAAAATTAAAATATAAAGATTAAATCTCAAATTTAAACGTAGTATAAGGAACAAAATTGAAAT
TTGATCATTATTATATAATTAAAAAAAATAGAAGGATCAAATTTGAAAATTAACCCTTTTATAAT
GTCAAAAAAAAAGGAAACGACAGAAGTCTTATAGGAAGGCCT
Found at i:21547080 original size:24 final size:24
Alignment explanation
Indices: 21547048--21547095 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
21547038 TTTTTGTCTC
21547048 ATTTTGGTACATGAACTTTACGTT
1 ATTTTGGTACATGAACTTTACGTT
21547072 ATTTTGGTACATGAACTTTACGTT
1 ATTTTGGTACATGAACTTTACGTT
21547096 GTTACCCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (24 bp):
ATTTTGGTACATGAACTTTACGTT
Found at i:21550167 original size:21 final size:21
Alignment explanation
Indices: 21550138--21550177 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21550128 GATATTATGA
*
21550138 TACATAATTAAACTCGAGCTT
1 TACACAATTAAACTCGAGCTT
21550159 TACACAATTAAACTCGAGC
1 TACACAATTAAACTCGAGC
21550178 CTTAATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (21 bp):
TACACAATTAAACTCGAGCTT
Found at i:21552339 original size:7 final size:7
Alignment explanation
Indices: 21552324--21552355 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
21552314 TAAATTCAAA
*
21552324 TTCAAAT
1 TTCATAT
21552331 TTCATAT
1 TTCATAT
21552338 TTCATAT
1 TTCATAT
21552345 TTCATAT
1 TTCATAT
21552352 TTCA
1 TTCA
21552356 ACAATAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (7 bp):
TTCATAT
Found at i:21560802 original size:2 final size:2
Alignment explanation
Indices: 21560795--21560823 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21560785 TTGAGGTAAA
21560795 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
21560824 AAAAACCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:21561118 original size:21 final size:21
Alignment explanation
Indices: 21561089--21561135 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
21561079 TTCGGCTTCT
21561089 GCCGCAGCTAAGAAACCGGCC
1 GCCGCAGCTAAGAAACCGGCC
* * *
21561110 GCCGTAGCTAAGAAGCCTGCC
1 GCCGCAGCTAAGAAACCGGCC
21561131 GCCGC
1 GCCGC
21561136 GAAGCCTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.38, G:0.30, T:0.09
Consensus pattern (21 bp):
GCCGCAGCTAAGAAACCGGCC
Found at i:21567770 original size:20 final size:19
Alignment explanation
Indices: 21567753--21567788 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
21567743 TAATAATATT
21567753 TTAAAAATTTTAAAAATAA
1 TTAAAAATTTTAAAAATAA
21567772 TTAAAAA--TTAAAAATAA
1 TTAAAAATTTTAAAAATAA
21567789 ATGAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
19 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAAATTTTAAAAATAA
Found at i:21567795 original size:17 final size:17
Alignment explanation
Indices: 21567762--21567796 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21567752 TTTAAAAATT
*
21567762 TTAAAAATAATTAAAAA
1 TTAAAAATAAATAAAAA
21567779 TTAAAAATAAATGAAAAA
1 TTAAAAATAAAT-AAAAA
21567797 ATCCCACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
TTAAAAATAAATAAAAA
Found at i:21571136 original size:20 final size:19
Alignment explanation
Indices: 21571113--21571159 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
21571103 TATGCTTAAA
21571113 TAATATTTCATACTTAAATT
1 TAATATTTCATACTT-AATT
** *
21571133 TAATATTTTTTTCTTAATT
1 TAATATTTCATACTTAATT
21571152 TAATATTT
1 TAATATTT
21571160 AAATTTGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (19 bp):
TAATATTTCATACTTAATT
Found at i:21571348 original size:32 final size:32
Alignment explanation
Indices: 21571311--21571418 Score: 88
Period size: 31 Copynumber: 3.6 Consensus size: 32
21571301 CTTAAATAAT
21571311 ATTTGGTACTTGAACTTAATATTTTTTTCTTA
1 ATTTGGTACTTGAACTTAATATTTTTTTCTTA
* *
21571343 ATTTGGTATTTGAA-TT--T-TTTTGTTC--A
1 ATTTGGTACTTGAACTTAATATTTTTTTCTTA
* * * *
21571369 ATTTGATACTT-AGACTTGACA-TGTTTTCTTA
1 ATTTGGTACTTGA-ACTTAATATTTTTTTCTTA
*
21571400 ATTTGGTACATGAACTTAA
1 ATTTGGTACTTGAACTTAA
21571419 CACAATTTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 17
0.68 0.12 0.20
Matches are distributed among these distances:
25 1 0.02
26 11 0.19
27 2 0.03
28 7 0.12
29 6 0.10
31 17 0.29
32 14 0.24
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.52
Consensus pattern (32 bp):
ATTTGGTACTTGAACTTAATATTTTTTTCTTA
Found at i:21571673 original size:19 final size:18
Alignment explanation
Indices: 21571645--21571685 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
21571635 TTAAATGTTC
*
21571645 AATTACTTTTAGTTTAATT
1 AATTAATTTTA-TTTAATT
*
21571664 AATTAATTTTATTTTATT
1 AATTAATTTTATTTAATT
21571682 AATT
1 AATT
21571686 TAAAATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
AATTAATTTTATTTAATT
Found at i:21573323 original size:20 final size:20
Alignment explanation
Indices: 21573276--21573325 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
21573266 CATGTTCAAA
*
21573276 GTTTAAGGTTCGAGTTTGGG
1 GTTTAAGGTTCGAGTTTGAG
* *
21573296 GTTCAAGGTTCGAGTTTGAT
1 GTTTAAGGTTCGAGTTTGAG
21573316 GTTTAAGGTT
1 GTTTAAGGTT
21573326 TGAGATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.06, G:0.34, T:0.42
Consensus pattern (20 bp):
GTTTAAGGTTCGAGTTTGAG
Found at i:21573367 original size:14 final size:14
Alignment explanation
Indices: 21573342--21573368 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21573332 TTAATATTTG
21573342 GGTTTAAGGTTCAT
1 GGTTTAAGGTTCAT
21573356 GGTTTAAGGTTCA
1 GGTTTAAGGTTCA
21573369 AGTTTGGCTT
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:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (14 bp):
GGTTTAAGGTTCAT
Found at i:21577055 original size:47 final size:47
Alignment explanation
Indices: 21576902--21577118 Score: 234
Period size: 46 Copynumber: 4.6 Consensus size: 47
21576892 ATTGTTGGCT
* * * * *
21576902 AGTGTAAGA-CATGTCTGGGACATGCATAGGCCA-CATTATG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGA-GATGAT-AGTC
*
21576948 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGATAGTC
* *
21576994 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TAT-TG-TGACGAGTGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTATGAGATGA-TAGT-C
*
21577041 TAGTGTAAGA-CATGTCTGGGATATGCATCGGCTATGAGATGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGATAGTC
21577088 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG
21577119 ACTTGAAATA
Statistics
Matches: 147, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
45 3 0.02
46 66 0.45
47 49 0.33
48 26 0.18
49 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGATAGTC
Found at i:21577061 original size:94 final size:94
Alignment explanation
Indices: 21576948--21577118 Score: 324
Period size: 94 Copynumber: 1.8 Consensus size: 94
21576938 TATGTAAGCC
21576948 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGG
21577013 GACATGGCATCGGTATTGTGACGAGTGCT
66 GACATGGCATCGGTATTGTGACGAGTGCT
* *
21577042 AGTGTAAGACATGTCTGGGATATGCATCGGCTATGAGATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGG
21577107 GACATGGCATCG
66 GACATGGCATCG
21577119 ACTTGAAATA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGG
GACATGGCATCGGTATTGTGACGAGTGCT
Found at i:21579059 original size:40 final size:39
Alignment explanation
Indices: 21579015--21579156 Score: 196
Period size: 40 Copynumber: 3.6 Consensus size: 39
21579005 GCCACTAGCT
21579015 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGAA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTTGAA
* * *
21579055 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTTGAA
* *
21579094 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGC-TCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTTGA-A
*
21579134 CGAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
21579157 AGAATTAGCC
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
39 36 0.40
40 55 0.60
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTTGAA
Found at i:21579180 original size:40 final size:41
Alignment explanation
Indices: 21578992--21579198 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 41
21578982 CCTTCGGAGT
*
21578992 TTAG-CCGG-ATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGAATATAGCCACTAGCACAAATGCCTTCGGGAC
* ** * *
21579031 TTAGCCCGG-TTATAGTAACTTGAACAAATGCCTTCGGGAC
1 TTAGCCCGGAATATAGCCACTAGCACAAATGCCTTCGGGAC
* *
21579071 TTAGCCCGGTATAATA---ACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAAT-ATAGCCACTAGCACAAATGCCTTCGGGAC
* *
21579110 TTAGCCCGG-ATATAG-TAGCTCA-CACGAATGCCTTCGGGAC
1 TTAGCCCGGAATATAGCCA-CT-AGCACAAATGCCTTCGGGAC
* *
21579150 TTAGCCCAGAAT-TAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGAATATAGCCACTAGCACAAATGCCT-TCGGGAC
*
21579190 ATAGCCCGG
1 TTAGCCCGG
21579199 TTATCATCCG
Statistics
Matches: 140, Mismatches: 17, Indels: 21
0.79 0.10 0.12
Matches are distributed among these distances:
37 3 0.02
38 2 0.01
39 38 0.27
40 90 0.64
41 4 0.03
42 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
TTAGCCCGGAATATAGCCACTAGCACAAATGCCTTCGGGAC
Found at i:21581377 original size:13 final size:13
Alignment explanation
Indices: 21581359--21581405 Score: 85
Period size: 13 Copynumber: 3.6 Consensus size: 13
21581349 TCGTGTAAGG
21581359 GACACGGGCCATT
1 GACACGGGCCATT
21581372 GACACGGGCCATT
1 GACACGGGCCATT
*
21581385 GACATGGGCCATT
1 GACACGGGCCATT
21581398 GACACGGG
1 GACACGGG
21581406 TGTGTGTCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.23, C:0.28, G:0.34, T:0.15
Consensus pattern (13 bp):
GACACGGGCCATT
Found at i:21591376 original size:46 final size:46
Alignment explanation
Indices: 21591141--21591452 Score: 176
Period size: 46 Copynumber: 6.7 Consensus size: 46
21591131 ATTGTTGGCT
* * * * *
21591141 AGTGTTAGACATGTCTGGGACATGCATAGGCCAC-ATTATG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAT-AGTC
* * * *
21591187 AGTGTAAGACATATCTGGGACATGCATTGGCTACGAGATGACAGTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
* * * *
21591233 AGTGTAAGACCATGTTTGGGACAAGGCATCGG-TATTGAGACG--AGTGC
1 AGTGTAAGA-CATGTCTGGGAC-ATGCATCGGCTA-CGAGATGATAGT-C
* ** * * *
21591280 TAGTGTAAGACATGTCTGAGACATGCGCCGACCT-TGAG--GCATAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCG-GCTACGAGATG-AT-AGTC
*
21591327 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
* * * * *
21591373 AGTGTAAGACCAGGTCTGGGACATCGCATCGACT-TGAAAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-AGTC
* *
21591420 AGTGTAAGACCGTGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
21591453 ACCTTACCCA
Statistics
Matches: 207, Mismatches: 40, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
44 1 0.00
45 2 0.01
46 98 0.47
47 74 0.36
48 32 0.15
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
Found at i:21591423 original size:47 final size:47
Alignment explanation
Indices: 21591323--21591450 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 47
21591313 TTGAGGCATA
* * * *
21591323 AGCCAGTGTAAGA-CATGTCTGGGACATGTATCGGCTACGAGATGAT
1 AGCCAGTGTAAGACCAGGTCTGGGACATGCATCGACTACGAAATGAT
* *
21591369 AGTCAGTGTAAGACCAGGTCTGGGACATCGCATCGACT-TGAAAT-AT
1 AGCCAGTGTAAGACCAGGTCTGGGACAT-GCATCGACTACGAAATGAT
*
21591415 GAGCCAGTGTAAGACC-GTGTCTAGGACATGGCATCG
1 -AGCCAGTGTAAGACCAG-GTCTGGGACAT-GCATCG
21591451 GCACCTTACC
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
46 15 0.22
47 47 0.68
48 7 0.10
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCAGGTCTGGGACATGCATCGACTACGAAATGAT
Found at i:21591436 original size:140 final size:140
Alignment explanation
Indices: 21591181--21591444 Score: 338
Period size: 140 Copynumber: 1.9 Consensus size: 140
21591171 CCACATTATG
* * *
21591181 TAAGCCAGTGTAAGACATATCTGGGACATGCATTGGCTACGAGATGACAGTGAGTGTAAGACCAT
1 TAAGCCAGTGTAAGACATATCTGGGACATGCATCGGCTACGAGATGACAGTCAGTGTAAGACCAG
* * * * *
21591246 GTTTGGGACAAGGCATCGGTATTGAGACGAGTGCTAGTGTAAGACATGTCT-GAGACATGCGCCG
66 GTCTGGGACAACGCATCGGTATTGAGAAGAGAGCCAGTGTAAGACATGTCTAG-GACATGCGCCG
21591310 ACCTTGAGGCA
130 ACCTTGAGGCA
* * *
21591321 TAAGCCAGTGTAAGACATGTCTGGGACATGTATCGGCTACGAGATGATAGTCAGTGTAAGACCAG
1 TAAGCCAGTGTAAGACATATCTGGGACATGCATCGGCTACGAGATGACAGTCAGTGTAAGACCAG
* * *
21591386 GTCTGGGACATCGCATC-G-ACTTGA-AATATGAGCCAGTGTAAGACCGTGTCTAGGACATG
66 GTCTGGGACAACGCATCGGTA-TTGAGAAGA-GAGCCAGTGTAAGA-CATGTCTAGGACATG
21591445 GCATCGGCAC
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
138 3 0.03
139 17 0.16
140 85 0.80
141 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (140 bp):
TAAGCCAGTGTAAGACATATCTGGGACATGCATCGGCTACGAGATGACAGTCAGTGTAAGACCAG
GTCTGGGACAACGCATCGGTATTGAGAAGAGAGCCAGTGTAAGACATGTCTAGGACATGCGCCGA
CCTTGAGGCA
Found at i:21602489 original size:21 final size:19
Alignment explanation
Indices: 21602446--21602490 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
21602436 TTAAGTGCAC
*
21602446 TTTAATTATTTTATAAAAA
1 TTTAATTATTTTACAAAAA
21602465 -TTAATTATTTTCAACAAAAA
1 TTTAATTATTTT--ACAAAAA
21602485 TTTAAT
1 TTTAAT
21602491 CGAATTCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 11 0.50
20 6 0.27
21 5 0.23
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAATTATTTTACAAAAA
Found at i:21604285 original size:16 final size:16
Alignment explanation
Indices: 21604264--21604297 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
21604254 AAATATATTT
21604264 CAGACCTGGATTCATG
1 CAGACCTGGATTCATG
21604280 CAGACCTGGATTCATG
1 CAGACCTGGATTCATG
21604296 CA
1 CA
21604298 TACTCATATA
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:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (16 bp):
CAGACCTGGATTCATG
Found at i:21605266 original size:7 final size:7
Alignment explanation
Indices: 21605242--21605286 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
21605232 ACCTCATTTG
21605242 ATCCCTC
1 ATCCCTC
**
21605249 ATCATTC
1 ATCCCTC
*
21605256 ATCCCTT
1 ATCCCTC
21605263 ATCCCTC
1 ATCCCTC
21605270 ATCCCTC
1 ATCCCTC
*
21605277 ATCCATC
1 ATCCCTC
21605284 ATC
1 ATC
21605287 ATTCTCTCTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (7 bp):
ATCCCTC
Found at i:21611599 original size:59 final size:58
Alignment explanation
Indices: 21611505--21611625 Score: 224
Period size: 59 Copynumber: 2.1 Consensus size: 58
21611495 TGTACAATAC
*
21611505 TCTTTCCCTTGATTTCTCGAATTCTTTGTATCACTAGGCAAAGCAGCTTGTGATCAGT
1 TCTTTCCCTAGATTTCTCGAATTCTTTGTATCACTAGGCAAAGCAGCTTGTGATCAGT
21611563 TCNTTTCCCTAGATTTCTCGAATTCTTTGTATCACTAGGCAAAGCAGCTTGTGATCAGT
1 TC-TTTCCCTAGATTTCTCGAATTCTTTGTATCACTAGGCAAAGCAGCTTGTGATCAGT
21611622 TCTT
1 TCTT
21611626 GAGTTCAATT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
58 4 0.07
59 57 0.93
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (58 bp):
TCTTTCCCTAGATTTCTCGAATTCTTTGTATCACTAGGCAAAGCAGCTTGTGATCAGT
Found at i:21614753 original size:27 final size:28
Alignment explanation
Indices: 21614700--21614753 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
21614690 AAAATAATTA
* *
21614700 AAATTCAATATTTTAATAATTTAAGTAC
1 AAATTAAATATTTTAATAATTAAAGTAC
21614728 AAATTAAATATTTT-ATAATTAAAGTA
1 AAATTAAATATTTTAATAATTAAAGTA
21614754 TGGATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (28 bp):
AAATTAAATATTTTAATAATTAAAGTAC
Found at i:21619747 original size:108 final size:110
Alignment explanation
Indices: 21619601--21619801 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
21619591 ATCGTTTTGA
* **
21619601 AACTTACCATTGTCAGGTCTCGACATGGTCTTACATGGTATCATTTCCTTATG-AA-CTCACCAA
1 AACTTACCAATGTCAGGTCTCGACATGGTCTTACATGGTATCATCACCTTA-GAAACCTCACCAA
21619664 -CGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TCGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * *
21619709 AACTTATCAATGTCATGTCTTGACATGGTCTTACATGGTATCCTCACCTTAGAAACCTTACCAAT
1 AACTTACCAATGTCAGGTCTCGACATGGTCTTACATGGTATCATCACCTTAGAAACCTCACCAAT
* *
21619774 TGTCATGCCTTGGCATGGTCTTACATGG
66 CGCCATGCCTTGGCATGGTCTTACATGG
21619802 TATCCTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.57
109 7 0.09
110 26 0.32
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGTCAGGTCTCGACATGGTCTTACATGGTATCATCACCTTAGAAACCTCACCAAT
CGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:21619802 original size:55 final size:53
Alignment explanation
Indices: 21619575--21619809 Score: 203
Period size: 55 Copynumber: 4.4 Consensus size: 53
21619565 CATGAATTTT
* * * * * *
21619575 CATGGTCTTACGTGGTATCGTT---TT-GAAACTTACCATTGTCAGGTCTCGA
1 CATGGTCTTACATGGTATCCTTACCTTAGAAACTTACCAATGTCATGCCTTGA
* * * * * *
21619624 CATGGTCTTACATGGTATCATTTCCTTATG-AACTCACCAACGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTACCTTA-GAAACTTACCAATGTCATGCCTTGA
* * * * *
21619677 CATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGTCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTACC-T-TAGAAACTTACCAATGTCATGCCTTGA
* *
21619732 CATGGTCTTACATGGTATCCTCACCTTAGAAACCTTACCAATTGTCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTACCTTAGAAA-CTTACCAA-TGTCATGCCTTGA
21619787 CATGGTCTTACATGGTATCCTTA
1 CATGGTCTTACATGGTATCCTTA
21619810 AACCCTAATG
Statistics
Matches: 147, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
49 20 0.14
52 3 0.02
53 40 0.27
54 11 0.07
55 71 0.48
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
CATGGTCTTACATGGTATCCTTACCTTAGAAACTTACCAATGTCATGCCTTGA
Found at i:21621882 original size:23 final size:23
Alignment explanation
Indices: 21621839--21621883 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
21621829 ATTGAGCATC
21621839 CTGATAGGCTCTTCGTGAGCTTT
1 CTGATAGGCTCTTCGTGAGCTTT
21621862 CTGATAGGCTCTTCGTGAGCTT
1 CTGATAGGCTCTTCGTGAGCTT
21621884 CTTGATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.13, C:0.22, G:0.27, T:0.38
Consensus pattern (23 bp):
CTGATAGGCTCTTCGTGAGCTTT
Found at i:21621889 original size:23 final size:23
Alignment explanation
Indices: 21621822--21621889 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
21621812 CCCATTAAAT
** * *
21621822 GGCTCTTATTGAGCATCCTGATA
1 GGCTCTTCGTGAGCTTCTTGATA
21621845 GGCTCTTCGTGAGCTT-TCTGATA
1 GGCTCTTCGTGAGCTTCT-TGATA
21621868 GGCTCTTCGTGAGCTTCTTGAT
1 GGCTCTTCGTGAGCTTCTTGAT
21621890 TAAAAGTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCTTGATA
Found at i:21626923 original size:47 final size:47
Alignment explanation
Indices: 21626770--21626986 Score: 234
Period size: 46 Copynumber: 4.6 Consensus size: 47
21626760 ATTGTTGGCT
* * * * *
21626770 AGTGTAAGA-CATGTCTGGGACATGCATAGGCCA-CATTATG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGA-GATGAT-AGTC
*
21626816 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGATAGTC
* *
21626862 AGTGTAAGACCATGTCAGGGACATGGCATCGG-TATTGAGACG--AGTGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA-TGAGATGATAGT-C
*
21626909 TAGTGTAAGA-CATGTCTGGGATATGCATCGGCTATGAGATGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGATAGTC
21626956 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG
21626987 ACTTGAAATA
Statistics
Matches: 147, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
46 71 0.48
47 46 0.31
48 30 0.20
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGATAGTC
Found at i:21626929 original size:94 final size:94
Alignment explanation
Indices: 21626816--21626986 Score: 315
Period size: 94 Copynumber: 1.8 Consensus size: 94
21626806 TATGTAAGCC
21626816 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCAGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCAGG
21626881 GACATGGCATCGGTATTGAGACGAGTGCT
66 GACATGGCATCGGTATTGAGACGAGTGCT
* * *
21626910 AGTGTAAGACATGTCTGGGATATGCATCGGCTATGAGATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCAGG
21626975 GACATGGCATCG
66 GACATGGCATCG
21626987 ACTTGAAATA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCAGG
GACATGGCATCGGTATTGAGACGAGTGCT
Found at i:21628965 original size:39 final size:40
Alignment explanation
Indices: 21628880--21629063 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
21628870 GCCACTAGCT
* *
21628880 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
21628920 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
21628959 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * ** * *
21628999 CGAATTCCTTCGGGACTTAGCCCAGA-ATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
21629039 CAAATG-CTATCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
21629064 TTATCATCCG
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 40 0.32
40 86 0.68
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:21628978 original size:79 final size:80
Alignment explanation
Indices: 21628873--21629067 Score: 250
Period size: 79 Copynumber: 2.5 Consensus size: 80
21628863 GGATATAGCC
* *
21628873 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* * *
21628938 AGCCCGGTA-TAATA
66 AGCCCAGAATTAACA
* * * * *
21628952 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATTCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
21629017 AGCCCAGAATTAGCC
66 AGCCCAGAATTAACA
*
21629032 ACTAGCTCAAATG-CTATCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
21629068 CATCCGAACA
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
79 67 0.68
80 32 0.32
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCAGAATTAACA
Found at i:21631242 original size:13 final size:13
Alignment explanation
Indices: 21631224--21631270 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
21631214 TCGTGTGAGG
21631224 GACACGGGCCATT
1 GACACGGGCCATT
*
21631237 GACACGAGCCATT
1 GACACGGGCCATT
*
21631250 GACATGGGCCATT
1 GACACGGGCCATT
21631263 GACACGGG
1 GACACGGG
21631271 TGTGTGTCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.32, T:0.15
Consensus pattern (13 bp):
GACACGGGCCATT
Found at i:21639065 original size:103 final size:103
Alignment explanation
Indices: 21638886--21639091 Score: 403
Period size: 103 Copynumber: 2.0 Consensus size: 103
21638876 CAGCAAGTAT
21638886 ACTTTGTACATAATTATAATTAAGTAGTCTATTTGCTTATAAACTTACCTCGGACGATACAAAAT
1 ACTTTGTACATAATTATAATTAAGTAGTCTATTTGCTTATAAACTTACCTCGGACGATACAAAAT
21638951 GGAACAGGGCAGCTAGTTGACAACTTTCGTTTTCCCCA
66 GGAACAGGGCAGCTAGTTGACAACTTTCGTTTTCCCCA
*
21638989 ACTTTGTACATAATTATAATTAAGTAGTCTATTTTCTTATAAACTTACCTCGGACGATACAAAAT
1 ACTTTGTACATAATTATAATTAAGTAGTCTATTTGCTTATAAACTTACCTCGGACGATACAAAAT
21639054 GGAACAGGGCAGCTAGTTGACAACTTTCGTTTTCCCCA
66 GGAACAGGGCAGCTAGTTGACAACTTTCGTTTTCCCCA
21639092 GATCTAAATC
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (103 bp):
ACTTTGTACATAATTATAATTAAGTAGTCTATTTGCTTATAAACTTACCTCGGACGATACAAAAT
GGAACAGGGCAGCTAGTTGACAACTTTCGTTTTCCCCA
Found at i:21641344 original size:46 final size:46
Alignment explanation
Indices: 21641109--21641420 Score: 167
Period size: 46 Copynumber: 6.7 Consensus size: 46
21641099 ATTGTTGGCT
* * * * *
21641109 AGTGTTAGACATGTCTGGGACATGCATAGGCCAC-ATTATG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAT-AGTC
* ** * *
21641155 AGTGTAAGACATATCTGGGACATGCATTAGTTACGAGATGACAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
* * * *
21641201 AGTGTAAGACCATGTTTGGGACAAGGCATCGG-TATTGAGACG--AGTGC
1 AGTGTAAGA-CATGTCTGGGAC-ATGCATCGGCTA-CGAGATGATAGT-C
* ** * * *
21641248 TAGTGTAAGACATGTCTGAGACATGCGCCGACCT-TGAG--GCATAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCG-GCTACGAGATG-AT-AGTC
*
21641295 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
* * * * *
21641341 AGTGTAAGACCAGGTCTGGGACATCGCATCGACT-TGAAAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-AGTC
* *
21641388 AGTGTAAGACCGTGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
21641421 ACCTTACCCA
Statistics
Matches: 206, Mismatches: 41, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
44 1 0.00
45 2 0.01
46 97 0.47
47 75 0.36
48 31 0.15
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
Found at i:21641391 original size:47 final size:47
Alignment explanation
Indices: 21641291--21641418 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 47
21641281 TTGAGGCATA
* * * *
21641291 AGCCAGTGTAAGA-CATGTCTGGGACATGTATCGGCTACGAGATGAT
1 AGCCAGTGTAAGACCAGGTCTGGGACATGCATCGACTACGAAATGAT
* *
21641337 AGTCAGTGTAAGACCAGGTCTGGGACATCGCATCGACT-TGAAAT-AT
1 AGCCAGTGTAAGACCAGGTCTGGGACAT-GCATCGACTACGAAATGAT
*
21641383 GAGCCAGTGTAAGACC-GTGTCTAGGACATGGCATCG
1 -AGCCAGTGTAAGACCAG-GTCTGGGACAT-GCATCG
21641419 GCACCTTACC
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
46 15 0.22
47 47 0.68
48 7 0.10
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCAGGTCTGGGACATGCATCGACTACGAAATGAT
Found at i:21641404 original size:140 final size:140
Alignment explanation
Indices: 21641149--21641412 Score: 329
Period size: 140 Copynumber: 1.9 Consensus size: 140
21641139 CCACATTATG
* * *
21641149 TAAGCCAGTGTAAGACATATCTGGGACATGCATTAGTTACGAGATGACAGTCAGTGTAAGACCAT
1 TAAGCCAGTGTAAGACATATCTGGGACATGCATCAGCTACGAGATGACAGTCAGTGTAAGACCAG
* * * * *
21641214 GTTTGGGACAAGGCATCGGTATTGAGACGAGTGCTAGTGTAAGACATGTCT-GAGACATGCGCCG
66 GTCTGGGACAACGCATCGGTATTGAGAAGAGAGCCAGTGTAAGACATGTCTAG-GACATGCGCCG
21641278 ACCTTGAGGCA
130 ACCTTGAGGCA
* * * *
21641289 TAAGCCAGTGTAAGACATGTCTGGGACATGTATCGGCTACGAGATGATAGTCAGTGTAAGACCAG
1 TAAGCCAGTGTAAGACATATCTGGGACATGCATCAGCTACGAGATGACAGTCAGTGTAAGACCAG
* * *
21641354 GTCTGGGACATCGCATC-G-ACTTGA-AATATGAGCCAGTGTAAGACCGTGTCTAGGACATG
66 GTCTGGGACAACGCATCGGTA-TTGAGAAGA-GAGCCAGTGTAAGA-CATGTCTAGGACATG
21641413 GCATCGGCAC
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
138 3 0.03
139 17 0.16
140 84 0.80
141 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (140 bp):
TAAGCCAGTGTAAGACATATCTGGGACATGCATCAGCTACGAGATGACAGTCAGTGTAAGACCAG
GTCTGGGACAACGCATCGGTATTGAGAAGAGAGCCAGTGTAAGACATGTCTAGGACATGCGCCGA
CCTTGAGGCA
Found at i:21646867 original size:28 final size:28
Alignment explanation
Indices: 21646834--21646927 Score: 125
Period size: 28 Copynumber: 3.4 Consensus size: 28
21646824 GATTACATGA
*
21646834 ATATGAATGTGATTGGGCCTGACGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
* * *
21646862 ATATGAAAGTGATTAGGCCCGATGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
* *
21646890 ATATGAATGAGATTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
*
21646918 ATATGCATGT
1 ATATGAATGT
21646928 ATGTAGACTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTGATGGGCC
Found at i:21651716 original size:54 final size:54
Alignment explanation
Indices: 21651634--21651736 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
21651624 GACATTATCT
* * *
21651634 GATCCCCAAGCTAGCTTGGCGCCACTATAAGAGATGGAAAGGAAAGGGGCGTCC
1 GATCCCCAAGCTAGCTTGGCGACACTATAAGAAAAGGAAAGGAAAGGGGCGTCC
* *
21651688 GATCCCCGAGCTAGCTTGGCGACACTATAAGAAAAGGAAAGGAAGGGGG
1 GATCCCCAAGCTAGCTTGGCGACACTATAAGAAAAGGAAAGGAAAGGGG
21651737 TAAGCATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.32, C:0.21, G:0.33, T:0.14
Consensus pattern (54 bp):
GATCCCCAAGCTAGCTTGGCGACACTATAAGAAAAGGAAAGGAAAGGGGCGTCC
Found at i:21653139 original size:44 final size:41
Alignment explanation
Indices: 21653076--21653224 Score: 108
Period size: 42 Copynumber: 3.5 Consensus size: 41
21653066 ATGTGTTTTC
* *
21653076 GTGTAAGACCACATTTGGGACGTTGGCATCGACTTATGATTTA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGATTTA
* * ** *
21653119 TGTGTAAGACCATGTCTGGGACATCAGCATGGTATTTGATTTCA
1 -GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTT-A
*
21653163 -TGTAAGACC-CTGTCTGGGATG-TGGCATCGATATTTG-TTTA
1 GTGTAAGACCAC-GTCTGGGACGTTGGCATCG--ATTTGATTTA
*
21653203 CATGTAAGACCACGTCTGGGAC
1 -GTGTAAGACCACGTCTGGGAC
21653225 ATTAGCATTG
Statistics
Matches: 84, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
40 1 0.01
41 8 0.10
42 40 0.48
43 7 0.08
44 27 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTA
Found at i:21653177 original size:42 final size:42
Alignment explanation
Indices: 21653121--21653232 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 42
21653111 ATGATTTATG
* *
21653121 TGTAAGACCATGTCTGGGACATCAGCAT-GGTATTTGATTT-CA
1 TGTAAGACCCTGTCTGGGACAT-AGCATCGATATTTG-TTTACA
** *
21653163 TGTAAGACCCTGTCTGGGATGTGGCATCGATATTTGTTTACA
1 TGTAAGACCCTGTCTGGGACATAGCATCGATATTTGTTTACA
21653205 TGTAAGACCAC-GTCTGGGACATTAGCAT
1 TGTAAGACC-CTGTCTGGGACA-TAGCAT
21653233 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 7 0.12
42 45 0.78
43 6 0.10
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACATAGCATCGATATTTGTTTACA
Found at i:21656155 original size:37 final size:37
Alignment explanation
Indices: 21656105--21656183 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21656095 TTATTACGAA
* * *
21656105 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21656142 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21656179 GTCTT
1 GTCTT
21656184 TAGAGCTCGA
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21656386 original size:16 final size:16
Alignment explanation
Indices: 21656367--21656399 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21656357 ACATTCATCA
21656367 CATCGGCCATTAGGCC
1 CATCGGCCATTAGGCC
21656383 CATCGGCCATTAGGCC
1 CATCGGCCATTAGGCC
21656399 C
1 C
21656400 TATCACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.39, G:0.24, T:0.18
Consensus pattern (16 bp):
CATCGGCCATTAGGCC
Found at i:21656394 original size:65 final size:65
Alignment explanation
Indices: 21656318--21656447 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
21656308 ACATTCATCA
21656318 CATCGGCCATTAGGCCCTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCCTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCC
*
21656383 CATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCCTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCC
21656448 TTATCACATA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (65 bp):
CATCGGCCATTAGGCCCTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:21656439 original size:49 final size:47
Alignment explanation
Indices: 21656383--21656474 Score: 157
Period size: 49 Copynumber: 1.9 Consensus size: 47
21656373 CCATTAGGCC
21656383 CATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
1 CATCGGCCATTAGGCCCTATCAC--ATATATACACTTTCACATTCATCA
*
21656432 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 CATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTC
21656475 TCAAAGTAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
47 20 0.48
49 22 0.52
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCA
Found at i:21656793 original size:24 final size:23
Alignment explanation
Indices: 21656745--21656802 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
21656735 TAATCAAACA
21656745 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
21656769 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
21656793 TTATT-TTATA
1 TTATTATTATA
21656803 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:21665480 original size:21 final size:21
Alignment explanation
Indices: 21665456--21665495 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21665446 ACACACCAAT
*
21665456 AGAAGCTCGAAAGAGTTGAAC
1 AGAAGCTCAAAAGAGTTGAAC
21665477 AGAAGCTCAAAAGAGTTGA
1 AGAAGCTCAAAAGAGTTGA
21665496 TCCACTCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.28, T:0.15
Consensus pattern (21 bp):
AGAAGCTCAAAAGAGTTGAAC
Found at i:21667354 original size:13 final size:13
Alignment explanation
Indices: 21667336--21667362 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21667326 TTAATACTAT
21667336 TAACTTTTAAAAC
1 TAACTTTTAAAAC
21667349 TAACTTTTAAAAC
1 TAACTTTTAAAAC
21667362 T
1 T
21667363 TTTACAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (13 bp):
TAACTTTTAAAAC
Found at i:21668380 original size:45 final size:45
Alignment explanation
Indices: 21668324--21668537 Score: 252
Period size: 45 Copynumber: 4.8 Consensus size: 45
21668314 GGCCGGTTCG
* * * *
21668324 TCCATTTCTCTTCGACATGGTACCGAACAGGACTCGAAGGCCTAC
1 TCCATTTCTCTTCGACATGATACCGAACAGGACTAGAAGGCTTAT
** *
21668369 TCCATTTCTCTTCGACACCATAACC-AACAGGACTAGATGGCTTAT
1 TCCATTTCTCTTCGACATGAT-ACCGAACAGGACTAGAAGGCTTAT
* * *
21668414 TCCATTTCTCTTCGACACGATACCGAACAGGACTCGATGGCTTAT
1 TCCATTTCTCTTCGACATGATACCGAACAGGACTAGAAGGCTTAT
* * * * *
21668459 TCCATTTCTCTTCGACGTCATACTGAACGGGTCTAGAAGGCTTAT
1 TCCATTTCTCTTCGACATGATACCGAACAGGACTAGAAGGCTTAT
*
21668504 TCCATTTCTCTTC-AGTATGATACCGAACAGGACT
1 TCCATTTCTCTTCGA-CATGATACCGAACAGGACT
21668538 TGAACTCTCC
Statistics
Matches: 143, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
44 4 0.03
45 136 0.95
46 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (45 bp):
TCCATTTCTCTTCGACATGATACCGAACAGGACTAGAAGGCTTAT
Found at i:21668495 original size:90 final size:90
Alignment explanation
Indices: 21668324--21668537 Score: 288
Period size: 90 Copynumber: 2.4 Consensus size: 90
21668314 GGCCGGTTCG
*
21668324 TCCATTTCTCTTCGACATGGTACCGAACAGGACTCGAAGGCCTACTCCATTTCTCTTCGACACCA
1 TCCATTTCTCTTCGACATGATACCGAACAGGACTCGAAGGCCTACTCCATTTCTCTTCGACACCA
*
21668389 TAACCAACAGGACTAGATGGCTTAT
66 TAACCAACAGGACTAGAAGGCTTAT
* * * * **
21668414 TCCATTTCTCTTCGACACGATACCGAACAGGACTCGATGGCTTATTCCATTTCTCTTCGACGTCA
1 TCCATTTCTCTTCGACATGATACCGAACAGGACTCGAAGGCCTACTCCATTTCTCTTCGACACCA
* * *
21668479 T-ACTGAACGGGTCTAGAAGGCTTAT
66 TAAC-CAACAGGACTAGAAGGCTTAT
*
21668504 TCCATTTCTCTTC-AGTATGATACCGAACAGGACT
1 TCCATTTCTCTTCGA-CATGATACCGAACAGGACT
21668538 TGAACTCTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
89 3 0.03
90 106 0.97
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (90 bp):
TCCATTTCTCTTCGACATGATACCGAACAGGACTCGAAGGCCTACTCCATTTCTCTTCGACACCA
TAACCAACAGGACTAGAAGGCTTAT
Found at i:21670190 original size:4 final size:4
Alignment explanation
Indices: 21670181--21670226 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
21670171 TCAACCATTA
21670181 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
21670227 TACAAAACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:21678894 original size:14 final size:14
Alignment explanation
Indices: 21678875--21678901 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21678865 AATGCTGCAA
21678875 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
21678889 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
21678902 CATAAGTAGA
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:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:21682452 original size:174 final size:173
Alignment explanation
Indices: 21682109--21682454 Score: 401
Period size: 174 Copynumber: 2.0 Consensus size: 173
21682099 ATATGTGGAA
* * * * * * * *
21682109 TAGGAAACTACCATGCATCATATAGGATAAACAATGGATCAGGTGATTGATGCTTGCCATGGTGA
1 TAGGAAACTACAAGGCATCATAAAGGATAAACAATGGATCAGATGATTGATGATCGACATGGCGA
** * * * *
21682174 ATAAAATGGGTTCTTATGAGGAAAAAGAATACTATCATAGTGACAGAAATGGAAGTTCTTTAAAT
66 ATAAAATCAGTTCATATAAGGAAAAAGAATACCATCATAGTGACAGAAATGGAAATTCTTTAAAT
* * *
21682239 TTTCAAAAATCAAAGCCATTGCAGAGTTTCATTGAACTGTTTG
131 TTTCAAAAATCAAAACCATGGCAGAGTTTCATAGAACTGTTTG
* *
21682282 TAGGAAACTACAACGGCATCATAAAGGATAATCAATGGATCAGATGATTGATGATCGATATGGCG
1 TAGGAAACTACAA-GGCATCATAAAGGATAAACAATGGATCAGATGATTGATGATCGACATGGCG
* * * *
21682347 AATGAAATCAGTTCATATAAGGAAAAAGAATACCATTATCGTGACAGAAATGGAAATT-TGTTGA
65 AATAAAATCAGTTCATATAAGGAAAAAGAATACCATCATAGTGACAGAAATGGAAATTCT-TTAA
* * *
21682411 TTTTTCAGAAAT-AAAACCAATGGCA-ATGTTTCCTAGAACTGTTT
129 ATTTTCAAAAATCAAAACC-ATGGCAGA-GTTTCATAGAACTGTTT
21682455 CTGAGGGAGA
Statistics
Matches: 143, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
173 19 0.13
174 124 0.87
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (173 bp):
TAGGAAACTACAAGGCATCATAAAGGATAAACAATGGATCAGATGATTGATGATCGACATGGCGA
ATAAAATCAGTTCATATAAGGAAAAAGAATACCATCATAGTGACAGAAATGGAAATTCTTTAAAT
TTTCAAAAATCAAAACCATGGCAGAGTTTCATAGAACTGTTTG
Found at i:21683032 original size:15 final size:15
Alignment explanation
Indices: 21683012--21683089 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
21683002 TTTATGGAAA
21683012 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
21683027 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
21683041 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
21683057 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
21683071 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
21683087 ATC
1 ATC
21683090 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:21683049 original size:30 final size:30
Alignment explanation
Indices: 21683008--21683089 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
21682998 CATATTTATG
*
21683008 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
21683038 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
21683068 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
21683090 GAGATATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:21687273 original size:11 final size:11
Alignment explanation
Indices: 21687257--21687287 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21687247 ATACCCATAC
21687257 CCCATACCTTG
1 CCCATACCTTG
*
21687268 CCCATACCTTT
1 CCCATACCTTG
21687279 CCCATACCT
1 CCCATACCT
21687288 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:21697867 original size:7 final size:7
Alignment explanation
Indices: 21697851--21697880 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
21697841 GAGATAGTCG
21697851 ATTT-GT
1 ATTTAGT
21697857 ATTTAGT
1 ATTTAGT
21697864 ATTTAGT
1 ATTTAGT
21697871 ATTTAGT
1 ATTTAGT
21697878 ATT
1 ATT
21697881 ATGTATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (7 bp):
ATTTAGT
Found at i:21697874 original size:14 final size:13
Alignment explanation
Indices: 21697851--21697887 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
21697841 GAGATAGTCG
21697851 ATTTGTATTTAGT
1 ATTTGTATTTAGT
21697864 ATTTAGTATTTAGT
1 ATTT-GTATTTAGT
21697878 ATTATGTATT
1 ATT-TGTATT
21697888 ATGTATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 17 0.77
15 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (13 bp):
ATTTGTATTTAGT
Found at i:21698533 original size:18 final size:18
Alignment explanation
Indices: 21698507--21698542 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21698497 CCAAGTGCGC
* *
21698507 ATCCTAACCCTTTTATGT
1 ATCCAAACCCTTATATGT
21698525 ATCCAAACCCTTATATGT
1 ATCCAAACCCTTATATGT
21698543 TTCCTGTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (18 bp):
ATCCAAACCCTTATATGT
Found at i:21699046 original size:34 final size:34
Alignment explanation
Indices: 21698974--21699051 Score: 79
Period size: 34 Copynumber: 2.3 Consensus size: 34
21698964 TTATTTGACG
* * *
21698974 TAATAAAATAGAAATTCTTCTATATTATTTCATG
1 TAATAAAATAGAAATTCTTCTACATTATTTAATA
*
21699008 TAATAAAATAGAAATTTACTTTTACA-T-TTTAATA
1 TAATAAAATAGAAA-TT-CTTCTACATTATTTAATA
21699042 TAATAGAAAT
1 TAATA-AAAT
21699052 TTTTTTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 24 0.65
35 7 0.19
36 6 0.16
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.42
Consensus pattern (34 bp):
TAATAAAATAGAAATTCTTCTACATTATTTAATA
Found at i:21702450 original size:126 final size:126
Alignment explanation
Indices: 21702226--21702625 Score: 599
Period size: 126 Copynumber: 3.2 Consensus size: 126
21702216 GCCAAACAGA
* * * * * * * * *
21702226 AGCTACTGTAGAAAAAGCGCG-CCGCATGAGAGATTCTTTCAATACTTTTGCTGACAAAGTATCT
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCA
* *
21702290 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTTTTTTTTCAAG
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAAG
21702351 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCA
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCA
* * * *
21702416 TACTTAAAGCGTTTTTAACACTATTTGCTTAGAAACGTCTACTCGAAATTATTTTTTCAGG
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAAG
21702477 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCAT-A
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCA
*
21702541 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTT-AAGG
66 -TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA-G
* *
21702603 AGCTATTGTAGCAAAAGAGCGTC
1 AGCTACTGTAGCAAAAGCGCGTC
21702626 TACATGAGAA
Statistics
Matches: 250, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
125 22 0.09
126 228 0.91
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (126 bp):
AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCA
TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAAG
Found at i:21702771 original size:103 final size:100
Alignment explanation
Indices: 21702637--21702993 Score: 278
Period size: 97 Copynumber: 3.7 Consensus size: 100
21702627 ACATGAGAAC
* * * * * *
21702637 TTTTTT-AAATTAACAAATAATTTAATTAAGTAACTCTAAACCACACACCCTAATTTATTTGAGT
1 TTTTTTAAAATTTATAATTAATTTACTCAAGTAACTCTAAACCA-A-ACCCTAATTTATTT-AAT
* *
21702701 TTTTCCTTAAAAACCCTAAACATTAAACCCTAATCTAT
63 TTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA
* *
21702739 TTTTTTAAAATTTATAATTAATTTACTCAAGTAAC-C----CTAAACCTTAATTTATTTAATTTT
1 TTTTTTAAAATTTATAATTAATTTACTCAAGTAACTCTAAACCAAACCCTAATTTATTTAATTTT
* *
21702799 TCCTTAAAAACTCTTAACACTAAACCCTAATCTAA
66 TCCTTAAAAACCCTAAACACTAAACCCTAATCTAA
* * * *
21702834 TTTTTTAAATTTTTTTTAATTAATTTACTCAAGTAACTCT-----AAACCCTAATTTAATTGATT
1 TTTTTTAAA--ATTTATAATTAATTTACTCAAGTAACTCTAAACCAAACCCTAATTTATTTAATT
*** * *
21702894 TTT-AAAAAAAACCATAAACAC-AAA-AC--ATCTAA
64 TTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA
** * * * * * *
21702926 TTTTGAAAAATTTATAATTAATTTAATTAAGAAACTCTGAACCCTAATCCCTTATTTATTTAATT
1 TTTTTTAAAATTTATAATTAATTTACTCAAGTAACTCT-AAACC-AAACCCTAATTTATTTAATT
21702991 TTT
64 TTT
21702994 TTCTTTAAAA
Statistics
Matches: 208, Mismatches: 35, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
90 24 0.12
92 13 0.06
94 1 0.00
95 48 0.23
96 25 0.12
97 64 0.31
98 3 0.01
102 7 0.03
103 23 0.11
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.41
Consensus pattern (100 bp):
TTTTTTAAAATTTATAATTAATTTACTCAAGTAACTCTAAACCAAACCCTAATTTATTTAATTTT
TCCTTAAAAACCCTAAACACTAAACCCTAATCTAA
Found at i:21702884 original size:97 final size:95
Alignment explanation
Indices: 21702683--21702973 Score: 313
Period size: 95 Copynumber: 3.1 Consensus size: 95
21702673 TAAACCACAC
* * *
21702683 ACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACATTAAACCCTAATCTATTTTTTTAAA
1 ACCCTAATTTATTT-AATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAA
21702748 ATTTATAATTAATTTACTCAAGTAACCCTAA
65 ATTTATAATTAATTTACTCAAGTAACCCTAA
* * *
21702779 ACCTTAATTTATTTAATTTTTCCTTAAAAACTCTTAACACTAAACCCTAATCTAATTTTTTAAAT
1 ACCCTAATTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAA-
* * *
21702844 TTTTTTTAATTAATTTACTCAAGTAACTCTAA
65 -ATTTATAATTAATTTACTCAAGTAACCCTAA
* * *** * * **
21702876 ACCCTAATTTAATTGATTTTT-AAAAAAAACCATAAACAC-AAA-AC--ATCTAATTTTGAAAAA
1 ACCCTAATTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAA
* * * * *
21702936 TTTATAATTAATTTAATTAAGAAACTCTGA
66 TTTATAATTAATTTACTCAAGTAACCCTAA
21702966 ACCCTAAT
1 ACCCTAAT
21702974 CCCTTATTTA
Statistics
Matches: 166, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
90 33 0.20
92 13 0.08
94 1 0.01
95 48 0.29
96 25 0.15
97 46 0.28
ACGTcount: A:0.41, C:0.16, G:0.03, T:0.40
Consensus pattern (95 bp):
ACCCTAATTTATTTAATTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAA
TTTATAATTAATTTACTCAAGTAACCCTAA
Found at i:21703765 original size:37 final size:36
Alignment explanation
Indices: 21703691--21703767 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
21703681 AATAAAAAGA
* * *
21703691 TTAAATTTTTAAAAGTAAAAGTATAATAATTAAATT
1 TTAAATTTTAAAAAGTAAAAGGATAATAAGTAAATT
*
21703727 TTAAATTTGTAAAAAGTAAAAGGACTAAT-AGTATATT
1 TTAAATTT-TAAAAAGTAAAAGGA-TAATAAGTAAATT
21703764 TTAA
1 TTAA
21703768 CAATTACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 8 0.23
37 23 0.66
38 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (36 bp):
TTAAATTTTAAAAAGTAAAAGGATAATAAGTAAATT
Found at i:21706613 original size:217 final size:217
Alignment explanation
Indices: 21706238--21706675 Score: 842
Period size: 217 Copynumber: 2.0 Consensus size: 217
21706228 AACTTAAATG
21706238 AAATTGAACATACCAATCTTCGGAAACCACACCTAAATCCAAGCATATCCTACCTTACCCAAATT
1 AAATTGAACATACCAATCTTCGGAAACCACACCTAAATCCAAGCATATCCTACCTTACCCAAATT
21706303 CAGACTCCAAGTGAGTATCCAATATGGGTATCTTACAAAGGGTTTTTTTCTTTCCAAAGATTTTT
66 CAGACTCCAAGTGAGTATCCAATATGGGTATCTTACAAAGGGTTTTTTTCTTTCCAAAGATTTTT
21706368 CACAAATTTAGAGGATTATATCATCATATAGTCATACTCATATCCAAATATGTCAAACATGAATA
131 CACAAATTTAGAGGATTATATCATCATATAGTCATACTCATATCCAAATATGTCAAACATGAATA
*
21706433 CTTTGAAAAAATTAAAGAATCA
196 CTTTAAAAAAATTAAAGAATCA
*
21706455 AAATTGAACATACCAATCTTCGGAAACCACACCTAAATCCGAGCATATCCTACCTTACCCAAATT
1 AAATTGAACATACCAATCTTCGGAAACCACACCTAAATCCAAGCATATCCTACCTTACCCAAATT
21706520 CAGACTCCAAGTGAGTATCCAATATGGGTATCTTACAAAGGGTTTTTTTCTTTCCAAAG-TTATT
66 CAGACTCCAAGTGAGTATCCAATATGGGTATCTTACAAAGGGTTTTTTTCTTTCCAAAGATT-TT
21706584 TCACAAATTTAGAGGATTATATCATCATATAGTCATACTCATATCCAAATATGTCAAACATGAAT
130 TCACAAATTTAGAGGATTATATCATCATATAGTCATACTCATATCCAAATATGTCAAACATGAAT
21706649 ACTTTAAAAAAATTAAAGAATCA
195 ACTTTAAAAAAATTAAAGAATCA
21706672 AAAT
1 AAAT
21706676 ACCGTAACTT
Statistics
Matches: 218, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
216 2 0.01
217 216 0.99
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (217 bp):
AAATTGAACATACCAATCTTCGGAAACCACACCTAAATCCAAGCATATCCTACCTTACCCAAATT
CAGACTCCAAGTGAGTATCCAATATGGGTATCTTACAAAGGGTTTTTTTCTTTCCAAAGATTTTT
CACAAATTTAGAGGATTATATCATCATATAGTCATACTCATATCCAAATATGTCAAACATGAATA
CTTTAAAAAAATTAAAGAATCA
Found at i:21716412 original size:30 final size:31
Alignment explanation
Indices: 21716376--21716437 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
21716366 NNNNNNNNNN
21716376 GAAAGTCAAAGATATGGGTATC-AAATATTG
1 GAAAGTCAAAGATATGGGTATCGAAATATTG
*
21716406 GAAAGTCAAAGATATGGGTATCGAGATATTG
1 GAAAGTCAAAGATATGGGTATCGAAATATTG
21716437 G
1 G
21716438 CATAATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.26
Consensus pattern (31 bp):
GAAAGTCAAAGATATGGGTATCGAAATATTG
Found at i:21719222 original size:78 final size:77
Alignment explanation
Indices: 21719079--21719225 Score: 204
Period size: 78 Copynumber: 1.9 Consensus size: 77
21719069 ATTGCGACGG
* * * **
21719079 TTCATTGAACTGTTTCTAGGAACTACTATAGTCATCATACAGGAGAATCAATGGATCGGGTGATT
1 TTCATTGAACTGTTTCTAGGAACTACCATAGCCATCATACAGGAGAATCAATGGATCAGACGATT
21719144 GATGTGCAAAGT
66 GATGTGCAAAGT
* * * *
21719156 TTCATTGGACTGTTTCTTGGAAGCTACCATGGCCATCATACAGGATAATCAATGGATCAGACGAT
1 TTCATTGAACTGTTTCTAGGAA-CTACCATAGCCATCATACAGGAGAATCAATGGATCAGACGAT
21719221 TGATG
65 TGATG
21719226 CTTGCATGGC
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
77 20 0.33
78 40 0.67
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (77 bp):
TTCATTGAACTGTTTCTAGGAACTACCATAGCCATCATACAGGAGAATCAATGGATCAGACGATT
GATGTGCAAAGT
Found at i:21721506 original size:5 final size:5
Alignment explanation
Indices: 21721496--21721521 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21721486 TCAGATTTTA
21721496 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
21721522 TTAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:21726939 original size:24 final size:23
Alignment explanation
Indices: 21726907--21727015 Score: 73
Period size: 24 Copynumber: 4.6 Consensus size: 23
21726897 TGCATTTTCT
21726907 ATATTTTATAATTCATATATATAC
1 ATATTTTATAATT-ATATATATAC
21726931 ATATTTTATAA-TATATATTCATAC
1 ATATTTTATAATTATATA-T-ATAC
** *
21726955 ACTATTCGA-AATTAT-TATAAAC
1 A-TATTTTATAATTATATATATAC
* *
21726977 ATTTTTTAT-ATATACCTATATATCC
1 ATATTTTATAAT-TA--TATATATAC
21727002 ATATCTTTATAATT
1 ATAT-TTTATAATT
21727016 TACTAATATA
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
21 6 0.09
22 11 0.17
23 3 0.05
24 21 0.32
25 16 0.25
26 6 0.09
27 2 0.03
ACGTcount: A:0.39, C:0.11, G:0.01, T:0.49
Consensus pattern (23 bp):
ATATTTTATAATTATATATATAC
Found at i:21731967 original size:61 final size:61
Alignment explanation
Indices: 21731872--21731995 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
21731862 TAAAGAAGGA
*
21731872 AAGGACCAAGGTAAAAGCCTGCAAATGGCGAGTCGTAAAAAATGAATTGGAAAAAATGACG
1 AAGGACCAAGGTAAAAGCCTGCAAATGGCGAGTCGTAAAAAATAAATTGGAAAAAATGACG
21731933 AAGGACCAAGGTAAAAGCCTGCAAATGGCGAGTCGTAAAAAATAAATTGGAAAAAATGACG
1 AAGGACCAAGGTAAAAGCCTGCAAATGGCGAGTCGTAAAAAATAAATTGGAAAAAATGACG
21731994 AA
1 AA
21731996 AAAATGAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.48, C:0.13, G:0.25, T:0.15
Consensus pattern (61 bp):
AAGGACCAAGGTAAAAGCCTGCAAATGGCGAGTCGTAAAAAATAAATTGGAAAAAATGACG
Found at i:21732012 original size:7 final size:7
Alignment explanation
Indices: 21731995--21732036 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
21731985 AAAATGACGA
21731995 AAAAATG
1 AAAAATG
21732002 -AAAATG
1 AAAAATG
21732008 AAAAATG
1 AAAAATG
21732015 AAAAATGG
1 AAAAAT-G
21732023 AAAAA-G
1 AAAAATG
21732029 TAAAAATG
1 -AAAAATG
21732037 GAGAGGCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.23
7 17 0.55
8 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:21732025 original size:15 final size:15
Alignment explanation
Indices: 21731995--21732038 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
21731985 AAAATGACGA
21731995 AAAAATG-AAAAT-G
1 AAAAATGAAAAATGG
21732008 AAAAATGAAAAATGG
1 AAAAATGAAAAATGG
21732023 AAAAA-GTAAAAATGG
1 AAAAATG-AAAAATGG
21732038 A
1 A
21732039 GAGGCTAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.25
14 6 0.21
15 15 0.54
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.14
Consensus pattern (15 bp):
AAAAATGAAAAATGG
Found at i:21733326 original size:88 final size:88
Alignment explanation
Indices: 21733215--21733399 Score: 255
Period size: 88 Copynumber: 2.1 Consensus size: 88
21733205 GGTGAAACTT
* * *
21733215 CAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAACAT-AGCAGATCTTGACTTCCTGTATT
1 CAGCCTTATCTCCCTAAGCAGCAGCGGAGTAGGTTGAAAATGA-CAGATCTTGACTTCCTGTACT
* *
21733279 AGCAGCGAAGTAGATCAAAGATAC
65 AGCAGCGAAGCAGATCAAAGACAC
* * * *
21733303 CAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTG
1 CAGCCTTATCTCCCTAAGCAGCAGCGGAGTAGGTTGAAAATGACAGATCTTGACTTCCTGTACTA
*
21733368 GCAGCGAAGCAGATCGAAGACAC
66 GCAGCGAAGCAGATCAAAGACAC
*
21733391 CAGTCTTAT
1 CAGCCTTAT
21733400 TGCCTTGACA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
88 83 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (88 bp):
CAGCCTTATCTCCCTAAGCAGCAGCGGAGTAGGTTGAAAATGACAGATCTTGACTTCCTGTACTA
GCAGCGAAGCAGATCAAAGACAC
Found at i:21733714 original size:100 final size:100
Alignment explanation
Indices: 21733589--21734297 Score: 1070
Period size: 100 Copynumber: 7.1 Consensus size: 100
21733579 ACAGTGGAAT
***
21733589 AGATTGAAGCCACAACGGTAAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTCACAA
21733654 CGGCAGATCTGGTTTTCCCGACATTGCAATTAAAA
66 CGGCAGATCTGGTTTTCCCGACATTGCAATTAAAA
21733689 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTCACAA
21733754 CGGCAGATCTGGTTTTCCCGACATTGCAATTAAAA
66 CGGCAGATCTGGTTTTCCCGACATTGCAATTAAAA
21733789 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTCACAA
21733854 CGGCAGATCTGGTTTTCCCGACATTGCAATTAAAA
66 CGGCAGATCTGGTTTTCCCGACATTGCAATTAAAA
21733889 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTCACAA
21733954 CGGCAGATCTGGTTTTCCCGACATTGCAATTAAAA
66 CGGCAGATCTGGTTTTCCCGACATTGCAATTAAAA
* *
21733989 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAG-CTACG
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTC-ACA
** * * *
21734053 ACGGTGGATCTGG-TTTCCTCGACATTGCAGTTAGAT
65 ACGGCAGATCTGGTTTTCC-CGACATTGCAATTAAAA
* *
21734089 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTAAAG-CTACG
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTC-ACA
** * * *
21734153 ACGGTGGATCTGG-TTTCCTCGACATTGCAGTTAGAT
65 ACGGCAGATCTGGTTTTCC-CGACATTGCAATTAAAA
* * * * * *
21734189 AGATTGAAGCCACAACGGCGAATCTTACCTCCCTGGTGGTGTAGTGGAACAAATTGAAGTCACGA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTCACAA
* * * * *
21734254 TGGC-GAATCTTGTTTCCCCGACATTACAGTTAAACA
66 CGGCAG-ATCTGGTTTTCCCGACATTGCAATTAAA-A
21734290 A-ATTGAAG
1 AGATTGAAG
21734298 AAAATAATCC
Statistics
Matches: 580, Mismatches: 23, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
99 7 0.01
100 567 0.98
101 6 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (100 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGTCACAA
CGGCAGATCTGGTTTTCCCGACATTGCAATTAAAA
Found at i:21734441 original size:45 final size:44
Alignment explanation
Indices: 21734391--21734503 Score: 111
Period size: 45 Copynumber: 2.5 Consensus size: 44
21734381 CGTACAGTCT
21734391 TATCTCCTTGAGGTTGCAGCAGAGTAGACTGAAGATAGC-AAATCC
1 TATCTCCTTGAGGTTGCAG-AGAGTAGACTGAAGATA-CTAAATCC
* * * * * ** *
21734436 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATACTAGGTCT
1 TATCTCCTTGAGGTTGCAG-AGAGTAGACTGAAGATACTAAATCC
*
21734481 TATCTCTTTGAGGTTGCAGAGAG
1 TATCTCCTTGAGGTTGCAGAGAG
21734504 CAGATCGCAT
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
44 4 0.07
45 50 0.93
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
TATCTCCTTGAGGTTGCAGAGAGTAGACTGAAGATACTAAATCC
Found at i:21734572 original size:44 final size:43
Alignment explanation
Indices: 21734431--21734589 Score: 135
Period size: 44 Copynumber: 3.7 Consensus size: 43
21734421 GAAGATAGCA
** *
21734431 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGAAACT
* * ** * * * * *
21734475 AGGTCTTATCTCTTTGAGGTTGCAG-AGAGCAGAT--CGCATCT
1 A-ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGAAACT
* *
21734516 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT-GAAGAAACT
*
21734560 AATCCTATCTCCCTAAAGTTGCAGTGGAGC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGC
21734590 GGATTAACAT
Statistics
Matches: 88, Mismatches: 22, Indels: 10
0.73 0.18 0.08
Matches are distributed among these distances:
40 20 0.23
41 12 0.14
43 1 0.01
44 37 0.42
45 18 0.20
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAGAAACT
Found at i:21735965 original size:3 final size:3
Alignment explanation
Indices: 21735959--21736017 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
21735949 TTTTTTACAC
* *
21735959 TAT TAT TAT TAT TGT T-T TAA T-T TAT TAT TAT TAAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
21736002 TAT TATT TAT TAT TAT
1 TAT TA-T TAT TAT TAT
21736018 ACTTACATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
2 5 0.10
3 37 0.77
4 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21735987 original size:25 final size:28
Alignment explanation
Indices: 21735959--21736017 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
21735949 TTTTTTACAC
*
21735959 TATTATT-ATTATTGTT-T-TAATTTAT
1 TATTATTAATTATTATTATATAATTTAT
*
21735984 TATTATTAATTATTATTATATTATTTAT
1 TATTATTAATTATTATTATATAATTTAT
21736012 TATTAT
1 TATTAT
21736018 ACTTACATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.24
26 8 0.28
27 1 0.03
28 13 0.45
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (28 bp):
TATTATTAATTATTATTATATAATTTAT
Found at i:21736207 original size:24 final size:23
Alignment explanation
Indices: 21736175--21736283 Score: 73
Period size: 24 Copynumber: 4.6 Consensus size: 23
21736165 TGCATTTTCT
21736175 ATATTTTATAATTCATATATATAC
1 ATATTTTATAATT-ATATATATAC
21736199 ATATTTTATAA-TATATATTCATAC
1 ATATTTTATAATTATATA-T-ATAC
** *
21736223 ACTATTCGA-AATTAT-TATAAAC
1 A-TATTTTATAATTATATATATAC
* *
21736245 ATTTTTTAT-ATATACCTATATATCC
1 ATATTTTATAAT-TA--TATATATAC
21736270 ATATCTTTATAATT
1 ATAT-TTTATAATT
21736284 TACTAATATA
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
21 6 0.09
22 11 0.17
23 3 0.05
24 21 0.32
25 16 0.25
26 6 0.09
27 2 0.03
ACGTcount: A:0.39, C:0.11, G:0.01, T:0.49
Consensus pattern (23 bp):
ATATTTTATAATTATATATATAC
Found at i:21738073 original size:9 final size:8
Alignment explanation
Indices: 21738058--21738125 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
21738048 AATTTATTTA
21738058 ATAATAAT
1 ATAATAAT
21738066 AGTAATAAT
1 A-TAATAAT
21738075 ATAATTAAT
1 ATAA-TAAT
21738084 ATAA-AAT
1 ATAATAAT
*
21738091 ACAAT--T
1 ATAATAAT
21738097 -TGAATAAT
1 AT-AATAAT
21738105 CAATAATAAT
1 --ATAATAAT
21738115 ATAATAAT
1 ATAATAAT
21738123 ATA
1 ATA
21738126 TTTTATAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.08
7 6 0.12
8 16 0.33
9 16 0.33
10 6 0.12
11 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (8 bp):
ATAATAAT
Found at i:21742237 original size:18 final size:18
Alignment explanation
Indices: 21742210--21742249 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
21742200 CAGGTGCTTT
*
21742210 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
21742228 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
21742246 TCCT
1 TCCT
21742250 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:21742717 original size:45 final size:45
Alignment explanation
Indices: 21742668--21742755 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
21742658 ATATTTTGAA
* * * *
21742668 TATTTTGATATTATTTTATGTGATAAAATAGAATTTTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGAGT
21742713 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
21742756 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGAGT
Found at i:21742751 original size:25 final size:25
Alignment explanation
Indices: 21742723--21742779 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
21742713 TATTTTGATA
*
21742723 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
21742748 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
21742773 TT-TTTGA
1 TTATTTGA
21742780 GTTATTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAAT
Found at i:21742794 original size:69 final size:70
Alignment explanation
Indices: 21742678--21742807 Score: 226
Period size: 69 Copynumber: 1.9 Consensus size: 70
21742668 TATTTTGATA
* * *
21742678 TTATTTTATGTGATAAAATAGAATTTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTGATGTAATAAAATAGAATATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
21742743 GAAGT
66 GAAGT
21742748 TTATTTGATGTAATAAAATAGAA-ATTTTTTGAGTTATTTTGATATTATTTGATGTAATAA
1 TTATTTGATGTAATAAAATAGAATATTTTTTGAGTTATTTTGATATTATTTGATGTAATAA
21742808 CATGAGCTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
69 36 0.63
70 21 0.37
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (70 bp):
TTATTTGATGTAATAAAATAGAATATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
GAAGT
Found at i:21743977 original size:27 final size:27
Alignment explanation
Indices: 21743939--21743995 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
21743929 TGTTGGTCAC
21743939 TTGTCGTCATTCGCTCTTAGATGGATA
1 TTGTCGTCATTCGCTCTTAGATGGATA
21743966 TTGTCGTCATTCGCTCTTAGATGGATA
1 TTGTCGTCATTCGCTCTTAGATGGATA
21743993 TTG
1 TTG
21743996 CCTGTAGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.42
Consensus pattern (27 bp):
TTGTCGTCATTCGCTCTTAGATGGATA
Found at i:21746230 original size:125 final size:125
Alignment explanation
Indices: 21746008--21746260 Score: 425
Period size: 125 Copynumber: 2.0 Consensus size: 125
21745998 CCCAAACATG
* * *
21746008 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGCTTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATCCTGC
* *
21746073 TAGAAGAAATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TAGAAGAAATTTTATACTATTTGATCAGAAACGTCAACTCAAAATTATTTCTTCCACGAC
*
21746133 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATCCTGC
** *
21746198 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCACGAC
66 TAGAAGAAATTTTATACTATTTGATCAGAAACGTCAACTCAAAATTATTTCTTCCACGAC
21746258 CTA
1 CTA
21746261 AAACCCTAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 119 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAGCATCCTGC
TAGAAGAAATTTTATACTATTTGATCAGAAACGTCAACTCAAAATTATTTCTTCCACGAC
Found at i:21748924 original size:15 final size:15
Alignment explanation
Indices: 21748904--21748938 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21748894 AATTTAAAGA
21748904 AAAATGAATATTGTG
1 AAAATGAATATTGTG
* *
21748919 AAAATGGATGTTGTG
1 AAAATGAATATTGTG
21748934 AAAAT
1 AAAAT
21748939 ATTGGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (15 bp):
AAAATGAATATTGTG
Found at i:21750422 original size:30 final size:30
Alignment explanation
Indices: 21750239--21750424 Score: 309
Period size: 30 Copynumber: 6.2 Consensus size: 30
21750229 AGTTAGGCCA
21750239 TTTGGGCCACCAAGTGGACCGCCTTCGCCT
1 TTTGGGCCACCAAGTGGACCGCCTTCGCCT
* *
21750269 TTTCGGTCACCAAGTGGACCGCCTTCGCCT
1 TTTGGGCCACCAAGTGGACCGCCTTCGCCT
* * *
21750299 TTTCGGTCACCAACTGGACCGCCTTCGCCT
1 TTTGGGCCACCAAGTGGACCGCCTTCGCCT
21750329 TTTGGGCCACCAAGTGGACCGCCTTCGCCT
1 TTTGGGCCACCAAGTGGACCGCCTTCGCCT
*
21750359 TTTCGGCCACCAAGTGGACCGCCTTCGCCT
1 TTTGGGCCACCAAGTGGACCGCCTTCGCCT
*
21750389 TTTGGGCCACCAAGTGGGCCGCCTTCGCCT
1 TTTGGGCCACCAAGTGGACCGCCTTCGCCT
21750419 TTTGGG
1 TTTGGG
21750425 ACTAGACCAC
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 147 1.00
ACGTcount: A:0.12, C:0.37, G:0.26, T:0.25
Consensus pattern (30 bp):
TTTGGGCCACCAAGTGGACCGCCTTCGCCT
Done.