Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 24 of 318
Found at i:9071261 original size:24 final size:25
Alignment explanation
Indices: 9071206--9071261 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
9071196 GTATGTTATG
* *
9071206 TATATATTATGTATATGCTTTTAAA
1 TATATATTATATATATGATTTTAAA
* *
9071231 TAT-TATTATATATCT-ATTTTCAA
1 TATATATTATATATATGATTTTAAA
9071254 TATATATT
1 TATATATT
9071262 TATGTAGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
TATATATTATATATATGATTTTAAA
Found at i:9080361 original size:50 final size:50
Alignment explanation
Indices: 9080286--9080384 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
9080276 GCCACACTTA
* * *
9080286 TTGAAAAGAGGGAAACACAATCTTCCTAGGATAATGAAGAAAAGAAAACG
1 TTGAAAAGAGGGAAAAACAATCTTCCTAGAAAAATGAAGAAAAGAAAACG
9080336 TTGAAAAG-GGAGAAAAACAATCTTCCTAGAAAAATGAAGAAAAGAAAAC
1 TTGAAAAGAGG-GAAAAACAATCTTCCTAGAAAAATGAAGAAAAGAAAAC
9080385 AGCAAAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 2 0.04
50 43 0.96
ACGTcount: A:0.54, C:0.11, G:0.20, T:0.15
Consensus pattern (50 bp):
TTGAAAAGAGGGAAAAACAATCTTCCTAGAAAAATGAAGAAAAGAAAACG
Found at i:9080403 original size:50 final size:49
Alignment explanation
Indices: 9080302--9080401 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 49
9080292 AGAGGGAAAC
* * * ** *
9080302 ACAATCTTCCTAGGATAATGAAGAAAAGAAAACGTTGAAAAGGGAGAAAA
1 ACAATCTTCCTAGAAAAATGAAGAAAAGAAAACG-TCAAAAGAAAAAAAA
9080352 ACAATCTTCCTAGAAAAATGAAGAAAAGAAAACAG-CAAAAGAAAAAAAA
1 ACAATCTTCCTAGAAAAATGAAGAAAAGAAAAC-GTCAAAAGAAAAAAAA
9080401 A
1 A
9080402 ACTAACCATA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
49 11 0.26
50 31 0.72
51 1 0.02
ACGTcount: A:0.59, C:0.11, G:0.17, T:0.13
Consensus pattern (49 bp):
ACAATCTTCCTAGAAAAATGAAGAAAAGAAAACGTCAAAAGAAAAAAAA
Found at i:9084549 original size:18 final size:17
Alignment explanation
Indices: 9084526--9084576 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
9084516 TGATTTTACA
9084526 AAAAAAAATTAAAAAGAT
1 AAAAAAAATTAAAAA-AT
* *
9084544 AAAAAAAATGAAAAATT
1 AAAAAAAATTAAAAAAT
9084561 AAATAAAAGATTAAAA
1 AAA-AAAA-ATTAAAA
9084577 TGATTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 18 0.64
19 6 0.21
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAAAAATTAAAAAAT
Found at i:9110498 original size:31 final size:31
Alignment explanation
Indices: 9110462--9110520 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
9110452 GATAATTTAT
9110462 TTTTAATTTTACGGATTTATATAAAAGTTAA
1 TTTTAATTTTACGGATTTATATAAAAGTTAA
9110493 TTTTAATTTTACGGATTTATATAAAAGT
1 TTTTAATTTTACGGATTTATATAAAAGT
9110521 GCATTTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.49
Consensus pattern (31 bp):
TTTTAATTTTACGGATTTATATAAAAGTTAA
Found at i:9110527 original size:31 final size:31
Alignment explanation
Indices: 9110462--9110527 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
9110452 GATAATTTAT
*
9110462 TTTTAATTTTACGGATTTATATAAAAGTTAA
1 TTTTAATTTTACGGATTTATATAAAAGTGAA
*
9110493 TTTTAATTTTACGGATTTATATAAAAGTGCA
1 TTTTAATTTTACGGATTTATATAAAAGTGAA
9110524 TTTT
1 TTTT
9110528 TCTTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.50
Consensus pattern (31 bp):
TTTTAATTTTACGGATTTATATAAAAGTGAA
Found at i:9115315 original size:3 final size:3
Alignment explanation
Indices: 9115301--9115347 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
9115291 GTTTTACAGG
* *
9115301 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC CTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
9115348 AAATAAAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:9130735 original size:17 final size:16
Alignment explanation
Indices: 9130706--9130749 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
9130696 GAGTCAAATT
*
9130706 TTAGTTACTTTTAA-G
1 TTAGGTACTTTTAATG
9130721 TTCAGGTATCTTTTAATG
1 TT-AGGTA-CTTTTAATG
9130739 TTAGGTACTTT
1 TTAGGTACTTT
9130750 ATGGTGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 8 0.32
17 12 0.48
18 3 0.12
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.52
Consensus pattern (16 bp):
TTAGGTACTTTTAATG
Found at i:9135350 original size:92 final size:93
Alignment explanation
Indices: 9135192--9135378 Score: 231
Period size: 92 Copynumber: 2.0 Consensus size: 93
9135182 TACCTTCAAT
9135192 TTGATTTTTTTCAACAAAATAAAAAAGAACAGATTTGTCTTTCTTTGATATAAGTTATTTATTCC
1 TTGATTTTTTTCAACAAAATAAAAAAGAACAGATTTGTCTTTCTTTGATATAAGTTATTTATTCC
*
9135257 AAATTTGAGG-ACTTTAAATTTAAAAAGG
66 AAATTTGAGGTACCTTAAATTT-AAAAGG
* * * * *
9135285 TTGA-TTTTTTCAACAAAATTTAAAAATAA-A-A-TTGTCTTTTGTTTTATATAAGTTATTTTTT
1 TTGATTTTTTTCAACAAAA-TAAAAAAGAACAGATTTGTC-TTTCTTTGATATAAGTTA-TTTAT
* *
9135346 TCCAAATTTGGGGTGCCTTAAATTTAAAAGG
63 TCCAAATTTGAGGTACCTTAAATTTAAAAGG
9135377 TT
1 TT
9135379 CTACTACTGT
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
90 5 0.06
91 17 0.21
92 39 0.48
93 21 0.26
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (93 bp):
TTGATTTTTTTCAACAAAATAAAAAAGAACAGATTTGTCTTTCTTTGATATAAGTTATTTATTCC
AAATTTGAGGTACCTTAAATTTAAAAGG
Found at i:9145895 original size:18 final size:19
Alignment explanation
Indices: 9145872--9145918 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
9145862 GGTTTAATTG
9145872 AATAAATCA-TTAAAAAAT
1 AATAAATCATTTAAAAAAT
9145890 AATAAAAAT-ATTTAAAAAAT
1 AAT--AAATCATTTAAAAAAT
*
9145910 AAAAAATCA
1 AATAAATCA
9145919 GTTCAATCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 7 0.29
19 2 0.08
20 15 0.62
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAATCATTTAAAAAAT
Found at i:9148372 original size:16 final size:17
Alignment explanation
Indices: 9148341--9148373 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9148331 TTCATAAGTA
*
9148341 TATATCCATCATTTCAT
1 TATATCAATCATTTCAT
9148358 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
9148374 GCTCCATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:9148719 original size:46 final size:46
Alignment explanation
Indices: 9148654--9149064 Score: 583
Period size: 46 Copynumber: 9.0 Consensus size: 46
9148644 TTATCTTTGA
* * * * * *
9148654 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* *** *
9148700 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ** ***
9148746 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
9148791 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
9148837 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
9148883 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
9148929 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
9148975 CATGTTTCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
9149021 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
9149065 TTCAGAAAGC
Statistics
Matches: 333, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 42 0.13
46 291 0.87
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:9153819 original size:22 final size:21
Alignment explanation
Indices: 9153791--9153858 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
9153781 TATGCACTAT
*
9153791 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCA-TAATGTGC
*
9153813 TATACAGAGAGCATGAATGTGC
1 TAAACAGAGAGCAT-AATGTGC
*
9153835 TAAACAAAGAGCATTAATGTGC
1 TAAACAGAGAGCA-TAATGTGC
9153857 TA
1 TA
9153859 GTAATCGGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 38 0.95
23 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.21
Consensus pattern (21 bp):
TAAACAGAGAGCATAATGTGC
Found at i:9156120 original size:35 final size:35
Alignment explanation
Indices: 9156081--9156553 Score: 497
Period size: 35 Copynumber: 13.6 Consensus size: 35
9156071 CATGGTAAAG
*
9156081 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
9156116 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* *
9156151 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
9156186 TGTGAAATGTAGGTATGGTATCATCCTTACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
9156221 TGT-AATACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAA-ACGTAGGTATGGTATCATCCATACTGAGT
* * * *
9156256 TGTGAAACATAGGTATGGTATTAACCATACTGAGC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
9156291 TGTGAAATGTAGGTATGGTAT-TTCCATACTGAGC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
9156325 TGTGAAACGTAAGTATGGTAT-TTCCATACTGAGC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
9156359 TGTGAAACGTAGATATGG-AGTCGTCCATACTGAGC
1 TGTGAAACGTAGGTATGGTA-TCATCCATACTGAGT
* * * * *
9156394 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * * *
9156429 TATGATACGTAGGTATGGCATCGTCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* ** ** *
9156464 TATGAAATATAGGTATGGTATTTTCCATACCGAG-
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
** * * ** *
9156498 CATGAAAAGTAGGTATGGTGTTTTCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
9156533 TGTGAAACATAGGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
9156554 TTCAATGAGG
Statistics
Matches: 386, Mismatches: 46, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
33 1 0.00
34 92 0.24
35 290 0.75
36 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
Found at i:9156263 original size:105 final size:105
Alignment explanation
Indices: 9156081--9156553 Score: 551
Period size: 105 Copynumber: 4.5 Consensus size: 105
9156071 CATGGTAAAG
9156081 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
* *
9156146 CGAGTTGTGAAACGTAGGTATGGTATTAACCATACTGAGT
66 CGAGTTGTGAAACATAGGTATGGTATTAACCATACTGAGC
* *
9156186 TGTGAAATGTAGGTATGGTATCATCCTTACCGAGTTGT-AATACGTAGGTATGGTATCATCCATA
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAA-ACGTAGGTATGGTATCATCCATA
9156250 CCGAGTTGTGAAACATAGGTATGGTATTAACCATACTGAGC
65 CCGAGTTGTGAAACATAGGTATGGTATTAACCATACTGAGC
* * * *
9156291 TGTGAAATGTAGGTATGGTAT-TTCCATACTGAGCTGTGAAACGTAAGTATGGTAT-TTCCATAC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
* * * * ***
9156354 TGAGCTGTGAAACGTAGATATGG-AGTCGTCCATACTGAGC
66 CGAGTTGTGAAACATAGGTATGGTA-TTAACCATACTGAGC
* * * * * * * * * *
9156394 TATGATACGTAGGTATGGCATCGTCCATACTGAGCTATGATACGTAGGTATGGCATCGTCCATAC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
* * * ** *
9156459 TGAGTTATGAAATATAGGTATGGTATTTTCCATACCGAGC
66 CGAGTTGTGAAACATAGGTATGGTATTAACCATACTGAGC
* * * ** * *
9156499 -ATGAAAAGTAGGTATGGTGTTTTCCATACCGAGTTGTGAAACATAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAACGTAGGTATGGTAT
9156554 TTCAATGAGG
Statistics
Matches: 315, Mismatches: 47, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
102 1 0.00
103 55 0.17
104 100 0.32
105 158 0.50
106 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (105 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
CGAGTTGTGAAACATAGGTATGGTATTAACCATACTGAGC
Found at i:9160039 original size:10 final size:10
Alignment explanation
Indices: 9160024--9160051 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9160014 TGAGTCAAGT
9160024 AAGAATTTAG
1 AAGAATTTAG
9160034 AAGAATTTAG
1 AAGAATTTAG
9160044 AAGAATTT
1 AAGAATTT
9160052 GTGAAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (10 bp):
AAGAATTTAG
Found at i:9161421 original size:53 final size:53
Alignment explanation
Indices: 9161265--9161430 Score: 203
Period size: 53 Copynumber: 3.1 Consensus size: 53
9161255 GACGAAAAAT
* * **
9161265 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATA
* *
9161317 ATGTGATAATGTGACTCCGTATAAGACCATAGCTAGGTTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATA
* *
9161370 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGATATGGCATCGGTAT-A
9161424 TATGTGA
1 -ATGTGA
9161431 ACCGTGTAAG
Statistics
Matches: 100, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 78 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTATA
Found at i:9167934 original size:53 final size:53
Alignment explanation
Indices: 9167778--9167943 Score: 214
Period size: 53 Copynumber: 3.1 Consensus size: 53
9167768 GACGAAAAAT
* **
9167778 ATGTGATAA-GTG-TGTCCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAATGTGAT-TCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
9167830 ATGTGATAATGTGACTT-CGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGA-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* *
9167883 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGATTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
9167937 TATGTGA
1 -ATGTGA
9167944 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 5, Indels: 11
0.86 0.04 0.09
Matches are distributed among these distances:
52 12 0.12
53 81 0.79
54 2 0.02
55 7 0.07
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:9175433 original size:21 final size:20
Alignment explanation
Indices: 9175386--9175443 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
9175376 TACTAAACAC
**
9175386 AAAT-TATCGATACTTGATA
1 AAATGTATCGATACTTTTTA
*
9175405 AAAGGTATCGATACTTTTTGA
1 AAATGTATCGATACTTTTT-A
*
9175426 AAATGTATCAATACTTTT
1 AAATGTATCGATACTTTT
9175444 ATAATTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 3 0.09
20 12 0.38
21 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (20 bp):
AAATGTATCGATACTTTTTA
Found at i:9177852 original size:20 final size:21
Alignment explanation
Indices: 9177820--9177866 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
9177810 TTGTTGAATT
9177820 AAAAAT-ATAATTATAAAA-AG
1 AAAAATAATAATTA-AAAATAG
*
9177840 AAAAATAAT-ATTAAAAATAT
1 AAAAATAATAATTAAAAATAG
9177860 AAAAATA
1 AAAAATA
9177867 GCAATATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 18 0.75
21 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAAATAATAATTAAAAATAG
Found at i:9177941 original size:25 final size:24
Alignment explanation
Indices: 9177895--9177946 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
9177885 GTTTTGTAGA
* *
9177895 AAAATTTAAATATTTTTAATAATGT
1 AAAATTTAAATAATATTAATAAT-T
9177920 AAAATTTAAAATAATATT-ATAATT
1 AAAATTT-AAATAATATTAATAATT
9177944 AAA
1 AAA
9177947 TAAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.17
25 12 0.50
26 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
AAAATTTAAATAATATTAATAATT
Found at i:9178454 original size:10 final size:10
Alignment explanation
Indices: 9178439--9178478 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
9178429 TTTTAAAATA
9178439 TAAAAATTAT
1 TAAAAATTAT
*
9178449 TAAAAATCAT
1 TAAAAATTAT
9178459 T-AAAATTAT
1 TAAAAATTAT
*
9178468 TAAAAACTAT
1 TAAAAATTAT
9178478 T
1 T
9178479 TTATTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:9178463 original size:9 final size:9
Alignment explanation
Indices: 9178423--9178472 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
9178413 AATTAATTTT
9178423 TTAAAATT-
1 TTAAAATTA
9178431 TTAAAA-TA
1 TTAAAATTA
*
9178439 TAAAAATTA
1 TTAAAATTA
*
9178448 TTAAAAATCA
1 TT-AAAATTA
9178458 TTAAAATTA
1 TTAAAATTA
9178467 TTAAAA
1 TTAAAA
9178473 ACTATTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 1 0.03
8 11 0.31
9 15 0.43
10 8 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (9 bp):
TTAAAATTA
Found at i:9178465 original size:19 final size:18
Alignment explanation
Indices: 9178423--9178478 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
9178413 AATTAATTTT
9178423 TTAAAATT-TT-AAAATA
1 TTAAAATTATTAAAAATA
*
9178439 TAAAAATTATTAAAAATCA
1 TTAAAATTATTAAAAAT-A
9178458 TTAAAATTATTAAAAACTA
1 TTAAAATTATTAAAAA-TA
9178477 TT
1 TT
9178479 TTATTATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 7 0.21
17 2 0.06
18 5 0.15
19 19 0.56
20 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAAATTATTAAAAATA
Found at i:9178494 original size:16 final size:15
Alignment explanation
Indices: 9178464--9178502 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
9178454 ATCATTAAAA
*
9178464 TTATTAAAAACTATT
1 TTATTAAAAAATATT
9178479 TTATTATAAAAATATT
1 TTATTA-AAAAATATT
9178495 TT-TTAAAA
1 TTATTAAAA
9178503 TTTCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 9 0.41
16 10 0.45
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATTAAAAAATATT
Found at i:9179467 original size:9 final size:9
Alignment explanation
Indices: 9179449--9179509 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
9179439 TTTTGGTTAA
9179449 AATTACCCG
1 AATTACCCG
*
9179458 AATTATCCG
1 AATTACCCG
9179467 AATTACCCG
1 AATTACCCG
9179476 AATTACCCG
1 AATTACCCG
*
9179485 AATTAACCG
1 AATTACCCG
*
9179494 AATTAACCG
1 AATTACCCG
9179503 AATTACC
1 AATTACC
9179510 GAAAAATACC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:9218698 original size:12 final size:12
Alignment explanation
Indices: 9218681--9218706 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9218671 TGTAACTCCC
9218681 GCTACTGCTGCT
1 GCTACTGCTGCT
9218693 GCTACTGCTGCT
1 GCTACTGCTGCT
9218705 GC
1 GC
9218707 CGCTGCTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.35, G:0.27, T:0.31
Consensus pattern (12 bp):
GCTACTGCTGCT
Found at i:9224430 original size:26 final size:26
Alignment explanation
Indices: 9224401--9224459 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
9224391 ATATATAATA
* * * *
9224401 ATATATTATTTAATATTTAAGTAAAT
1 ATATATAATATAATAATAAAGTAAAT
9224427 ATATATAATATAATAATAAAGTAAAT
1 ATATATAATATAATAATAAAGTAAAT
9224453 ATA-ATAA
1 ATATATAA
9224460 ACAGGACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
ATATATAATATAATAATAAAGTAAAT
Found at i:9224520 original size:9 final size:9
Alignment explanation
Indices: 9224487--9224541 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
9224477 ATGAATAAAC
9224487 AAAGAAAGA
1 AAAGAAAGA
9224496 AACA-AAACGA
1 AA-AGAAA-GA
* *
9224506 ACAGAAAGG
1 AAAGAAAGA
9224515 AAAGAAAGA
1 AAAGAAAGA
9224524 AAAGAAA-A
1 AAAGAAAGA
9224532 AAA-AAAGA
1 AAAGAAAGA
9224540 AA
1 AA
9224542 GGAGAAAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
7 3 0.08
8 7 0.18
9 21 0.55
10 7 0.18
ACGTcount: A:0.76, C:0.05, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:9225500 original size:40 final size:36
Alignment explanation
Indices: 9225418--9225514 Score: 97
Period size: 40 Copynumber: 2.6 Consensus size: 36
9225408 TGATTCGAGT
*
9225418 CGATGATGCACTGGGTGCCAATTTACTTCAGTTTAAC
1 CGATGA-GCACTGGGTGCCAATTTACTTCAGATTAAC
* * *
9225455 AGATGAGACACTGGGTGTCAATTTACTACTTCAGATTATC
1 CGATGAG-CACTGGGTGCCAA-TT--TACTTCAGATTAAC
9225495 CGATGAGGCACT-GGTGCCAA
1 CGATGA-GCACTGGGTGCCAA
9225515 ACTGATGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
36 1 0.02
37 17 0.35
38 2 0.04
39 7 0.14
40 21 0.43
41 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.29
Consensus pattern (36 bp):
CGATGAGCACTGGGTGCCAATTTACTTCAGATTAAC
Found at i:9231171 original size:42 final size:43
Alignment explanation
Indices: 9231090--9231171 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
9231080 AATACATACG
***
9231090 GTGGAGAGTTTCCTACATCAAAGGGTCATATATGTATAACCTT
1 GTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAACCTT
* * *
9231133 GTGGAGAGTTTCTTACATC-AAGGGTCATTTCCCAATAAC
1 GTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAAC
9231172 ATAAGCAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 15 0.45
43 18 0.55
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (43 bp):
GTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAACCTT
Found at i:9240358 original size:17 final size:17
Alignment explanation
Indices: 9240336--9240369 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9240326 AAAATAAATT
*
9240336 TTAATTGAAATTTTTAA
1 TTAATTAAAATTTTTAA
9240353 TTAATTAAAATTTTTAA
1 TTAATTAAAATTTTTAA
9240370 ACTTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAATTAAAATTTTTAA
Found at i:9240740 original size:28 final size:28
Alignment explanation
Indices: 9240700--9240756 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
9240690 TTGCGTCAAT
9240700 AGACATCCCATAAAATGCAACCAGAAAC
1 AGACATCCCATAAAATGCAACCAGAAAC
9240728 AGACATCCCATAAAATGCAACCAGAAAC
1 AGACATCCCATAAAATGCAACCAGAAAC
9240756 A
1 A
9240757 TGTTTCATTC
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:0.51, C:0.28, G:0.11, T:0.11
Consensus pattern (28 bp):
AGACATCCCATAAAATGCAACCAGAAAC
Found at i:9243538 original size:17 final size:17
Alignment explanation
Indices: 9243511--9243544 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9243501 AAGGGCGTTA
9243511 ACGTTCAGGTCA-TTTT
1 ACGTTCAGGTCAGTTTT
9243527 ACGTTGCAGGTCAGTTTT
1 ACGTT-CAGGTCAGTTTT
9243545 TCCCCATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (17 bp):
ACGTTCAGGTCAGTTTT
Found at i:9247332 original size:40 final size:39
Alignment explanation
Indices: 9247274--9247352 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 39
9247264 TTTGAAAAGA
*
9247274 AGTTTGAGGTTGGTTATTGTTCTTAGTTCGATATTATATG
1 AGTTTGAGGTTGGCTATTGTTCTTAG-TCGATATTATATG
9247314 AGTTTGAGGTTGGCTATTGTTCTTAGTCGATATTATATG
1 AGTTTGAGGTTGGCTATTGTTCTTAGTCGATATTATATG
9247353 CATTTTACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 13 0.34
40 25 0.66
ACGTcount: A:0.20, C:0.06, G:0.25, T:0.48
Consensus pattern (39 bp):
AGTTTGAGGTTGGCTATTGTTCTTAGTCGATATTATATG
Found at i:9255651 original size:27 final size:27
Alignment explanation
Indices: 9255598--9255652 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
9255588 TTTGGATAAT
**
9255598 AATATATATCTTATCTTTTCTGATTAA
1 AATATATATCTTATCTTTTAAGATTAA
*
9255625 AATATATAT-TATATCTTTTAAGTTTAA
1 AATATATATCT-TATCTTTTAAGATTAA
9255652 A
1 A
9255653 CATGAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (27 bp):
AATATATATCTTATCTTTTAAGATTAA
Found at i:9256562 original size:15 final size:15
Alignment explanation
Indices: 9256544--9256577 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9256534 AATTGGAAGA
*
9256544 GTTGATGTTGTTGTT
1 GTTGATGTTGATGTT
9256559 GTTGATGTTGATGTT
1 GTTGATGTTGATGTT
9256574 GTTG
1 GTTG
9256578 CACTCCTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.00, G:0.35, T:0.56
Consensus pattern (15 bp):
GTTGATGTTGATGTT
Found at i:9260363 original size:24 final size:22
Alignment explanation
Indices: 9260326--9260371 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
9260316 TAATTTATAT
9260326 ATAATATATATTTTCTTTGGTC
1 ATAATATATATTTTCTTTGGTC
*
9260348 ATAATCATATAATTTTTTTTGGTC
1 ATAAT-ATAT-ATTTTCTTTGGTC
9260372 GAAATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 4 0.19
24 12 0.57
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (22 bp):
ATAATATATATTTTCTTTGGTC
Found at i:9261084 original size:26 final size:26
Alignment explanation
Indices: 9261034--9261083 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
9261024 ATTTTGATTT
*
9261034 AACTATTTAAAAATTATAAAAATATA
1 AACTATTTAAAAATGATAAAAATATA
*
9261060 AACTA-TT-AAAATGATAAAATTATA
1 AACTATTTAAAAATGATAAAAATATA
9261084 TTTTTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 2 0.09
26 5 0.23
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (26 bp):
AACTATTTAAAAATGATAAAAATATA
Found at i:9266220 original size:33 final size:33
Alignment explanation
Indices: 9266182--9266265 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
9266172 AATATATATT
* *
9266182 TTTTAAATATGTATAATTGAATTAAAATCAAAA
1 TTTTAAATATATATAATTGAATCAAAATCAAAA
* * *
9266215 TTTTAAATATATATACTTGAATCACAATTAAAA
1 TTTTAAATATATATAATTGAATCAAAATCAAAA
* *
9266248 TTTCATATATATATAATT
1 TTTTAAATATATATAATT
9266266 ACCCTAAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (33 bp):
TTTTAAATATATATAATTGAATCAAAATCAAAA
Found at i:9266644 original size:16 final size:16
Alignment explanation
Indices: 9266622--9266674 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
9266612 TGTTTGTTTC
9266622 ACTGTAATTGAATAGA
1 ACTGTAATTGAATAGA
* *
9266638 GCTGTAATTGAATAAA
1 ACTGTAATTGAATAGA
* *
9266654 ATTTTAATTGAATAGA
1 ACTGTAATTGAATAGA
9266670 ACTGT
1 ACTGT
9266675 TTGGTTGAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.36
Consensus pattern (16 bp):
ACTGTAATTGAATAGA
Found at i:9276002 original size:14 final size:16
Alignment explanation
Indices: 9275974--9276008 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9275964 AATCTCTCTC
9275974 TCTCTCTTCCTATTTT
1 TCTCTCTTCCTATTTT
* *
9275990 TCTCTCTTCATTTTTT
1 TCTCTCTTCCTATTTT
9276006 TCT
1 TCT
9276009 TTAGTAGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.66
Consensus pattern (16 bp):
TCTCTCTTCCTATTTT
Found at i:9280647 original size:20 final size:20
Alignment explanation
Indices: 9280608--9280647 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9280598 CCCTCAAAAC
*
9280608 AATATTAGTTACTTTATAAT
1 AATATTAGATACTTTATAAT
9280628 AATATTAGAT-CTTTAGTAAT
1 AATATTAGATACTTTA-TAAT
9280648 TTCACAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
AATATTAGATACTTTATAAT
Found at i:9280896 original size:17 final size:17
Alignment explanation
Indices: 9280870--9280904 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9280860 GATTGAATCA
*
9280870 ATTTTTTTAAAAAAATT
1 ATTTTATTAAAAAAATT
9280887 ATTTTATTAAAAAAATT
1 ATTTTATTAAAAAAATT
9280904 A
1 A
9280905 ATAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTTATTAAAAAAATT
Found at i:9289173 original size:62 final size:62
Alignment explanation
Indices: 9289076--9289199 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
9289066 TGGAAGGCAT
9289076 CAGCTAAGCAAAAAATGAAGATTGTGCATTGTTCATGGAACATGGAGGGAAATGAAACTATA
1 CAGCTAAGCAAAAAATGAAGATTGTGCATTGTTCATGGAACATGGAGGGAAATGAAACTATA
9289138 CAGCTAAGCAAAAAATGAAGATTGTGCATTGTTCATGGAACATGGAGGGAAATGAAACTATA
1 CAGCTAAGCAAAAAATGAAGATTGTGCATTGTTCATGGAACATGGAGGGAAATGAAACTATA
9289200 GGAAATTTGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (62 bp):
CAGCTAAGCAAAAAATGAAGATTGTGCATTGTTCATGGAACATGGAGGGAAATGAAACTATA
Found at i:9292952 original size:5 final size:6
Alignment explanation
Indices: 9292939--9292973 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
9292929 ATAATTTAAT
9292939 AAATAA AAATAA AAATATA AAACTAA AAATAA AAA
1 AAATAA AAATAA AAATA-A AAA-TAA AAATAA AAA
9292974 CATATAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.63
7 8 0.30
8 2 0.07
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:9292960 original size:14 final size:14
Alignment explanation
Indices: 9292941--9292973 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9292931 AATTTAATAA
9292941 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
*
9292955 ATAAAACTAAAAAT
1 ATAAAAATAAAAAT
9292969 A-AAAA
1 ATAAAA
9292974 CATATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:9293006 original size:9 final size:9
Alignment explanation
Indices: 9292992--9293095 Score: 147
Period size: 9 Copynumber: 11.6 Consensus size: 9
9292982 TTTATAAAAA
9292992 TAATTCGGT
1 TAATTCGGT
9293001 TAATTCGGT
1 TAATTCGGT
* *
9293010 TAATTTGGG
1 TAATTCGGT
*
9293019 TAATTCGGG
1 TAATTCGGT
9293028 TAATTCGGT
1 TAATTCGGT
*
9293037 TAATTCGAT
1 TAATTCGGT
9293046 TAATTCAGG-
1 TAATTC-GGT
9293055 TAATTCGGT
1 TAATTCGGT
*
9293064 TAATTCGAT
1 TAATTCGGT
9293073 TAATTCGGT
1 TAATTCGGT
9293082 TAATTCGGT
1 TAATTCGGT
9293091 TAATT
1 TAATT
9293096 TTATACTTGT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
8 2 0.02
9 82 0.96
10 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:9293409 original size:24 final size:24
Alignment explanation
Indices: 9293377--9293424 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
9293367 TTTTTCTATC
9293377 TTTCTTTTTGCAATTATATGATGA
1 TTTCTTTTTGCAATTATATGATGA
9293401 TTTCTTTTTGCAATTATATGATGA
1 TTTCTTTTTGCAATTATATGATGA
9293425 GATATGCTGC
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:0.08, G:0.12, T:0.54
Consensus pattern (24 bp):
TTTCTTTTTGCAATTATATGATGA
Found at i:9293583 original size:31 final size:31
Alignment explanation
Indices: 9293542--9293610 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
9293532 TGCCTAAACT
* * **
9293542 CGACCCGGATAAAAATGCTAAATTTTGAGTC
1 CGACCTGGATAAAAATGCTAAAATCCGAGTC
9293573 CGACCTGGATAAAAATGCTAAAATCCGAGTC
1 CGACCTGGATAAAAATGCTAAAATCCGAGTC
9293604 CGACCTG
1 CGACCTG
9293611 ACCTGCCCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (31 bp):
CGACCTGGATAAAAATGCTAAAATCCGAGTC
Found at i:9293677 original size:18 final size:18
Alignment explanation
Indices: 9293654--9293693 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
9293644 TATAATTTTA
*
9293654 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
9293672 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
9293690 AAAA
1 AAAA
9293694 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:9307222 original size:11 final size:11
Alignment explanation
Indices: 9307208--9307275 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
9307198 ATATTCAAAC
9307208 AATAATAACAA
1 AATAATAACAA
*
9307219 AATAGTAACAA
1 AATAATAACAA
* * **
9307230 CATATTAGTAA
1 AATAATAACAA
** *
9307241 AATTGTAGCAA
1 AATAATAACAA
*
9307252 AATAATAAGAA
1 AATAATAACAA
9307263 AATAATAACAA
1 AATAATAACAA
9307274 AA
1 AA
9307276 CAGTAAAAAA
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 43 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (11 bp):
AATAATAACAA
Found at i:9307264 original size:22 final size:22
Alignment explanation
Indices: 9307208--9307275 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
9307198 ATATTCAAAC
*
9307208 AATAATAACAAAATAGTAACAA
1 AATAATAAGAAAATAGTAACAA
* * * *
9307230 CAT-ATTAGTAAAATTGTAGCAA
1 AATAATAAG-AAAATAGTAACAA
*
9307252 AATAATAAGAAAATAATAACAA
1 AATAATAAGAAAATAGTAACAA
9307274 AA
1 AA
9307276 CAGTAAAAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
21 3 0.09
22 27 0.79
23 4 0.12
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (22 bp):
AATAATAAGAAAATAGTAACAA
Found at i:9316656 original size:30 final size:29
Alignment explanation
Indices: 9316620--9316693 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 29
9316610 ACACATTCTC
9316620 TTTTTCTTTTATTTTCATATTTCTTTTGTT
1 TTTTTCTTTTATTTTCATATTTCTTTT-TT
*
9316650 TTTTTCTTTTATTTTCTTATTTCTTTTTT
1 TTTTTCTTTTATTTTCATATTTCTTTTTT
*
9316679 TTACTT-TTTTATTTT
1 TT-TTTCTTTTATTTT
9316694 GTTCCTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 13 0.32
30 28 0.68
ACGTcount: A:0.09, C:0.09, G:0.01, T:0.80
Consensus pattern (29 bp):
TTTTTCTTTTATTTTCATATTTCTTTTTT
Found at i:9316690 original size:21 final size:20
Alignment explanation
Indices: 9316643--9316693 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
9316633 TTCATATTTC
*
9316643 TTTTGTTTTTTTCTTTTATT
1 TTTTATTTTTTTCTTTTATT
9316663 TTCTTATTTCTTTT-TTTTACTT
1 TT-TTATTT-TTTTCTTTTA-TT
9316685 TTTTATTTT
1 TTTTATTTT
9316694 GTTCCTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 16 0.59
22 8 0.30
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTTATTTTTTTCTTTTATT
Found at i:9316693 original size:17 final size:17
Alignment explanation
Indices: 9316615--9316693 Score: 60
Period size: 17 Copynumber: 4.8 Consensus size: 17
9316605 GCCTGACACA
9316615 TTCTCTTTTTCTTTTATT
1 TTCT-TTTTTCTTTTATT
* *
9316633 TTCATATTTC--TT-TT
1 TTCTTTTTTCTTTTATT
*
9316647 GT-TTTTTTCTTTTATT
1 TTCTTTTTTCTTTTATT
*
9316663 TTCTTATTTCTTTT-TT
1 TTCTTTTTTCTTTTATT
*
9316679 TTACTTTTTTATTTT
1 TT-CTTTTTTCTTTT
9316694 GTTCCTTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
13 5 0.11
14 3 0.06
15 4 0.09
16 7 0.15
17 25 0.53
18 3 0.06
ACGTcount: A:0.09, C:0.11, G:0.01, T:0.78
Consensus pattern (17 bp):
TTCTTTTTTCTTTTATT
Found at i:9316724 original size:45 final size:44
Alignment explanation
Indices: 9316662--9316779 Score: 123
Period size: 45 Copynumber: 2.7 Consensus size: 44
9316652 TTTCTTTTAT
*
9316662 TTTCTTATTTCTTTTTTTTACTTTTTTATTTTGTTCCTTAATAAA
1 TTTCTT-TTTATTTTTTTTACTTTTTTATTTTGTTCCTTAATAAA
* * * * * **
9316707 TTGTCTTTTTATTTTTTTTCCTTTTTGATTTTTTTTCTTATTTCA
1 TT-TCTTTTTATTTTTTTTACTTTTTTATTTTGTTCCTTAATAAA
9316752 TTT-TTTTTATTTTGTTTTA-TTTTTTATT
1 TTTCTTTTTATTTT-TTTTACTTTTTTATT
9316780 ATTAACTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
43 18 0.30
44 5 0.08
45 34 0.56
46 4 0.07
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.75
Consensus pattern (44 bp):
TTTCTTTTTATTTTTTTTACTTTTTTATTTTGTTCCTTAATAAA
Found at i:9316732 original size:16 final size:16
Alignment explanation
Indices: 9316710--9316764 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
9316700 TAATAAATTG
9316710 TCTTTTT-ATTTTTTT
1 TCTTTTTCATTTTTTT
*
9316725 TCCTTTTTGATTTTTTT
1 T-CTTTTTCATTTTTTT
9316742 TCTTATTTCATTTTTTT
1 TCTT-TTTCATTTTTTT
*
9316759 TATTTT
1 TCTTTT
9316765 GTTTTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 1 0.03
16 11 0.31
17 23 0.66
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (16 bp):
TCTTTTTCATTTTTTT
Found at i:9316771 original size:10 final size:9
Alignment explanation
Indices: 9316712--9316782 Score: 56
Period size: 9 Copynumber: 7.9 Consensus size: 9
9316702 ATAAATTGTC
9316712 TTTTTATTT
1 TTTTTATTT
**
9316721 TTTTT-CCT
1 TTTTTATTT
*
9316729 TTTTGATTT
1 TTTTTATTT
*
9316738 TTTTT-CTT
1 TTTTTATTT
* *
9316746 ATTTCATTT
1 TTTTTATTT
9316755 TTTTTATTT
1 TTTTTATTT
9316764 TGTTTTATTT
1 T-TTTTATTT
9316774 TTTATTATT
1 TTT-TTATT
9316783 AACTTTAAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
8 10 0.22
9 22 0.48
10 14 0.30
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTTATTT
Found at i:9316946 original size:23 final size:24
Alignment explanation
Indices: 9316919--9316969 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
9316909 TTTAAAAATG
*
9316919 TATTTTTCAA-ATTAATTTTTGAAA
1 TATTTTTAAATATTAATTTTT-AAA
9316943 -A-TTTTAAATATTAATTTTTAAA
1 TATTTTTAAATATTAATTTTTAAA
9316965 TATTT
1 TATTT
9316970 ATCATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
22 9 0.39
23 12 0.52
24 2 0.09
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TATTTTTAAATATTAATTTTTAAA
Found at i:9316960 original size:36 final size:36
Alignment explanation
Indices: 9316890--9316965 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
9316880 TATATTTGTG
* *
9316890 AAATTAATTTTTTATATATTTTAAAAATGTATTTTT
1 AAATTAATTTTTGATAAATTTTAAAAATGTATTTTT
*
9316926 CAAATTAATTTTTGA-AAATTTTAAATAT-TAATTTTT
1 -AAATTAATTTTTGATAAATTTTAAAAATGT-ATTTTT
9316962 AAAT
1 AAAT
9316966 ATTTATCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 5 0.14
36 17 0.49
37 13 0.37
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (36 bp):
AAATTAATTTTTGATAAATTTTAAAAATGTATTTTT
Found at i:9316976 original size:23 final size:23
Alignment explanation
Indices: 9316922--9316977 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
9316912 AAAAATGTAT
*
9316922 TTTTCAAATTAATTTTTGAAA-A
1 TTTTCATATTAATTTTTGAAATA
*
9316944 TTTTAAATATTAATTTTT-AAATA
1 TTTT-CATATTAATTTTTGAAATA
9316967 TTTATCATATT
1 TTT-TCATATT
9316978 TTTAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 7 0.25
23 20 0.71
24 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTTCATATTAATTTTTGAAATA
Found at i:9317047 original size:21 final size:20
Alignment explanation
Indices: 9317022--9317068 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
9317012 TTGTAAATAC
9317022 AATTTCTTT-AATTTCTTTTTA
1 AATTT-TTTAAATTT-TTTTTA
9317043 AATTTTTTAAATTTTTTTT-
1 AATTTTTTAAATTTTTTTTA
9317062 AATTTTT
1 AATTTTT
9317069 AAAAAGTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 8 0.32
21 10 0.40
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (20 bp):
AATTTTTTAAATTTTTTTTA
Found at i:9317058 original size:10 final size:10
Alignment explanation
Indices: 9317022--9317068 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
9317012 TTGTAAATAC
*
9317022 AATTTCTTTA
1 AATTTTTTTA
*
9317032 ATTTCTTTTTA
1 AATT-TTTTTA
9317043 AA-TTTTTTA
1 AATTTTTTTA
*
9317052 AATTTTTTTT
1 AATTTTTTTA
9317062 AATTTTT
1 AATTTTT
9317069 AAAAAGTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 8 0.26
10 17 0.55
11 6 0.19
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:9317334 original size:15 final size:14
Alignment explanation
Indices: 9317314--9317343 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
9317304 TTATAAATTT
9317314 AAATTATTATTTTTA
1 AAATTATT-TTTTTA
9317329 AAATTATTTTTTTA
1 AAATTATTTTTTTA
9317343 A
1 A
9317344 CTTTAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AAATTATTTTTTTA
Found at i:9317404 original size:37 final size:35
Alignment explanation
Indices: 9317299--9317410 Score: 129
Period size: 34 Copynumber: 3.2 Consensus size: 35
9317289 ATGTTTTACA
9317299 ATTTTTTATAAATTTAAAT-TATTATTTTTAAAATT
1 ATTTTTTATAAATTTAAATATA-TATTTTTAAAATT
* * * *
9317334 ATTTTTT-TAACTTTAGATATATATTTGTGAAATT
1 ATTTTTTATAAATTTAAATATATATTTTTAAAATT
*
9317368 ATTTTTTTATAAATTTTAAATATATATTTTTCAAATT
1 A-TTTTTTATAAA-TTTAAATATATATTTTTAAAATT
*
9317405 AGTTTT
1 ATTTTT
9317411 GAAATTATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
34 21 0.33
35 15 0.23
36 7 0.11
37 21 0.33
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (35 bp):
ATTTTTTATAAATTTAAATATATATTTTTAAAATT
Found at i:9317501 original size:8 final size:8
Alignment explanation
Indices: 9317488--9317513 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9317478 TAAATTAGGA
9317488 TTTTTTAT
1 TTTTTTAT
9317496 TTTTTTAT
1 TTTTTTAT
9317504 TTTTTTAT
1 TTTTTTAT
9317512 TT
1 TT
9317514 GAAGTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:9317559 original size:18 final size:19
Alignment explanation
Indices: 9317515--9317553 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
9317505 TTTTTATTTG
9317515 AAGTAAATTTTAAAAACATA
1 AAGTAAATTTT-AAAACATA
9317535 AAGTAAATTTT-AAACATA
1 AAGTAAATTTTAAAACATA
9317553 A
1 A
9317554 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
AAGTAAATTTTAAAACATA
Found at i:9317671 original size:36 final size:36
Alignment explanation
Indices: 9317625--9317734 Score: 136
Period size: 36 Copynumber: 3.1 Consensus size: 36
9317615 TAATAATTTC
* *
9317625 AAAATTAATTTGAAAAATATATATTTAAATTTATAA
1 AAAAATAATTTCAAAAATATATATTTAAATTTATAA
* * *
9317661 AAAAATAATTTCACAAATATATATCTAAA-GT-TAA
1 AAAAATAATTTCAAAAATATATATTTAAATTTATAA
*
9317695 AAAAATAATTTTAAAAATA-ATAATTTAAATTTATAA
1 AAAAATAATTTCAAAAATATAT-ATTTAAATTTATAA
9317731 AAAA
1 AAAA
9317735 TTGTAAAACA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
33 2 0.03
34 26 0.42
35 2 0.03
36 32 0.52
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (36 bp):
AAAAATAATTTCAAAAATATATATTTAAATTTATAA
Found at i:9317696 original size:34 final size:36
Alignment explanation
Indices: 9317662--9317734 Score: 80
Period size: 34 Copynumber: 2.1 Consensus size: 36
9317652 AATTTATAAA
*
9317662 AAAATAATTTCACAAATATATATCTAAA-GT-TAAA
1 AAAATAATTTCAAAAATATATATCTAAATGTATAAA
* * *
9317696 AAAATAATTTTAAAAATA-ATAATTTAAATTTATAAA
1 AAAATAATTTCAAAAATATAT-ATCTAAATGTATAAA
9317732 AAA
1 AAA
9317735 TTGTAAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
33 2 0.06
34 22 0.69
35 1 0.03
36 7 0.22
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (36 bp):
AAAATAATTTCAAAAATATATATCTAAATGTATAAA
Found at i:9317710 original size:14 final size:15
Alignment explanation
Indices: 9317691--9317720 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9317681 ATATCTAAAG
9317691 TTAAAAA-AATAATT
1 TTAAAAATAATAATT
9317705 TTAAAAATAATAATT
1 TTAAAAATAATAATT
9317720 T
1 T
9317721 AAATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAAAATAATAATT
Found at i:9317817 original size:36 final size:35
Alignment explanation
Indices: 9317777--9317876 Score: 109
Period size: 36 Copynumber: 2.8 Consensus size: 35
9317767 TTTTAAAATT
9317777 AATAATATAAATTAAATAAACAAAATAAAATAAGAA
1 AATAATATAAATTAAATAAA-AAAATAAAATAAGAA
*
9317813 AATAATATAAAACTTAAA-AAAGAAAA-AAATTAAGAA
1 AATAATAT-AAA-TTAAATAAA-AAAATAAAATAAGAA
*
9317849 AA-AGATA-AAATTAAATAAAAAAGTAAAA
1 AATA-ATATAAATTAAATAAAAAAATAAAA
9317877 AAAAATAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
33 8 0.15
34 9 0.16
35 1 0.02
36 22 0.40
37 10 0.18
38 5 0.09
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (35 bp):
AATAATATAAATTAAATAAAAAAATAAAATAAGAA
Found at i:9317822 original size:18 final size:18
Alignment explanation
Indices: 9317772--9317824 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
9317762 AAATTTTTTA
* *
9317772 AAATTAATAATATAAATT
1 AAATAAATAATATAAAAT
* *
9317790 AAATAAACAAAATAAAAT
1 AAATAAATAATATAAAAT
9317808 AAGA-AAATAATATAAAA
1 AA-ATAAATAATATAAAA
9317825 CTTAAAAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AAATAAATAATATAAAAT
Found at i:9317868 original size:18 final size:17
Alignment explanation
Indices: 9317780--9317876 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 17
9317770 TAAAATTAAT
9317780 AATATAAATTAAATAAACAA
1 AATA-AAATTAAA-AAAC-A
*
9317800 AATAAAA-TAAGAAAATA
1 AATAAAATTAA-AAAACA
*
9317817 ATATAAAACTTAAAAAAGA
1 A-ATAAAA-TTAAAAAACA
9317836 AA-AAAATTAAGAAAA-A
1 AATAAAATTAA-AAAACA
*
9317852 GATAAAATTAAATAAA-A
1 AATAAAATTAAA-AAACA
9317869 AAGTAAAA
1 AA-TAAAA
9317877 AAAAATAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
16 7 0.11
17 23 0.35
18 18 0.28
19 10 0.15
20 7 0.11
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (17 bp):
AATAAAATTAAAAAACA
Found at i:9317882 original size:18 final size:19
Alignment explanation
Indices: 9317847--9317884 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
9317837 AAAAATTAAG
**
9317847 AAAAAGATAAAATTAAATA
1 AAAAAGATAAAAAAAAATA
9317866 AAAAAG-TAAAAAAAAATA
1 AAAAAGATAAAAAAAAATA
9317884 A
1 A
9317885 TAATGGTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAAGATAAAAAAAAATA
Found at i:9318075 original size:14 final size:14
Alignment explanation
Indices: 9318056--9318082 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9318046 AAAAATATGG
9318056 TTAATATTTAAAAA
1 TTAATATTTAAAAA
9318070 TTAATATTTAAAA
1 TTAATATTTAAAA
9318083 TTTTCAAAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:9318097 original size:37 final size:37
Alignment explanation
Indices: 9318061--9318136 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
9318051 TATGGTTAAT
* *
9318061 ATTT-AAAAATTA-ATATTTAAAAT-TTTCAAAAATTA
1 ATTTGAAAAA-TACATATTTAAAATATATAAAAAATTA
*
9318096 ATTTGAAAAATACATTTTTAAAATATATAAAAAATTA
1 ATTTGAAAAATACATATTTAAAATATATAAAAAATTA
9318133 ATTT
1 ATTT
9318137 CACATATCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 6 0.17
36 15 0.43
37 14 0.40
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (37 bp):
ATTTGAAAAATACATATTTAAAATATATAAAAAATTA
Found at i:9318209 original size:23 final size:22
Alignment explanation
Indices: 9318156--9318249 Score: 61
Period size: 22 Copynumber: 4.2 Consensus size: 22
9318146 AAAGTTAAAA
9318156 AAAATATTTTTAAAAATAATAAT
1 AAAA-ATTTTTAAAAATAATAAT
* *
9318179 TAAAATTTTTAAAAA-ATATTAT
1 AAAAATTTTTAAAAATA-ATAAT
*
9318201 AAAACA-TTTTAAATATACAT--T
1 AAAA-ATTTTTAAAAATA-ATAAT
* **
9318222 ACAAATTTTTTAAAGTTAATAAT
1 A-AAAATTTTTAAAAATAATAAT
9318245 AAAAA
1 AAAAA
9318250 ATAAAACAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
21 5 0.09
22 41 0.75
23 9 0.16
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (22 bp):
AAAAATTTTTAAAAATAATAAT
Found at i:9318316 original size:10 final size:10
Alignment explanation
Indices: 9318239--9318316 Score: 66
Period size: 10 Copynumber: 7.2 Consensus size: 10
9318229 TTTTAAAGTT
*
9318239 AATAATAAAA
1 AATAAAAAAA
*
9318249 AATAAAACAA
1 AATAAAAAAA
9318259 AATAAACAAAATGA
1 AAT-AA-AAAA--A
9318273 AATAAGAAAAAA
1 AAT-A-AAAAAA
*
9318285 AATCAAAAAA
1 AATAAAAAAA
*
9318295 AGTAAAAAAA
1 AATAAAAAAA
9318305 AATAAAAAAA
1 AATAAAAAAA
9318315 AA
1 AA
9318317 CAATTTATTA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
10 36 0.64
11 2 0.04
12 7 0.12
14 10 0.18
15 1 0.02
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.12
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:9318368 original size:17 final size:17
Alignment explanation
Indices: 9318346--9318406 Score: 83
Period size: 17 Copynumber: 3.8 Consensus size: 17
9318336 ATAAAAAAGT
9318346 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
*
9318363 AAAATAAAAGGAA-A--
1 AAAATAAAAGAAATATG
*
9318377 AAAACAAAAGAAATATG
1 AAAATAAAAGAAATATG
9318394 AAAATAAAAGAAA
1 AAAATAAAAGAAA
9318407 AAGAGAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
14 11 0.30
15 1 0.03
16 1 0.03
17 24 0.65
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:9320161 original size:16 final size:16
Alignment explanation
Indices: 9320117--9320166 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
9320107 TCATGACCGG
9320117 TAAAATTTT-AATTT-
1 TAAAATTTTAAATTTA
**
9320131 TAATTTTTTATAATTTA
1 TAAAATTTTA-AATTTA
*
9320148 TAAAATTTTAAATTAA
1 TAAAATTTTAAATTTA
9320164 TAA
1 TAA
9320167 TAATAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 7 0.25
16 13 0.46
17 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAAAATTTTAAATTTA
Found at i:9331899 original size:26 final size:26
Alignment explanation
Indices: 9331838--9331888 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
9331828 GTAGCATCTC
9331838 TATGTAAAAATATAAAATATATATATA
1 TATG-AAAAATATAAAATATATATATA
*
9331865 TATTAAAAAT-TCAAAATATATATA
1 TATGAAAAATAT-AAAATATATATA
9331889 ATCTAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 1 0.05
26 18 0.82
27 3 0.14
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
TATGAAAAATATAAAATATATATATA
Found at i:9334168 original size:30 final size:30
Alignment explanation
Indices: 9334134--9334195 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
9334124 AACTTATTTC
*
9334134 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
* * *
9334164 TTGTTATTTTTATTATTATTTTAGAGTCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
9334194 TT
1 TT
9334196 ACTTGTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:9334995 original size:10 final size:9
Alignment explanation
Indices: 9334968--9334994 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9334958 TTTAATTAAT
9334968 TTTTAAAAA
1 TTTTAAAAA
9334977 TTTTAAAAA
1 TTTTAAAAA
9334986 TTTTAAAAA
1 TTTTAAAAA
9334995 AGTAAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:9341236 original size:23 final size:24
Alignment explanation
Indices: 9341210--9341259 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
9341200 TGGAATTTGA
* *
9341210 TGAAAC-GTATAAGTTAAATTGTT
1 TGAAACTGTAAAAGTTAAATTGCT
9341233 TG-AACTGTAAAAGTTAAATTGCT
1 TGAAACTGTAAAAGTTAAATTGCT
9341256 TGAA
1 TGAA
9341260 CAGGTTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 19 0.83
24 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (24 bp):
TGAAACTGTAAAAGTTAAATTGCT
Found at i:9346748 original size:19 final size:19
Alignment explanation
Indices: 9346724--9346760 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9346714 TATTTCATAA
*
9346724 TATAATATAATATAATTAT
1 TATAATATAACATAATTAT
*
9346743 TATAATTTAACATAATTA
1 TATAATATAACATAATTA
9346761 AATTTATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TATAATATAACATAATTAT
Found at i:9357257 original size:15 final size:16
Alignment explanation
Indices: 9357230--9357260 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9357220 TTCGGAAAAA
9357230 AAATTATTGATTTGTG
1 AAATTATTGATTTGTG
9357246 AAATTA-TGATTTGTG
1 AAATTATTGATTTGTG
9357261 CGGTAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (16 bp):
AAATTATTGATTTGTG
Found at i:9361627 original size:36 final size:36
Alignment explanation
Indices: 9361585--9361676 Score: 166
Period size: 36 Copynumber: 2.6 Consensus size: 36
9361575 TTTATAGCCT
*
9361585 CCCAAAACGACATCGTTTTAAGGGCTGCCTTTTAAA
1 CCCAAAACGACGTCGTTTTAAGGGCTGCCTTTTAAA
*
9361621 CCCAAAACGACGTCGTTTTAGGGGCTGCCTTTTAAA
1 CCCAAAACGACGTCGTTTTAAGGGCTGCCTTTTAAA
9361657 CCCAAAACGACGTCGTTTTA
1 CCCAAAACGACGTCGTTTTA
9361677 CTTGACCCGG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (36 bp):
CCCAAAACGACGTCGTTTTAAGGGCTGCCTTTTAAA
Found at i:9362085 original size:21 final size:22
Alignment explanation
Indices: 9362053--9362105 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
9362043 ATTAATGCTA
*
9362053 GTATATGTTTT-AT-TATATAT
1 GTATATATTTTAATATATATAT
9362073 GTATATATCTTTAATATATATAT
1 GTATATAT-TTTAATATATATAT
9362096 GTATATATTT
1 GTATATATTT
9362106 ATGTAGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 3 0.10
22 4 0.14
23 15 0.52
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.57
Consensus pattern (22 bp):
GTATATATTTTAATATATATAT
Found at i:9362183 original size:25 final size:25
Alignment explanation
Indices: 9362145--9362580 Score: 120
Period size: 25 Copynumber: 17.4 Consensus size: 25
9362135 TTCTAATATG
9362145 TATA-TATTATGTATATATTTTTTA
1 TATATTATTATGTATATATTTTTTA
9362169 TATATTATTATGTATATA--TTTTA
1 TATATTATTATGTATATATTTTTTA
*
9362192 -ATATCATTA-GTTATATATTTTTTA
1 TATATTATTATG-TATATATTTTTTA
* *
9362216 TACTATT-TTATGTATATATTTCTAA
1 TA-TATTATTATGTATATATTTTTTA
* * *
9362241 TACTA-TATT-T-TGTATATTTCTAA
1 TA-TATTATTATGTATATATTTTTTA
* * * **
9362264 TACCATTATTATTTATATA-TATACA
1 TA-TATTATTATGTATATATTTTTTA
*
9362289 TACGTATTTATGTATTGTATTATAGTTGTTT-
1 TA--TA-TTAT-TA-TGTA-TATA-TTTTTTA
*
9362320 T-T-TT-TT-TGTATCATTATTGTTGCTGA
1 TATATTATTATGTAT-A-TATT-TT--TTA
* *
9362346 TATATATATCATGTATATATGATTTTTT
1 TATAT-TATTATGTATATAT--TTTTTA
*
9362374 TATATGTATTATGTATATA-TCTTTA
1 TATAT-TATTATGTATATATTTTTTA
* **
9362399 -ATACTA-TAT-TATATATATTTGCA
1 TATATTATTATGTATATAT-TTTTTA
*
9362422 TAT-TATCTTATGTATATATTTTTTA
1 TATAT-TATTATGTATATATTTTTTA
* *
9362447 -ATAACTATATTATGTATGTATTTTTAA
1 TAT-A-T-TATTATGTATATATTTTTTA
* *
9362474 CACTA-TATTATGTATATACTTTTTA
1 TA-TATTATTATGTATATATTTTTTA
* * *
9362499 TTCTTATTATTACGTATATA-TTTTAA
1 -T-ATATTATTATGTATATATTTTTTA
* *
9362525 TATA-TA-TACGTATATATTTATGTA
1 TATATTATTATGTATATATTT-TTTA
*
9362549 T-TGTTATTAT-TAGT-TATTTTTT-
1 TATATTATTATGTA-TATATTTTTTA
*
9362571 CATATTATTA
1 TATATTATTA
9362581 CTGTTTTCAA
Statistics
Matches: 309, Mismatches: 52, Indels: 103
0.67 0.11 0.22
Matches are distributed among these distances:
21 8 0.03
22 34 0.11
23 43 0.14
24 38 0.12
25 74 0.24
26 27 0.09
27 36 0.12
28 24 0.08
29 8 0.03
30 8 0.03
31 7 0.02
32 2 0.01
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (25 bp):
TATATTATTATGTATATATTTTTTA
Found at i:9362188 original size:11 final size:11
Alignment explanation
Indices: 9362141--9362176 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
9362131 TTATTTCTAA
9362141 TATGTATATAT
1 TATGTATATAT
9362152 TATGTATATAT
1 TATGTATATAT
* *
9362163 TTTTTATATAT
1 TATGTATATAT
9362174 TAT
1 TAT
9362177 TATGTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (11 bp):
TATGTATATAT
Found at i:9362206 original size:36 final size:34
Alignment explanation
Indices: 9362141--9362225 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 34
9362131 TTATTTCTAA
**
9362141 TATGTATATATTATGT-ATATATTTTTTATATATTAT
1 TATGTATATATT-T-TAATATATTAGTTATATATT-T
9362177 TATGTATATATTTTAATATCATTAGTTATATATTT
1 TATGTATATATTTTAATAT-ATTAGTTATATATTT
9362212 T-T-TATACTATTTTA
1 TATGTATA-TATTTTA
9362226 TGTATATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
33 4 0.09
34 9 0.20
35 7 0.16
36 24 0.55
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (34 bp):
TATGTATATATTTTAATATATTAGTTATATATTT
Found at i:9362412 original size:49 final size:50
Alignment explanation
Indices: 9362359--9362491 Score: 137
Period size: 49 Copynumber: 2.7 Consensus size: 50
9362349 ATATATCATG
* *
9362359 TATATATGATTTTTTTATATGTATTATGTATATA-TCTTTAAT-ACTATAT
1 TATATATGATTTTTATAT-TATATTATGTATATATTCTTTAATAACTATAT
** * *
9362408 TATATAT-ATTTGCATATTATCTTATGTATATATTTTTTAATAACTATAT
1 TATATATGATTTTTATATTATATTATGTATATATTCTTTAATAACTATAT
* * *
9362457 TATGTATGTATTTTTAACACTATATTATGTATATA
1 TATATATG-ATTTTT-ATATTATATTATGTATATA
9362492 CTTTTTATTC
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
47 13 0.19
48 14 0.21
49 20 0.30
51 4 0.06
52 16 0.24
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (50 bp):
TATATATGATTTTTATATTATATTATGTATATATTCTTTAATAACTATAT
Found at i:9362462 original size:27 final size:25
Alignment explanation
Indices: 9362380--9362543 Score: 144
Period size: 25 Copynumber: 6.6 Consensus size: 25
9362370 TTTTTATATG
*
9362380 TATTATGTATATATCTTTAATACTA
1 TATTATGTATATATTTTTAATACTA
** *
9362405 TATTA--TATATA-TTTGCATATTA
1 TATTATGTATATATTTTTAATACTA
*
9362427 TCTTATGTATATATTTTTTAATAACTA
1 TATTATGTATATA-TTTTTAAT-ACTA
* *
9362454 TATTATGTATGTATTTTTAACACTA
1 TATTATGTATATATTTTTAATACTA
*
9362479 TATTATGTATATACTTTTT-ATTCTTA
1 TATTATGTATATA-TTTTTAATAC-TA
*
9362505 TTATTACGTATATA-TTTTAATA-TA
1 -TATTATGTATATATTTTTAATACTA
*
9362529 TA-TACGTATATATTT
1 TATTATGTATATATTT
9362544 ATGTATTGTT
Statistics
Matches: 113, Mismatches: 16, Indels: 22
0.75 0.11 0.15
Matches are distributed among these distances:
22 21 0.19
23 10 0.09
24 8 0.07
25 27 0.24
26 21 0.19
27 26 0.23
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (25 bp):
TATTATGTATATATTTTTAATACTA
Found at i:9362510 original size:52 final size:49
Alignment explanation
Indices: 9362429--9362560 Score: 117
Period size: 52 Copynumber: 2.6 Consensus size: 49
9362419 GCATATTATC
* * *
9362429 TTATGTATATATTTTTTAATAAC-TA-TATTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TTTTT-AT-TCTTATTATTACGTATATA-TTTTAACA-TATA
*
9362481 TTATGTATATACTTTTTATTCTTATTATTACGTATATATTTTAATATATA
1 TTATGTATATA-TTTTTATTCTTATTATTACGTATATATTTTAACATATA
* *
9362531 -TACGTATATATTTATGTATTGTTATTATTA
1 TTATGTATATATTT-T-TATTCTTATTATTA
9362561 GTTATTTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
48 3 0.04
49 10 0.14
50 18 0.26
51 11 0.16
52 27 0.39
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (49 bp):
TTATGTATATATTTTTATTCTTATTATTACGTATATATTTTAACATATA
Found at i:9370872 original size:20 final size:20
Alignment explanation
Indices: 9370847--9370890 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
9370837 TTCATAGGAA
9370847 AAAAATCGATACCTTAATTC
1 AAAAATCGATACCTTAATTC
9370867 AAAAATCGATACCTTAATTC
1 AAAAATCGATACCTTAATTC
9370887 AAAA
1 AAAA
9370891 TTTGACTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAATCGATACCTTAATTC
Found at i:9374086 original size:15 final size:16
Alignment explanation
Indices: 9374068--9374101 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9374058 TTATATAATC
9374068 AAATCATATT-ATATT
1 AAATCATATTAATATT
*
9374083 AAATTATATTAATATT
1 AAATCATATTAATATT
9374099 AAA
1 AAA
9374102 AAATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATCATATTAATATT
Found at i:9375781 original size:24 final size:24
Alignment explanation
Indices: 9375754--9375803 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
9375744 TCATCCTAAA
9375754 AACAGTTTACAACTAAACAAAACG
1 AACAGTTTACAACTAAACAAAACG
9375778 AACAGTTTACAACTAAACAAAACG
1 AACAGTTTACAACTAAACAAAACG
9375802 AA
1 AA
9375804 AAGCTCTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (24 bp):
AACAGTTTACAACTAAACAAAACG
Found at i:9381364 original size:18 final size:18
Alignment explanation
Indices: 9381337--9381375 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9381327 GTAAATTTTA
9381337 TTATATAATTTAAT-AAT
1 TTATATAATTTAATAAAT
9381354 TTATAATAATTTAATAAAT
1 TTAT-ATAATTTAATAAAT
9381373 TTA
1 TTA
9381376 GTTTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATATAATTTAATAAAT
Found at i:9381778 original size:29 final size:30
Alignment explanation
Indices: 9381722--9381778 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
9381712 TACATATAAT
* *
9381722 TATTTAACTATTAAAATTTTTATTTTTAAA
1 TATTTAACAATTAAAATTTTTATATTTAAA
9381752 TATTTAA-AATTAAAA-TTTTATAATTTA
1 TATTTAACAATTAAAATTTTTAT-ATTTA
9381779 TTACGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 11 0.46
30 7 0.29
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (30 bp):
TATTTAACAATTAAAATTTTTATATTTAAA
Found at i:9381962 original size:19 final size:20
Alignment explanation
Indices: 9381930--9381991 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
9381920 TAATTTATTT
9381930 TAATTTTAAAAAATATATAAA
1 TAATTTT-AAAAATATATAAA
9381951 T-ATTTTAAAAATATA-ATAA
1 TAATTTTAAAAATATATA-AA
*
9381970 TAAATTT-AAAATATAT-AA
1 TAATTTTAAAAATATATAAA
9381988 TAAT
1 TAAT
9381992 AATATTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 6 0.17
19 20 0.56
20 9 0.25
21 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATTTTAAAAATATATAAA
Found at i:9381969 original size:20 final size:21
Alignment explanation
Indices: 9381930--9382000 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
9381920 TAATTTATTT
9381930 TAATTTTAAAAA-ATATATAAA
1 TAATTTTAAAAATATA-ATAAA
9381951 T-ATTTTAAAAATATAAT-AA
1 TAATTTTAAAAATATAATAAA
*
9381970 TAAATTTAAAATATATAAT-AA
1 TAATTTTAAAA-ATATAATAAA
*
9381991 TAATATTAAA
1 TAATTTTAAA
9382001 TAAAATAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 3 0.07
20 20 0.45
21 21 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAATTTTAAAAATATAATAAA
Found at i:9381976 original size:21 final size:21
Alignment explanation
Indices: 9381931--9381993 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 21
9381921 AATTTATTTT
9381931 AATTTTAAAAA-ATATATAA-A
1 AATTTTAAAAATATA-ATAATA
*
9381951 TATTTTAAAAATATAATAATA
1 AATTTTAAAAATATAATAATA
9381972 AA-TTTAAAATATATAATAATA
1 AATTTTAAAA-ATATAATAATA
9381993 A
1 A
9381994 TATTAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 21 0.55
21 17 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTTTAAAAATATAATAATA
Found at i:9382007 original size:18 final size:19
Alignment explanation
Indices: 9381958--9382008 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
9381948 AAATATTTTA
*
9381958 AAAATATAATAATAAATTT
1 AAAATAAAATAATAAATTT
9381977 AAAATATATAATAAT-AATATT
1 AAAATA-A-AATAATAAAT-TT
9381998 -AAATAAAATAA
1 AAAATAAAATAA
9382009 AATCCCTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 5 0.18
19 7 0.25
20 8 0.29
21 8 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATAAAATAATAAATTT
Found at i:9382609 original size:20 final size:19
Alignment explanation
Indices: 9382564--9382622 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
9382554 ATTTAATATT
**
9382564 AATATTATTATACAATTTAA
1 AATATTATTATA-TTTTTAA
*
9382584 ATTATTATTATATTTTTAAA
1 AATATTATTATATTTTT-AA
9382604 AATATTTATATATATTTTT
1 AATA-TTAT-TATATTTTT
9382623 TGAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.09
20 16 0.50
21 4 0.12
22 9 0.28
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTATTATATTTTTAA
Found at i:9383819 original size:20 final size:20
Alignment explanation
Indices: 9383782--9383824 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
9383772 TTGATAAAAA
* *
9383782 AATATTTTAAATAGTTAAGT
1 AATATTTTAAAGAGTTAAAT
9383802 AATATTTTATAAGA-TTAAAT
1 AATATTTTA-AAGAGTTAAAT
9383822 AAT
1 AAT
9383825 CAGAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
AATATTTTAAAGAGTTAAAT
Found at i:9384151 original size:27 final size:28
Alignment explanation
Indices: 9384095--9384145 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
9384085 ATTTAATCTA
9384095 ATTTTAACAATTATAATATATATTTGTT
1 ATTTTAACAATTATAATATATATTTGTT
9384123 ATTTT-ACAATTA-AAT-TATATTTG
1 ATTTTAACAATTATAATATATATTTG
9384146 AATTATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.35
26 3 0.13
27 7 0.30
28 5 0.22
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (28 bp):
ATTTTAACAATTATAATATATATTTGTT
Found at i:9389431 original size:22 final size:22
Alignment explanation
Indices: 9389406--9389448 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
9389396 AATGGGCTGT
9389406 CCTAAGTTCATTATTGGCAAAG
1 CCTAAGTTCATTATTGGCAAAG
9389428 CCTAAGTTCATTATTGGCAAA
1 CCTAAGTTCATTATTGGCAAA
9389449 TGCTTTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (22 bp):
CCTAAGTTCATTATTGGCAAAG
Found at i:9396223 original size:24 final size:22
Alignment explanation
Indices: 9396175--9396230 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
9396165 AATCATTAAT
*
9396175 TTAAAAAA-TTGTTAGAAATTT
1 TTAAAAAATTTGTTAGAAATTA
*
9396196 TTAAAAAATTTGTATTGAAAATTA
1 TTAAAAAATTTGT-TAG-AAATTA
*
9396220 TTAATAAATTT
1 TTAAAAAATTT
9396231 AGGAAGAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.28
22 4 0.14
23 2 0.07
24 15 0.52
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
TTAAAAAATTTGTTAGAAATTA
Found at i:9396868 original size:21 final size:23
Alignment explanation
Indices: 9396830--9396877 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
9396820 AAATTTAAAA
*
9396830 ATTTAATTTTTTTATGACACAAT
1 ATTTAATTTTTCTATGACACAAT
9396853 ATTTAA-TTTTCT-TGACACAAT
1 ATTTAATTTTTCTATGACACAAT
9396874 ATTT
1 ATTT
9396878 TTTTGTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 13 0.54
22 5 0.21
23 6 0.25
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.52
Consensus pattern (23 bp):
ATTTAATTTTTCTATGACACAAT
Found at i:9411480 original size:21 final size:23
Alignment explanation
Indices: 9411440--9411489 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
9411430 TAAAATGAAA
*
9411440 TTTTTTAAATATGAATACTT-GT
1 TTTTTTAAATATGAATACTTAAT
9411462 TTTTTTAAA-A-GAATGACTTAAT
1 TTTTTTAAATATGAAT-ACTTAAT
9411484 TTTTTT
1 TTTTTT
9411490 TTGAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 5 0.20
22 16 0.64
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (23 bp):
TTTTTTAAATATGAATACTTAAT
Found at i:9426221 original size:109 final size:110
Alignment explanation
Indices: 9426022--9426221 Score: 244
Period size: 109 Copynumber: 1.8 Consensus size: 110
9426012 GGTCGACGTC
* * * *
9426022 AGTGAAATATAGGGATCAAAACTGAAATATAATCATAAAAAATTAGAGGTATTAGAATTAAAATT
1 AGTGAAATATAAGGATCAAAACTAAAATATAACCATAAAAAATTAGAGGTATTAAAATTAAAATT
* * * ** * *
9426087 TAGCTATTATCTTCTTTATGTAAAAAAAAGAAAGAAAGAAATTTG
66 TAACCATTATCTTATCAAAGAAAAAAAAAGAAAGAAAGAAATTTG
* *
9426132 AGTGAAATATAAGGATC-AAACTAAAATTTAACCATAAAAAAATT-GTAGG-ATTAAAATTGAAA
1 AGTGAAATATAAGGATCAAAACTAAAATATAACCAT-AAAAAATTAG-AGGTATTAAAATTAAAA
9426194 TTTAACCATTATCTTATCAAAGAAAAAA
64 TTTAACCATTATCTTATCAAAGAAAAAA
9426222 GAAACATTGG
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
109 48 0.64
110 27 0.36
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (110 bp):
AGTGAAATATAAGGATCAAAACTAAAATATAACCATAAAAAATTAGAGGTATTAAAATTAAAATT
TAACCATTATCTTATCAAAGAAAAAAAAAGAAAGAAAGAAATTTG
Found at i:9426419 original size:25 final size:25
Alignment explanation
Indices: 9426381--9426429 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
9426371 TTGGCGGCGC
* *
9426381 TTTTAAGTGTCGCAAAAAACGCCGT
1 TTTTAAGCGCCGCAAAAAACGCCGT
*
9426406 TTTTAAGCGCCGCAAAAAATGCCG
1 TTTTAAGCGCCGCAAAAAACGCCG
9426430 CTATAGATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (25 bp):
TTTTAAGCGCCGCAAAAAACGCCGT
Found at i:9430691 original size:8 final size:7
Alignment explanation
Indices: 9430675--9430727 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
9430665 ATATTAAATA
*
9430675 TTAAATT
1 TTAATTT
9430682 TTAAGTTT
1 TTAA-TTT
9430690 TTAAGTTT
1 TTAA-TTT
*
9430698 TTTATTT
1 TTAATTT
*
9430705 TTTATTT
1 TTAATTT
*
9430712 TTAAATT
1 TTAATTT
9430719 TTAATTT
1 TTAATTT
9430726 TT
1 TT
9430728 TTTGAAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
7 27 0.68
8 13 0.32
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (7 bp):
TTAATTT
Found at i:9430712 original size:22 final size:21
Alignment explanation
Indices: 9430668--9430728 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
9430658 GATTAAAATA
* * *
9430668 TTAAATATTAAATTTTAAGTTT
1 TTAAATTTTAATTTTTTA-TTT
* *
9430690 TTAAGTTTTTTATTTTTTATTT
1 TTAA-ATTTTAATTTTTTATTT
9430712 TTAAATTTTAATTTTTT
1 TTAAATTTTAATTTTTT
9430729 TTGAAGATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 11 0.35
22 11 0.35
23 9 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (21 bp):
TTAAATTTTAATTTTTTATTT
Found at i:9431122 original size:21 final size:21
Alignment explanation
Indices: 9431098--9431142 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9431088 CTAATAATTA
*
9431098 AACCCCAAATCCTAAACCATG
1 AACCCCAAAACCTAAACCATG
* *
9431119 AACCCTAAAACCTAGACCATG
1 AACCCCAAAACCTAAACCATG
9431140 AAC
1 AAC
9431143 ATATATATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.36, G:0.07, T:0.13
Consensus pattern (21 bp):
AACCCCAAAACCTAAACCATG
Found at i:9432680 original size:53 final size:53
Alignment explanation
Indices: 9432599--9432749 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
9432589 CTTACGCGGT
* *
9432599 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
9432654 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
9432707 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
9432750 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:9439204 original size:53 final size:53
Alignment explanation
Indices: 9439116--9439266 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
9439106 CTTACACAGT
* *
9439116 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
9439171 TCACATTATACCGATGCCATAGCTCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
9439224 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
9439267 GCACACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:9442666 original size:14 final size:14
Alignment explanation
Indices: 9442631--9442666 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9442621 TGTTATACAC
9442631 ACATATATATATAT
1 ACATATATATATAT
*
9442645 ACAAATATATATAT
1 ACATATATATATAT
*
9442659 TCATATAT
1 ACATATAT
9442667 TCTTCTACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (14 bp):
ACATATATATATAT
Found at i:9447802 original size:10 final size:9
Alignment explanation
Indices: 9447782--9447853 Score: 56
Period size: 10 Copynumber: 7.6 Consensus size: 9
9447772 TTGAAACAGC
9447782 TTATAAAAA
1 TTATAAAAA
9447791 TTATATAAAA
1 TTATA-AAAA
9447801 TTATAAAAA
1 TTATAAAAA
**
9447810 TTCATACAAGC
1 TT-ATA-AAAA
9447821 TTAT-AAAA
1 TTATAAAAA
*
9447829 TTCTTAAAAA
1 TT-ATAAAAA
*
9447839 GTATAAAAAA
1 TTAT-AAAAA
9447849 TTATA
1 TTATA
9447854 TTCTAAAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
8 4 0.08
9 14 0.29
10 27 0.55
11 4 0.08
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Done.