Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 31 of 187
Found at i:8938885 original size:30 final size:29
Alignment explanation
Indices: 8938814--8938885 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
8938804 TAGGGTATGG
* * *
8938814 ATCAAATTAGTCCCTATATTATTAAATGG
1 ATCAAATTAGTCCCTATACTATTAAAAGA
*
8938843 ATCAATTTAGTCCCTATACTATTAAAAAGA
1 ATCAAATTAGTCCCTATACTATT-AAAAGA
*
8938873 ATCAAATAAGTCC
1 ATCAAATTAGTCC
8938886 AAATTGTAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (29 bp):
ATCAAATTAGTCCCTATACTATTAAAAGA
Found at i:8960246 original size:24 final size:25
Alignment explanation
Indices: 8960214--8960270 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
8960204 GATAAAATTG
8960214 TAAACATATTTAAATATATTA-TAAT
1 TAAA-ATATTTAAATATATTATTAAT
* * *
8960239 TATAATATTTAATTTTATTATTAAT
1 TAAAATATTTAAATATATTATTAAT
8960264 TAAAATA
1 TAAAATA
8960271 ATTTTATTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
TAAAATATTTAAATATATTATTAAT
Found at i:8966593 original size:15 final size:15
Alignment explanation
Indices: 8966573--8966612 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
8966563 AAATTTCAAG
*
8966573 ATTTTTTTCATAAAT
1 ATTTTTTTCAAAAAT
8966588 ATTTTTTT-AAAAAT
1 ATTTTTTTCAAAAAT
*
8966602 AATTTTTTCAA
1 ATTTTTTTCAA
8966613 TAACGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTTTCAAAAAT
Found at i:8966677 original size:29 final size:29
Alignment explanation
Indices: 8966622--8966685 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
8966612 ATAACGTTTA
** *
8966622 ATTTATTTTTACTATTTTAAATATAAAAT
1 ATTTATTTTTACTATCATAAAAATAAAAT
8966651 ATTTATTTTTA-TATCATAAAAATTAAAAT
1 ATTTATTTTTACTATCATAAAAA-TAAAAT
*
8966680 AATTAT
1 ATTTAT
8966686 GTATTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTTATTTTTACTATCATAAAAATAAAAT
Found at i:8969033 original size:20 final size:21
Alignment explanation
Indices: 8969008--8969047 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8968998 TCCTTTCTTT
*
8969008 CTCAC-ACTTTATCAAATAAA
1 CTCACAACATTATCAAATAAA
*
8969028 CTCACAACATTATCATATAA
1 CTCACAACATTATCAAATAA
8969048 TCTTTCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
CTCACAACATTATCAAATAAA
Found at i:8970551 original size:17 final size:17
Alignment explanation
Indices: 8970525--8970560 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8970515 GAGGTGGAGA
*
8970525 AATAAACAAATAAATAT
1 AATAAACAAATAAAAAT
*
8970542 AATAATCAAATAAAAAT
1 AATAAACAAATAAAAAT
8970559 AA
1 AA
8970561 GACTTGCGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAACAAATAAAAAT
Found at i:8971241 original size:43 final size:43
Alignment explanation
Indices: 8971193--8971278 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
8971183 ATGCCGTTAT
* ** *
8971193 AGAACATGACCTTTAGTGGTGCTTTTCCCACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCACTTTTCCCACAAACGCCACTAA
*
8971236 AGAACATGACCTTTAGCGGCATTTTTCCCACAAACGCCACTAA
1 AGAACATGACCTTTAGCGGCACTTTTCCCACAAACGCCACTAA
8971279 CTTTAGCAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCACTTTTCCCACAAACGCCACTAA
Found at i:8977011 original size:40 final size:39
Alignment explanation
Indices: 8976944--8977078 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 39
8976934 GCATTTGTAT
**
8976944 AAAAAACGCCGCTAAAAATAAGTATTACCGGCGCTTTTA
1 AAAAAACGCCGCTAAAGTTAAGTATTACCGGCGCTTTTA
* *
8976983 AAAAAATGCCGCTAAAGTTCAAGCATTACCGGCGCTTTTA
1 AAAAAACGCCGCTAAAGTT-AAGTATTACCGGCGCTTTTA
* * *
8977023 AAAAAACGCCGTTAAAGATTAAGTATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTAAAG-TTAAGTATTACCGGCGCTTTTA
**
8977063 GGAAAACGCCGCTAAA
1 AAAAAACGCCGCTAAA
8977079 AATGAGAATT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 16 0.20
40 64 0.78
41 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAGTTAAGTATTACCGGCGCTTTTA
Found at i:8977213 original size:41 final size:41
Alignment explanation
Indices: 8977156--8977470 Score: 427
Period size: 41 Copynumber: 7.7 Consensus size: 41
8977146 GCTTTCGGGG
* * *
8977156 CTTTAGTGGCGTTTTTGGAAAAGCGCTGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
* * * *
8977197 CTTTAGCGACGTTTTTGGGAAAGCGTCGCTAATACTCTGGC
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
*
8977238 CTTTAGCGGCGTTTTTGGGAAAGTGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
* ** * *
8977279 CTGTAGCGGCGTTTTTGGTCAAGCGCCGTTAATGCTCTAGTT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCT-GGT
*
8977321 TTTTAGCGGCGTTTCTT-GGAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTT-TTGGGAAAGCGCCGCTAATGCTCTGGT
8977362 CTTTAGCGGCGTTTTTTGGG-AAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCG-TTTTTGGGAAAGCGCCGCTAATGCTCTGGT
*
8977403 CTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
* * *
8977444 CTTTAGCGGCATTTTTTGTAAAGCGCC
1 CTTTAGCGGCGTTTTTGGGAAAGCGCC
8977471 ACAAAATGTA
Statistics
Matches: 239, Mismatches: 30, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
40 8 0.03
41 192 0.80
42 37 0.15
43 2 0.01
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGT
Found at i:8977435 original size:165 final size:165
Alignment explanation
Indices: 8977157--8977470 Score: 488
Period size: 165 Copynumber: 1.9 Consensus size: 165
8977147 CTTTCGGGGC
* *
8977157 TTTAGTGGCGTTTTTGGAAAAGCGCTGCTAATGCTCTGGTCTTTAGCGACGTTTTTGGGAAAGCG
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGACGTTTTTGGGAAAGCG
* * *
8977222 TCGCTAATACTCTGGCCTTTAGCGGCGTTTTTGGGAAAGTGCCGCTAATGCTCTGGTCTGTAGCG
66 CCGCTAATACTCTGGCCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGTCTGTAGCG
* *
8977287 GCGTTTTTGGTCAAGCGCCGTTAATGCTCTAGTTT
131 GCATTTTTGGTAAAGCGCCGTTAATGCTCTAGTTT
*
8977322 TTTAGCGGCGTTTCTTGG-AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTTGGG-AAG
1 TTTAGCGGCGTTT-TTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGACG-TTTTTGGGAAAG
* * *
8977385 CGCCGCTAATGCTCTGGTCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGTCTTTAG
64 CGCCGCTAATACTCTGGCCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGTCTGTAG
*
8977450 CGGCATTTTTTGTAAAGCGCC
129 CGGCATTTTTGGTAAAGCGCC
8977471 ACAAAATGTA
Statistics
Matches: 135, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
165 123 0.91
166 12 0.09
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (165 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGACGTTTTTGGGAAAGCG
CCGCTAATACTCTGGCCTTTAGCAGCGTTTTTGGGAAAGCGCCGCTAATGCTCTGGTCTGTAGCG
GCATTTTTGGTAAAGCGCCGTTAATGCTCTAGTTT
Found at i:8977997 original size:22 final size:22
Alignment explanation
Indices: 8977931--8978011 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 22
8977921 GGATTTAGGT
*
8977931 TTTAGGGGTTTAAGGGTTGGGG
1 TTTAGGGGTTTAAGGGTTGGGA
* *
8977953 TTTA-AGG-TTAAGGGGTTGTGA
1 TTTAGGGGTTTAA-GGGTTGGGA
*
8977974 TTTA-GGGTTTAAGGGATAGGGA
1 TTTAGGGGTTTAAGGG-TTGGGA
8977996 -TTAGGGGTTT-AGGGTT
1 TTTAGGGGTTTAAGGGTT
8978012 TAGATTAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
20 5 0.10
21 25 0.52
22 18 0.38
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (22 bp):
TTTAGGGGTTTAAGGGTTGGGA
Found at i:8983421 original size:15 final size:15
Alignment explanation
Indices: 8983401--8983431 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8983391 GAGTTGAAAG
8983401 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
8983416 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
8983431 T
1 T
8983432 CCATATGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:8983701 original size:16 final size:16
Alignment explanation
Indices: 8983677--8983710 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8983667 TAATACTAAC
*
8983677 TAATTTTTGATATTAA
1 TAATGTTTGATATTAA
*
8983693 TAATGTTTGATTTTAA
1 TAATGTTTGATATTAA
8983709 TA
1 TA
8983711 TTTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
TAATGTTTGATATTAA
Found at i:8983833 original size:43 final size:41
Alignment explanation
Indices: 8983784--8983966 Score: 159
Period size: 43 Copynumber: 4.3 Consensus size: 41
8983774 ACGGTATTTT
* *
8983784 TAGCGGCGTTTGTAATCAGAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTAA--AAAGCGTCGCTAAAGGTCTTGATCTA
* * *
8983827 TAGCGGCGTTTATTGAAAAAGTGTCACTAAAGGTCTTGATCTA
1 TAGCGGCGTTT-GT-AAAAAGCGTCGCTAAAGGTCTTGATCTA
* * *
8983870 TAGCGGCGTTTTTGAGAAAAGCGCCGTTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGT-A-AAAAGCGTCGCTAAAGGTCTTGATCTA
* * * * * * *
8983913 TAGCGGCATTTGTAGGTAAAGTGCCGCTAAAGGTCATGGTTTA
1 TAGCGGCGTTTGTA--AAAAGCGTCGCTAAAGGTCTTGATCTA
8983956 TAGCGGCGTTT
1 TAGCGGCGTTT
8983967 ATTTCTAAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 5 0.04
43 110 0.93
44 1 0.01
45 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (41 bp):
TAGCGGCGTTTGTAAAAAGCGTCGCTAAAGGTCTTGATCTA
Found at i:8984230 original size:25 final size:26
Alignment explanation
Indices: 8984194--8984244 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
8984184 AATATATAGA
*
8984194 TAAATAATATTTATCTTTATGGTAAT
1 TAAATAATATTTATCTTTATGATAAT
*
8984220 TAAAT-ATATTTATTTTTATGATAAT
1 TAAATAATATTTATCTTTATGATAAT
8984245 ATATATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (26 bp):
TAAATAATATTTATCTTTATGATAAT
Found at i:8984301 original size:22 final size:19
Alignment explanation
Indices: 8984267--8984332 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 19
8984257 TATTAAAATA
8984267 ATTTTAACATTAAGATAAATATT
1 ATTTT-ACATTAA-A-AAAT-TT
*
8984290 ATTTTACTTTAAAAAATTT
1 ATTTTACATTAAAAAATTT
8984309 ATTTTA-ATTAAATAATATTT
1 ATTTTACATTAAA-AA-ATTT
8984329 ATTT
1 ATTT
8984333 CAATGATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.13
19 10 0.26
20 12 0.31
21 1 0.03
22 6 0.15
23 5 0.13
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTTTACATTAAAAAATTT
Found at i:8984312 original size:19 final size:19
Alignment explanation
Indices: 8984275--8984332 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
8984265 TAATTTTAAC
8984275 ATTAAGATAAATATTATTTTA
1 ATTAA-ATAAAT-TTATTTTA
*
8984296 CTTTAAA-AAATTTATTTTA
1 -ATTAAATAAATTTATTTTA
8984315 ATTAAATAATATTTATTT
1 ATTAAATAA-ATTTATTT
8984333 CAATGATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 5 0.16
19 10 0.31
20 12 0.38
21 1 0.03
22 4 0.12
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTAAATAAATTTATTTTA
Found at i:8984570 original size:19 final size:20
Alignment explanation
Indices: 8984546--8984583 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8984536 TATCTTAAAT
8984546 TTTAAAAT-AAAAATAAAAA
1 TTTAAAATCAAAAATAAAAA
*
8984565 TTTAAAATCAAAACTAAAA
1 TTTAAAATCAAAAATAAAA
8984584 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
TTTAAAATCAAAAATAAAAA
Found at i:8984584 original size:19 final size:18
Alignment explanation
Indices: 8984541--8984597 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
8984531 CAAGTTATCT
*
8984541 TAAATTTTAAAATAAAAA
1 TAAAATTTAAAATAAAAA
*
8984559 TAAAAATTTAAAATCAAAAC
1 T-AAAATTTAAAAT-AAAAA
*
8984579 TAAAA-TAAATAATAAAAA
1 TAAAATTTAA-AATAAAAA
8984597 T
1 T
8984598 TGGATTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 9 0.28
19 18 0.56
20 5 0.16
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATTTAAAATAAAAA
Found at i:8986719 original size:25 final size:25
Alignment explanation
Indices: 8986691--8986738 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
8986681 GGACAAGATT
8986691 TTGTTAAATGAAATAATAAAAATAA
1 TTGTTAAATGAAATAATAAAAATAA
8986716 TTGTTAAATGAAATAATAAAAAT
1 TTGTTAAATGAAATAATAAAAAT
8986739 TGAGCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (25 bp):
TTGTTAAATGAAATAATAAAAATAA
Found at i:8987493 original size:15 final size:15
Alignment explanation
Indices: 8987473--8987501 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8987463 AATAATGTGG
8987473 ATGGGAGATGATATC
1 ATGGGAGATGATATC
8987488 ATGGGAGATGATAT
1 ATGGGAGATGATAT
8987502 AGAGCAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.28
Consensus pattern (15 bp):
ATGGGAGATGATATC
Found at i:8987547 original size:17 final size:16
Alignment explanation
Indices: 8987525--8987569 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
8987515 AGGAAATCAA
*
8987525 AGAAAGAAAGCAGACTG
1 AGAAAGAAAGAAGA-TG
*
8987542 AGAAAGAAAAAAGATG
1 AGAAAGAAAGAAGATG
8987558 AGAAAGAAAGAA
1 AGAAAGAAAGAA
8987570 AATGGATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.64, C:0.04, G:0.27, T:0.04
Consensus pattern (16 bp):
AGAAAGAAAGAAGATG
Found at i:8987561 original size:16 final size:17
Alignment explanation
Indices: 8987525--8987566 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8987515 AGGAAATCAA
**
8987525 AGAAAGAAAGCAGACTG
1 AGAAAGAAAAAAGACTG
8987542 AGAAAGAAAAAAGA-TG
1 AGAAAGAAAAAAGACTG
8987558 AGAAAGAAA
1 AGAAAGAAA
8987567 GAAAATGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.64, C:0.05, G:0.26, T:0.05
Consensus pattern (17 bp):
AGAAAGAAAAAAGACTG
Found at i:8987761 original size:41 final size:41
Alignment explanation
Indices: 8987700--8987820 Score: 170
Period size: 41 Copynumber: 3.0 Consensus size: 41
8987690 AATTCACGGT
* * *
8987700 GTTTATGTAACAAACGCTGCTATTGCCTAACCTTTTGTGGC
1 GTTTATGGAAAAAACGCTGCTATTGCCTAACCTTTTGCGGC
*
8987741 GTTTATGGAAAAAACACTGCTATTGCCTAACCTTTTGCGGC
1 GTTTATGGAAAAAACGCTGCTATTGCCTAACCTTTTGCGGC
* * * *
8987782 GTTTATGGGAAAAATGCCGCTATTGCCTTACCTTTTGCG
1 GTTTATGGAAAAAACGCTGCTATTGCCTAACCTTTTGCG
8987821 ACATTTTCGG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (41 bp):
GTTTATGGAAAAAACGCTGCTATTGCCTAACCTTTTGCGGC
Found at i:8990282 original size:6 final size:6
Alignment explanation
Indices: 8990271--8990320 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
8990261 ACAATAGACT
* * * * *
8990271 AAAATA AAAATA ACAATG AAAATA AAAGTA AAATTA AAAGTA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
8990319 AA
1 AA
8990321 GGAAGCAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:8990294 original size:18 final size:17
Alignment explanation
Indices: 8990271--8990320 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
8990261 ACAATAGACT
8990271 AAAATAAAAATAACAATG
1 AAAATAAAAATAA-AATG
* *
8990289 AAAATAAAAGTAAAATT
1 AAAATAAAAATAAAATG
8990306 AAAAGTAAAAATAAA
1 AAAA-TAAAAATAAA
8990321 GGAAGCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAATAAAAATAAAATG
Found at i:8990469 original size:12 final size:12
Alignment explanation
Indices: 8990452--8990486 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
8990442 AAAAACTTGT
*
8990452 AAAAACAAGAAG
1 AAAAACAAAAAG
8990464 AAAAACAAAAAG
1 AAAAACAAAAAG
*
8990476 AAAACCAAAAA
1 AAAAACAAAAA
8990487 TAGAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.80, C:0.11, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAG
Found at i:9003408 original size:61 final size:59
Alignment explanation
Indices: 9003338--9003450 Score: 154
Period size: 61 Copynumber: 1.9 Consensus size: 59
9003328 GATTATCTTA
* * * *
9003338 ATATTAAATTTAGTTTAATGTTTATCTTGTAGATAATATTCTATTATTTTAATAAGATTTC
1 ATATTAAATTTAATCTAATGTTTATCTT-TAGA-AATATTATATTAATTTAATAAGATTTC
* *
9003399 ATATTAAATTTAATCTAATTTTTATCTTTATAAATATTATATTAATTTAATA
1 ATATTAAATTTAATCTAATGTTTATCTTTAGAAATATTATATTAATTTAATA
9003451 TTAAAGTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 18 0.39
60 3 0.07
61 25 0.54
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (59 bp):
ATATTAAATTTAATCTAATGTTTATCTTTAGAAATATTATATTAATTTAATAAGATTTC
Found at i:9007026 original size:20 final size:21
Alignment explanation
Indices: 9006992--9007030 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
9006982 CTTAACCCCT
9006992 AAATCACTCTTATTTAGCCAA
1 AAATCACTCTTATTTAGCCAA
9007013 AAATCACT-TTATTTAGCC
1 AAATCACTCTTATTTAGCC
9007031 TTTAACTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATCACTCTTATTTAGCCAA
Found at i:9018946 original size:14 final size:14
Alignment explanation
Indices: 9018913--9018949 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
9018903 AATTTTCATT
9018913 AAAATTTCGTTAAG
1 AAAATTTCGTTAAG
*
9018927 -AAATTTTGTTAAG
1 AAAATTTCGTTAAG
9018940 AAAATTTCGT
1 AAAATTTCGT
9018950 ATTATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (14 bp):
AAAATTTCGTTAAG
Found at i:9022439 original size:17 final size:17
Alignment explanation
Indices: 9022417--9022450 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9022407 GTGAGAAAGA
9022417 GCCAAAAGTCAAGTGAC
1 GCCAAAAGTCAAGTGAC
9022434 GCCAAAAGTCAAGTGAC
1 GCCAAAAGTCAAGTGAC
9022451 AAAAACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.12
Consensus pattern (17 bp):
GCCAAAAGTCAAGTGAC
Found at i:9024549 original size:19 final size:19
Alignment explanation
Indices: 9024527--9024564 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9024517 TCAATCATCC
9024527 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
9024546 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
9024565 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:9025347 original size:203 final size:203
Alignment explanation
Indices: 9024998--9025403 Score: 812
Period size: 203 Copynumber: 2.0 Consensus size: 203
9024988 CTAATGGACG
9024998 AATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCCGATTGATTTGTAGGTTGCATAACAAC
1 AATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCCGATTGATTTGTAGGTTGCATAACAAC
9025063 TCTAACTAAGCTCTATTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGTTTCAAACCTAAC
66 TCTAACTAAGCTCTATTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGTTTCAAACCTAAC
9025128 ACGTCCGTTTTACCTCATACGAATGCTAAGAAACCTTTAGTAAATAAGGATCAGTAAAATGCGTA
131 ACGTCCGTTTTACCTCATACGAATGCTAAGAAACCTTTAGTAAATAAGGATCAGTAAAATGCGTA
9025193 TTTACTAA
196 TTTACTAA
9025201 AATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCCGATTGATTTGTAGGTTGCATAACAAC
1 AATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCCGATTGATTTGTAGGTTGCATAACAAC
9025266 TCTAACTAAGCTCTATTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGTTTCAAACCTAAC
66 TCTAACTAAGCTCTATTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGTTTCAAACCTAAC
9025331 ACGTCCGTTTTACCTCATACGAATGCTAAGAAACCTTTAGTAAATAAGGATCAGTAAAATGCGTA
131 ACGTCCGTTTTACCTCATACGAATGCTAAGAAACCTTTAGTAAATAAGGATCAGTAAAATGCGTA
9025396 TTTACTAA
196 TTTACTAA
9025404 GTAAAGGATT
Statistics
Matches: 203, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
203 203 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (203 bp):
AATAATTGAAATGTGCATGCTTAATTTAGATCCTAACCCGATTGATTTGTAGGTTGCATAACAAC
TCTAACTAAGCTCTATTATCTGCATAGTTTTTAGATTTGTGTGATTAAATTGTTTCAAACCTAAC
ACGTCCGTTTTACCTCATACGAATGCTAAGAAACCTTTAGTAAATAAGGATCAGTAAAATGCGTA
TTTACTAA
Found at i:9026624 original size:41 final size:43
Alignment explanation
Indices: 9026567--9026656 Score: 132
Period size: 41 Copynumber: 2.1 Consensus size: 43
9026557 TACTTATGTC
**
9026567 ACGTATATACCTGATTTCTGG-G-TCTGTTTA-ATACTCTTTAT
1 ACGTATATACCTGATTTCTGGAGCT-TGTCCAGATACTCTTTAT
9026608 ACGTATATACCTGATTTCTGGAGCTTGTCCAGATACTCTTTAT
1 ACGTATATACCTGATTTCTGGAGCTTGTCCAGATACTCTTTAT
9026651 ACGTAT
1 ACGTAT
9026657 TTCTTTATGC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 21 0.48
42 5 0.11
43 18 0.41
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (43 bp):
ACGTATATACCTGATTTCTGGAGCTTGTCCAGATACTCTTTAT
Found at i:9029761 original size:76 final size:76
Alignment explanation
Indices: 9029629--9029807 Score: 241
Period size: 76 Copynumber: 2.4 Consensus size: 76
9029619 TACGAAATGT
* * *
9029629 AAAACATTGTCAATTTATTCGACTAGTGCTGGGCACACAATTGATATCGTCAGTTTATCCGACTA
1 AAAACATTGTCAGTTTATCCGACTAGTGCTGGGCACACAATTGATATCGTCAGTTTATCCAACTA
*
9029694 GCGCTAGGTAC
66 GCGCTAGGCAC
* * * **
9029705 AAAACATTGTCAGTTTACCCGACTAGTGCTGGGCATACATTTGATATCGTTGGTTTATCCAACTA
1 AAAACATTGTCAGTTTATCCGACTAGTGCTGGGCACACAATTGATATCGTCAGTTTATCCAACTA
* *
9029770 GCTCTGGGCAC
66 GCGCTAGGCAC
* *
9029781 AAAACATTGCCAGTTTATCTGACTAGT
1 AAAACATTGTCAGTTTATCCGACTAGT
9029808 ATAGGGCACA
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 89 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (76 bp):
AAAACATTGTCAGTTTATCCGACTAGTGCTGGGCACACAATTGATATCGTCAGTTTATCCAACTA
GCGCTAGGCAC
Found at i:9032447 original size:17 final size:18
Alignment explanation
Indices: 9032411--9032448 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
9032401 ACACACGGTC
* *
9032411 TGGGCTATTTGGGCCGTG
1 TGGGCTATATAGGCCGTG
9032429 TGGGCTATATAGG-CGTG
1 TGGGCTATATAGGCCGTG
9032446 TGG
1 TGG
9032449 ACCCAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.11, C:0.13, G:0.45, T:0.32
Consensus pattern (18 bp):
TGGGCTATATAGGCCGTG
Found at i:9034796 original size:33 final size:34
Alignment explanation
Indices: 9034718--9034796 Score: 128
Period size: 33 Copynumber: 2.4 Consensus size: 34
9034708 GCTCAACTTT
9034718 TATA-TTC-TTTTTCTCCCTTATTTTTTTAAATG
1 TATACTTCTTTTTTCTCCCTTATTTTTTTAAATG
*
9034750 TATACTTCTTTTTTTTCCCTT-TTTTTTTAAATG
1 TATACTTCTTTTTTCTCCCTTATTTTTTTAAATG
9034783 TATACTTCTTTTTT
1 TATACTTCTTTTTT
9034797 ATATTACAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
32 4 0.09
33 29 0.66
34 11 0.25
ACGTcount: A:0.16, C:0.15, G:0.03, T:0.66
Consensus pattern (34 bp):
TATACTTCTTTTTTCTCCCTTATTTTTTTAAATG
Found at i:9036892 original size:50 final size:50
Alignment explanation
Indices: 9036829--9037010 Score: 231
Period size: 50 Copynumber: 3.6 Consensus size: 50
9036819 AATGTCGTAC
* ** * *
9036829 CCCAGATATGGTCTTACAAGGGAGTTCTCATATAGGTGCGC-ATGCCATGT
1 CCCAGACATGGTCTTACAAGGGACCTCTCATATCGGTGC-CAACGCCATGT
* * * *
9036879 CCCAGACAAGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACACCATGT
1 CCCAGACATGGTCTTACAAGGGACCTCTCATATCGGTGCCAACGCCATGT
* *
9036929 CCCAGACATGGTCTTACACGGGACCTCTCATCTCGGTGCCAACGCCATGT
1 CCCAGACATGGTCTTACAAGGGACCTCTCATATCGGTGCCAACGCCATGT
* *
9036979 CCCAAACATGGTCTTACATGGGACCTCTCATA
1 CCCAGACATGGTCTTACAAGGGACCTCTCATA
9037011 ATCTCAATGA
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 1 0.01
50 115 0.99
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (50 bp):
CCCAGACATGGTCTTACAAGGGACCTCTCATATCGGTGCCAACGCCATGT
Found at i:9036933 original size:100 final size:100
Alignment explanation
Indices: 9036829--9037009 Score: 256
Period size: 100 Copynumber: 1.8 Consensus size: 100
9036819 AATGTCGTAC
* ** * *
9036829 CCCAGATATGGTCTTACAAGGGAGTTCTCATATAGGTGCGC-ATGCCATGTCCCAGACAAGGTCT
1 CCCAGACATGGTCTTACAAGGGACCTCTCATATAGGTGC-CAACGCCATGTCCCAAACAAGGTCT
9036893 TACAGGGGACCTCTCATCTCGGTGCCAACACCATGT
65 TACAGGGGACCTCTCATCTCGGTGCCAACACCATGT
* * * *
9036929 CCCAGACATGGTCTTACACGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTT
1 CCCAGACATGGTCTTACAAGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACAAGGTCTT
*
9036994 ACATGGGACCTCTCAT
66 ACAGGGGACCTCTCAT
9037010 AATCTCAATG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 1 0.01
100 69 0.99
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (100 bp):
CCCAGACATGGTCTTACAAGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAAACAAGGTCTT
ACAGGGGACCTCTCATCTCGGTGCCAACACCATGT
Found at i:9043416 original size:22 final size:22
Alignment explanation
Indices: 9043388--9043429 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9043378 TATTAAAATA
* *
9043388 AATAAAAAATGTTTCTTCATCG
1 AATAAAAAATGCTTCCTCATCG
9043410 AATAAAAAATGCTTCCTCAT
1 AATAAAAAATGCTTCCTCAT
9043430 TATTTCTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (22 bp):
AATAAAAAATGCTTCCTCATCG
Found at i:9047931 original size:25 final size:26
Alignment explanation
Indices: 9047886--9047953 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
9047876 CCTTTACATA
* * *
9047886 TATGCTCACACGAGATGTG-AATAAG
1 TATGCTCACATGAGCTATGAAATAAG
*
9047911 TATGCTCACATGAGCTATGAAAATAGG
1 TATGCTCACATGAGCTATG-AAATAAG
*
9047938 TCTGCTCACATGAGCT
1 TATGCTCACATGAGCT
9047954 GTGGGTTGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 16 0.44
27 20 0.56
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (26 bp):
TATGCTCACATGAGCTATGAAATAAG
Found at i:9056542 original size:18 final size:17
Alignment explanation
Indices: 9056510--9056544 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9056500 GATAATTTTT
*
9056510 TATTAAATTAAATAAAA
1 TATTAAATAAAATAAAA
9056527 TATTATAATAAAATAAAA
1 TATTA-AATAAAATAAAA
9056545 CATAACAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATTAAATAAAATAAAA
Found at i:9058620 original size:20 final size:20
Alignment explanation
Indices: 9058571--9058620 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
9058561 ATTTATATAA
9058571 GTATCGATACTTTTCATTAC
1 GTATCGATACTTTTCATTAC
*
9058591 GTATCAATACTTTTCATTAC
1 GTATCGATACTTTTCATTAC
*
9058611 GTATTGATAC
1 GTATCGATAC
9058621 CCAGTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (20 bp):
GTATCGATACTTTTCATTAC
Found at i:9065300 original size:20 final size:22
Alignment explanation
Indices: 9065260--9065302 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
9065250 ATATAAATAA
*
9065260 AATAATAAATATGTAATTATAT
1 AATAATAAATATATAATTATAT
9065282 AATAA-AAATATAT-ATTATAT
1 AATAATAAATATATAATTATAT
9065302 A
1 A
9065303 TCATTATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 7 0.35
22 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATAATAAATATATAATTATAT
Found at i:9066009 original size:15 final size:13
Alignment explanation
Indices: 9065981--9066006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9065971 ATATAAATAT
9065981 TATATATCAAAAA
1 TATATATCAAAAA
9065994 TATATATCAAAAA
1 TATATATCAAAAA
9066007 AATTAATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TATATATCAAAAA
Found at i:9066011 original size:105 final size:106
Alignment explanation
Indices: 9065737--9066017 Score: 281
Period size: 105 Copynumber: 2.7 Consensus size: 106
9065727 TGATATGGAT
* * * * *
9065737 TGAAAAATAAATATTTCACATATAAAAATTATATTTACTAAAAATAATGATATTTGAAATAATTA
1 TGAAAAATAAATATTTGACATATAAATATTATATAT-C-AAAAATAATAATATTTGAAAAAATTA
* *
9065802 ATTGATTTTATAATATTAGAATATACCATACCCACAATGTAGA
64 ATTGATTTTATAATATTAGAATATAACACACCCACAATGTAGA
* * * * *
9065845 TGAAAAACAATTATATTTGA-A-AT--ATTTTCTATATAAAATAATAATAATATTTGAAAGAATT
1 TGAAAAATAA--ATATTTGACATATAAATATTATATATCAAA-AATAATAATATTTGAAAAAATT
* * *
9065906 ATTTGATTTTATAATATTAGAA-ATCAACACACCCATAATGTAGG
63 AATTGATTTTATAATATTAGAATAT-AACACACCCACAATGTAGA
**
9065950 TGGAGAAAATAAATATTTGACATATAAATATTATATATCAAAAAT-AT-ATA-TCAAAAAAATTA
1 T-GA-AAAATAAATATTTGACATATAAATATTATATATCAAAAATAATAATATTTGAAAAAATTA
9066012 ATTGAT
64 ATTGAT
9066018 GCTTTTAAAA
Statistics
Matches: 141, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
104 5 0.04
105 79 0.56
106 13 0.09
107 10 0.07
108 14 0.10
109 13 0.09
110 7 0.05
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (106 bp):
TGAAAAATAAATATTTGACATATAAATATTATATATCAAAAATAATAATATTTGAAAAAATTAAT
TGATTTTATAATATTAGAATATAACACACCCACAATGTAGA
Found at i:9066086 original size:19 final size:20
Alignment explanation
Indices: 9066064--9066109 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
9066054 AAATATAAAA
9066064 TTATATATTTATTA-TATAT
1 TTATATATTTATTATTATAT
*
9066083 TTATATATTTATTATTTTAT
1 TTATATATTTATTATTATAT
9066103 TTATATA
1 TTATATA
9066110 AATAAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATATTTATTATTATAT
Found at i:9066610 original size:20 final size:19
Alignment explanation
Indices: 9066585--9066626 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9066575 TACTCAACAA
* *
9066585 TATATAATATATATTTTTAT
1 TATATAAT-TACATATTTAT
9066605 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
9066624 TAT
1 TAT
9066627 TTTATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:9066719 original size:13 final size:13
Alignment explanation
Indices: 9066701--9066725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9066691 TGATATATTT
9066701 ATTAATTAAAAAA
1 ATTAATTAAAAAA
9066714 ATTAATTAAAAA
1 ATTAATTAAAAA
9066726 TAAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAA
Found at i:9077323 original size:41 final size:41
Alignment explanation
Indices: 9077273--9077471 Score: 213
Period size: 41 Copynumber: 4.9 Consensus size: 41
9077263 GACTTTGAGT
** *
9077273 CTAGCAGGCTTCGTGCTGGTGATTTATATCAGGCTCTATGC
1 CTAGCAGGCTTCGTGCCAGTGATTTATATCAGGCTCTGTGC
* * * *
9077314 CTAGTAGGCTTCGTGCCAATGATTTATATCAGGTTATGTGC
1 CTAGCAGGCTTCGTGCCAGTGATTTATATCAGGCTCTGTGC
* * * * *
9077355 CTAGCAGACTCCGTGCCCA-TG-TGTTGTATCAAGCTGTGTGC
1 CTAGCAGGCTTCGTG-CCAGTGAT-TTATATCAGGCTCTGTGC
* * *
9077396 CTAGCAAGCTTCGTGCCGGTGATTTATATTAGGCTCTGTGC
1 CTAGCAGGCTTCGTGCCAGTGATTTATATCAGGCTCTGTGC
* *
9077437 CTAGCATGCTTCGTGCCAGTGATTTATATTAGGCT
1 CTAGCAGGCTTCGTGCCAGTGATTTATATCAGGCT
9077472 TCGTGCCGGT
Statistics
Matches: 130, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 3 0.02
41 123 0.95
42 4 0.03
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.34
Consensus pattern (41 bp):
CTAGCAGGCTTCGTGCCAGTGATTTATATCAGGCTCTGTGC
Found at i:9077478 original size:25 final size:25
Alignment explanation
Indices: 9077444--9077496 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
9077434 TGCCTAGCAT
*
9077444 GCTTCGTGCCAGTGATTTATATTAG
1 GCTTCGTGCCAGTGATTTATATCAG
* *
9077469 GCTTCGTGCCGGTTATTTATATCAG
1 GCTTCGTGCCAGTGATTTATATCAG
9077494 GCT
1 GCT
9077497 CTCTGCCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.40
Consensus pattern (25 bp):
GCTTCGTGCCAGTGATTTATATCAG
Found at i:9079612 original size:27 final size:29
Alignment explanation
Indices: 9079560--9079613 Score: 69
Period size: 27 Copynumber: 1.9 Consensus size: 29
9079550 ATAACTAATA
*
9079560 TAAATAAATAGAATAATAAATCAAAGATT
1 TAAATAAATAGAATAAAAAATCAAAGATT
9079589 TAAA-AAATA-AATAAGAAAAT-AAAGA
1 TAAATAAATAGAATAA-AAAATCAAAGA
9079614 CGATAGGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 10 0.43
28 9 0.39
29 4 0.17
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (29 bp):
TAAATAAATAGAATAAAAAATCAAAGATT
Found at i:9083052 original size:38 final size:38
Alignment explanation
Indices: 9083004--9083123 Score: 109
Period size: 41 Copynumber: 3.0 Consensus size: 38
9082994 GGCCCGGCCC
*
9083004 ATATTTGATTAAAAATAAAAAATATATATTTAATATAT
1 ATATTGGATTAAAAATAAAAAATATATATTTAATATAT
* *
9083042 A-ATTCGGATTAAAAGTCCAAAAAATATATATATTTAATAAAAAAAT
1 ATATT-GGATTAAAAAT---AAAAA-ATATATATTTAAT----ATAT
*
9083088 ATATTTGATTAAAAAT-AAAAATATATATTTAATATA
1 ATATTGGATTAAAAATAAAAAATATATATTTAATATA
9083124 ATTTGGGCCG
Statistics
Matches: 66, Mismatches: 6, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
37 5 0.08
38 10 0.15
41 18 0.27
42 17 0.26
46 13 0.20
47 3 0.05
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (38 bp):
ATATTGGATTAAAAATAAAAAATATATATTTAATATAT
Found at i:9083107 original size:22 final size:21
Alignment explanation
Indices: 9083060--9083119 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
9083050 TTAAAAGTCC
*
9083060 AAAAAATATATATATTTAATA
1 AAAAAATATATATATTTAAAA
*
9083081 AAAAAATATATTTGA-TTAAAA
1 AAAAAATATATAT-ATTTAAAA
*
9083102 ATAAAA-ATATATATTTAA
1 AAAAAATATATATATTTAA
9083120 TATAATTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 9 0.27
21 22 0.67
22 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAAAATATATATATTTAAAA
Found at i:9083121 original size:17 final size:18
Alignment explanation
Indices: 9083061--9083104 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
9083051 TAAAAGTCCA
*
9083061 AAAAATATATATATTTAAT
1 AAAAATATATAT-TTGAAT
* *
9083080 AAAAAAATATATTTGATT
1 AAAAATATATATTTGAAT
9083098 AAAAATA
1 AAAAATA
9083105 AAAATATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAAATATATATTTGAAT
Found at i:9083388 original size:7 final size:7
Alignment explanation
Indices: 9083376--9083418 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
9083366 TTTAAAACAA
9083376 ATTTTAT
1 ATTTTAT
9083383 ATTTTATT
1 ATTTTA-T
9083391 AGTTTTAT
1 A-TTTTAT
9083399 A-TTTAT
1 ATTTTAT
9083405 ATTTTAT
1 ATTTTAT
*
9083412 AATTTAT
1 ATTTTAT
9083419 TTATTTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 6 0.19
7 17 0.53
8 4 0.12
9 5 0.16
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (7 bp):
ATTTTAT
Found at i:9083423 original size:22 final size:22
Alignment explanation
Indices: 9083378--9083425 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9083368 TAAAACAAAT
*
9083378 TTTATATTTTATTAGTTTTATA
1 TTTATATTTTATTAATTTTATA
*
9083400 TTTATATTTTA-TAATTTATTTA
1 TTTATATTTTATTAATTT-TATA
9083422 TTTA
1 TTTA
9083426 ATAAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTATATTTTATTAATTTTATA
Found at i:9083458 original size:8 final size:8
Alignment explanation
Indices: 9083447--9083484 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
9083437 GTTAAGTTGT
9083447 TAATTTTA
1 TAATTTTA
9083455 TAATTTTA
1 TAATTTTA
9083463 TAATTTTA
1 TAATTTTA
*
9083471 TAATTATA
1 TAATTTTA
9083479 -AATTTT
1 TAATTTT
9083485 GGAATATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TAATTTTA
Found at i:9083479 original size:14 final size:15
Alignment explanation
Indices: 9083375--9083484 Score: 56
Period size: 16 Copynumber: 7.4 Consensus size: 15
9083365 TTTTAAAACA
*
9083375 AATTTTATATTTTATT
1 AATTTTATAATTTA-T
*
9083391 AGTTTTAT-ATTTAT
1 AATTTTATAATTTAT
9083405 -ATTTTATAATTTAT
1 AATTTTATAATTTAT
** *
9083419 --TTATT-TAATAAAA
1 AATT-TTATAATTTAT
9083432 AATTTGT-TAAGTTGT-T
1 AATTT-TATAA-TT-TAT
9083448 AATTTTATAATTTTAT
1 AATTTTATAA-TTTAT
9083464 AATTTTATAA-TTAT
1 AATTTTATAATTTAT
9083478 AAATTTT
1 -AATTTT
9083485 GGAATATTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
13 13 0.18
14 14 0.19
15 18 0.24
16 29 0.39
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (15 bp):
AATTTTATAATTTAT
Found at i:9083873 original size:25 final size:27
Alignment explanation
Indices: 9083845--9083901 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
9083835 TCATTATTTT
* * * *
9083845 AAATATTCAAATATT-TATAATTATA-
1 AAATATTAAAAAATTATAGAATTATGA
9083870 AAATATTAAAAAATTATAGAATTATGA
1 AAATATTAAAAAATTATAGAATTATGA
9083897 AAATA
1 AAATA
9083902 AAACAACTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 13 0.50
26 8 0.31
27 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (27 bp):
AAATATTAAAAAATTATAGAATTATGA
Found at i:9084442 original size:15 final size:17
Alignment explanation
Indices: 9084414--9084445 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
9084404 TGTCCTATGA
9084414 AAATATAATAAAATATT
1 AAATATAATAAAATATT
9084431 AAATA-AAT-AAATATT
1 AAATATAATAAAATATT
9084446 TGTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATAAAATATT
Found at i:9087342 original size:3 final size:3
Alignment explanation
Indices: 9087334--9087366 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9087324 GTGTTCAACT
9087334 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
9087367 AGATCACGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:9087842 original size:13 final size:13
Alignment explanation
Indices: 9087824--9087873 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
9087814 CTGGTAATAG
9087824 TTTTGAAAAGTAT
1 TTTTGAAAAGTAT
*
9087837 TTTTGAATA-T-T
1 TTTTGAAAAGTAT
9087848 TTTGTGAAAAAGTAT
1 TTT-TG-AAAAGTAT
9087863 TTTTGAAAAGT
1 TTTTGAAAAGT
9087874 TTAGTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 4 0.13
12 3 0.10
13 17 0.55
14 3 0.10
15 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTGAAAAGTAT
Found at i:9087884 original size:27 final size:26
Alignment explanation
Indices: 9087829--9087878 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
9087819 AATAGTTTTG
* * *
9087829 AAAAGTATTTTTGAATATTTTTGTGA
1 AAAAGTATTTTTGAAAAGTTTAGTGA
9087855 AAAAGTATTTTTGAAAAGTTTAGT
1 AAAAGTATTTTTGAAAAGTTTAGT
9087879 TTAAAATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (26 bp):
AAAAGTATTTTTGAAAAGTTTAGTGA
Found at i:9100285 original size:23 final size:23
Alignment explanation
Indices: 9100267--9100311 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
9100257 CTGAACATCG
9100267 CCGAAGCGAATAACAGAACACTA
1 CCGAAGCGAATAACAGAACACTA
9100290 CCGAAGCGAATAACAGAACACT
1 CCGAAGCGAATAACAGAACACT
9100312 GCTAAAGCGG
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:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (23 bp):
CCGAAGCGAATAACAGAACACTA
Found at i:9100319 original size:23 final size:23
Alignment explanation
Indices: 9100270--9100338 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
9100260 AACATCGCCG
*
9100270 AAGCGAATAACAGAACACTACCG
1 AAGCGAATAACAGAACACTACCA
* *
9100293 AAGCGAATAACAGAACACTGCTA
1 AAGCGAATAACAGAACACTACCA
*
9100316 AAGCGGATTAACAGTAAGCACTA
1 AAGC-GAATAACAG-AA-CACTA
9100339 TATATGTTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 24 0.63
24 8 0.21
25 2 0.05
26 4 0.11
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (23 bp):
AAGCGAATAACAGAACACTACCA
Found at i:9104582 original size:40 final size:40
Alignment explanation
Indices: 9104527--9104710 Score: 271
Period size: 40 Copynumber: 4.6 Consensus size: 40
9104517 ATTATACCTG
9104527 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCT
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCT
* * *
9104567 AATTGCATATACGTGCCCTTGTTTGTACTTCAGTACCCCT
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCT
*
9104607 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCT
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCT
* *
9104647 GATTGCACATACGTGCCCCTGTTTGTA-TCTCGGTATCCCT
1 AATTGCACATACGTGCCCCTGTTTGTACT-TCGGTACCCCT
* * *
9104687 GATTGCACATACATGCCCTTGTTT
1 AATTGCACATACGTGCCCCTGTTT
9104711 ACACTTCGAT
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 130 0.99
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.35
Consensus pattern (40 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCT
Found at i:9104665 original size:20 final size:20
Alignment explanation
Indices: 9104523--9104667 Score: 87
Period size: 20 Copynumber: 7.2 Consensus size: 20
9104513 GTTAATTATA
9104523 CCTGAATTGCACATACGTGCC
1 CCTG-ATTGCACATACGTGCC
* * * *
9104544 CCTGTTTGTAC-TTCGGTACC
1 CCTGATTGCACATAC-GTGCC
* *
9104564 CCTAATTGCATATACGTGCC
1 CCTGATTGCACATACGTGCC
* * * * *
9104584 CTTGTTTGTAC-TTCAGTACC
1 CCTGATTGCACATAC-GTGCC
*
9104604 CCTAATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
* * * ** *
9104624 CCTGTTTGTACTTTGGTACC
1 CCTGATTGCACATACGTGCC
9104644 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
9104664 CCTG
1 CCTG
9104668 TTTGTATCTC
Statistics
Matches: 84, Mismatches: 36, Indels: 9
0.65 0.28 0.07
Matches are distributed among these distances:
19 4 0.05
20 72 0.86
21 8 0.10
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (20 bp):
CCTGATTGCACATACGTGCC
Found at i:9117623 original size:36 final size:36
Alignment explanation
Indices: 9117576--9117764 Score: 168
Period size: 36 Copynumber: 5.3 Consensus size: 36
9117566 AAATGAATGA
*
9117576 ACACTTATTTGTCGGTTATACCGACCAGTGCTGGGC
1 ACACTTATTTGTTGGTTATACCGACCAGTGCTGGGC
* * * **
9117612 ACACTTATTTGTTGGTTTTACCGATCAGCGCAAGGC
1 ACACTTATTTGTTGGTTATACCGACCAGTGCTGGGC
* *
9117648 GCATTTA-TTGTTGGTTATACCGACCAGTGCTGGGC
1 ACACTTATTTGTTGGTTATACCGACCAGTGCTGGGC
* * ** ***
9117683 ACACTTATTT-ATGGATTCTACCGACCAGCACAAAGC
1 ACACTTATTTGTTGG-TTATACCGACCAGTGCTGGGC
* * * * *
9117719 GCATTTA-TTGTTGGTTATACCAATCAGTGCTGAGC
1 ACACTTATTTGTTGGTTATACCGACCAGTGCTGGGC
9117754 ACACTTATTTG
1 ACACTTATTTG
9117765 GCAGTTCTAC
Statistics
Matches: 115, Mismatches: 34, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
35 52 0.45
36 63 0.55
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (36 bp):
ACACTTATTTGTTGGTTATACCGACCAGTGCTGGGC
Found at i:9117669 original size:35 final size:35
Alignment explanation
Indices: 9117576--9117810 Score: 143
Period size: 36 Copynumber: 6.6 Consensus size: 35
9117566 AAATGAATGA
* * **
9117576 ACACTTATTTGTCGGTTATACCGACCAGTGCTGGGC
1 ACACTTA-TTGTTGGTTATACCGACCAGCGCAAGGC
* *
9117612 ACACTTATTTGTTGGTTTTACCGATCAGCGCAAGGC
1 ACACTTA-TTGTTGGTTATACCGACCAGCGCAAGGC
* * * **
9117648 GCATTTATTGTTGGTTATACCGACCAGTGCTGGGC
1 ACACTTATTGTTGGTTATACCGACCAGCGCAAGGC
* * *
9117683 ACACTTATT-TATGGATTCTACCGACCAGCACAAAGC
1 ACACTTATTGT-TGG-TTATACCGACCAGCGCAAGGC
* * * * * *
9117719 GCATTTATTGTTGGTTATACCAATCAGTGC-TGAGC
1 ACACTTATTGTTGGTTATACCGACCAGCGCAAG-GC
* * * *
9117754 ACACTTATT-TGGCAGTTCTACCGACTAGCGCAAGGT
1 ACACTTATTGTTG--GTTATACCGACCAGCGCAAGGC
* * *
9117790 ACATTTCTTGTCGGTTATACC
1 ACACTTATTGTTGGTTATACC
9117811 AACTAGTGCT
Statistics
Matches: 147, Mismatches: 44, Indels: 17
0.71 0.21 0.08
Matches are distributed among these distances:
34 3 0.02
35 60 0.41
36 80 0.54
37 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (35 bp):
ACACTTATTGTTGGTTATACCGACCAGCGCAAGGC
Found at i:9117705 original size:71 final size:70
Alignment explanation
Indices: 9117584--9117905 Score: 315
Period size: 71 Copynumber: 4.5 Consensus size: 70
9117574 GAACACTTAT
* * * * *
9117584 TTGTCGGTTATACCGACCAGTGCTGGGCACACTTATTTGTTGGTTTTACCGATCAGCGCAAGGCG
1 TTGTCGGTTATACCAACCAGTGCTGAGCACACTTATTT-TTGGTTCTACCGACCAGCACAAGGCG
9117649 CATTTA
65 CATTTA
* * * * *
9117655 TTGTTGGTTATACCGACCAGTGCTGGGCACACTTATTTATGGATTCTACCGACCAGCACAAAGCG
1 TTGTCGGTTATACCAACCAGTGCTGAGCACACTTATTTTTGG-TTCTACCGACCAGCACAAGGCG
9117720 CATTTA
65 CATTTA
* * * * * *
9117726 TTGTTGGTTATACCAATCAGTGCTGAGCACACTTA-TTTGGCAGTTCTACCGACTAGCGCAAGGT
1 TTGTCGGTTATACCAACCAGTGCTGAGCACACTTATTTTTG--GTTCTACCGACCAGCACAAGGC
* *
9117790 ACATTTC
64 GCATTTA
* * * *
9117797 TTGTCGGTTATACCAACTAGTGCTGAGTAGACTTATTTTTTGGTTCTACCGACCAACACAAGGCG
1 TTGTCGGTTATACCAACCAGTGCTGAGCACACTTA-TTTTTGGTTCTACCGACCAGCACAAGGCG
*
9117862 CAATTA
65 CATTTA
* * * * * *
9117868 TTGCCAGTTATATCTACCAATG-TTAGGCACACTTATTT
1 TTGTCGGTTATACCAACCAGTGCTGA-GCACACTTATTT
9117906 GTTGATTTTA
Statistics
Matches: 206, Mismatches: 39, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
70 11 0.05
71 190 0.92
72 1 0.00
73 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (70 bp):
TTGTCGGTTATACCAACCAGTGCTGAGCACACTTATTTTTGGTTCTACCGACCAGCACAAGGCGC
ATTTA
Found at i:9117845 original size:142 final size:142
Alignment explanation
Indices: 9117584--9117906 Score: 355
Period size: 142 Copynumber: 2.3 Consensus size: 142
9117574 GAACACTTAT
* * *** * *
9117584 TTGTCGGTTATACCGACCAGTGCTGGGCACACTTATTTGTTGGTTTTACCGATCAGCGCAAGGCG
1 TTGTCGGTTATACCAACCAGTGCTGAGCACACTTATTTGGCAGTTCTACCGATCAGCGCAAGGCA
* * * *
9117649 CATTTATTGTTGGTTATACCGACCAGTGCTGGGCACACTTATTTATGGATTCTACCGACCAGCAC
66 CATTTATTGTCGGTTATACCAACCAGTGCTGAGCACACTTATTTATGGATTCTACCGACCAACAC
*
9117714 AAAGCGCATTTA
131 AAAGCGCAATTA
* * *
9117726 TTGTTGGTTATACCAATCAGTGCTGAGCACACTTATTTGGCAGTTCTACCGA-CTAGCGCAAGGT
1 TTGTCGGTTATACCAACCAGTGCTGAGCACACTTATTTGGCAGTTCTACCGATC-AGCGCAAGGC
* * * * *
9117790 ACATTTCTTGTCGGTTATACCAACTAGTGCTGAGTAGACTTATTTTTTGG-TTCTACCGACCAAC
65 ACATTTATTGTCGGTTATACCAACCAGTGCTGAGCACACTTA-TTTATGGATTCTACCGACCAAC
*
9117854 ACAAGGCGCAATTA
129 ACAAAGCGCAATTA
* * * * * *
9117868 TTGCCAGTTATATCTACCAATG-TTAGGCACACTTATTTG
1 TTGTCGGTTATACCAACCAGTGCTGA-GCACACTTATTTG
9117907 TTGATTTTAC
Statistics
Matches: 149, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
141 3 0.02
142 140 0.94
143 6 0.04
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (142 bp):
TTGTCGGTTATACCAACCAGTGCTGAGCACACTTATTTGGCAGTTCTACCGATCAGCGCAAGGCA
CATTTATTGTCGGTTATACCAACCAGTGCTGAGCACACTTATTTATGGATTCTACCGACCAACAC
AAAGCGCAATTA
Found at i:9118143 original size:28 final size:29
Alignment explanation
Indices: 9118101--9118158 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
9118091 GTGGGACATG
* *
9118101 AATTAGTTGATTATTTAGCAATATGATTA
1 AATTAGTTGACTATTCAGCAATATGATTA
*
9118130 AATT-GTTGACTATTCCGCAATATGATTA
1 AATTAGTTGACTATTCAGCAATATGATTA
9118158 A
1 A
9118159 GTTTTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (29 bp):
AATTAGTTGACTATTCAGCAATATGATTA
Found at i:9119986 original size:23 final size:23
Alignment explanation
Indices: 9119959--9120005 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9119949 TGCCCCTCGA
*
9119959 GGTTAAATGATTGTTTTGTCTGT
1 GGTTAAATGATTGATTTGTCTGT
* *
9119982 GGTTAATTTATTGATTTGTCTGT
1 GGTTAAATGATTGATTTGTCTGT
9120005 G
1 G
9120006 TTTGGTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.04, G:0.26, T:0.53
Consensus pattern (23 bp):
GGTTAAATGATTGATTTGTCTGT
Found at i:9120146 original size:27 final size:27
Alignment explanation
Indices: 9120108--9120172 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
9120098 ATGGAGGAAG
9120108 TACTG-TACTGGTGGCTCT-GCCACA-A
1 TACTGTTACTGGTGGCT-TGGCCACATA
9120133 TCACTGTTACTGGTGGCTTGGCCACATA
1 T-ACTGTTACTGGTGGCTTGGCCACATA
*
9120161 TACTATTACTGG
1 TACTGTTACTGG
9120173 CAGCTTTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.14
27 27 0.77
28 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTGGCCACATA
Found at i:9120178 original size:27 final size:27
Alignment explanation
Indices: 9120126--9120178 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
9120116 TGGTGGCTCT
* **
9120126 GCCACAATCACTGTTACTGGTGGCTTG
1 GCCACAATCACTATTACTGGCAGCTTG
9120153 GCCACATAT-ACTATTACTGGCAGCTT
1 GCCACA-ATCACTATTACTGGCAGCTT
9120179 TGCTGCGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTATTACTGGCAGCTTG
Found at i:9120271 original size:32 final size:32
Alignment explanation
Indices: 9120216--9120439 Score: 141
Period size: 32 Copynumber: 7.0 Consensus size: 32
9120206 GCTGCGATGC
* * **
9120216 TACTGATGGCTTTGTACTAATCATAGTACTGT
1 TACTGATGACTTTGTGCCGATCATAGTACTGT
* **
9120248 TACTGATGACTTTGTGCCGATCATATTACCAT
1 TACTGATGACTTTGTGCCGATCATAGTACTGT
* * * **
9120280 TACCGATGGCTGTGTGCCGATCATTTTACTGT
1 TACTGATGACTTTGTGCCGATCATAGTACTGT
* * * * *
9120312 TATTGATG-GTTGTATACCGATCAT-GTCACTGC
1 TACTGATGACTT-TGTGCCGATCATAGT-ACTGT
* * *
9120344 TACTGATGGCTTTGTGTCGATCAT-GTTACCGT
1 TACTGATGACTTTGTGCCGATCATAG-TACTGT
* **
9120376 TACTGATGACTATGTGCCGATCATA-TCACTAC
1 TACTGATGACTTTGTGCCGATCATAGT-ACTGT
* * * *
9120408 TACTGATGACTTTTTGCCAATCACATTACTGT
1 TACTGATGACTTTGTGCCGATCATAGTACTGT
9120440 ACTTATGGCT
Statistics
Matches: 145, Mismatches: 40, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
31 3 0.02
32 138 0.95
33 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (32 bp):
TACTGATGACTTTGTGCCGATCATAGTACTGT
Found at i:9120352 original size:64 final size:64
Alignment explanation
Indices: 9120215--9120415 Score: 170
Period size: 64 Copynumber: 3.1 Consensus size: 64
9120205 TGCTGCGATG
* * ** * * * * * *
9120215 CTACTGATGGCTTTGTACTAATCATAG-TACTGTTACTGATGACTTTGTGCCGATCATATTACCA
1 CTACTGATGGCTGTGTGCCGATCAT-GTTACCGTTACTGATGACTATATACCGATCATATCACTA
* * * * * ** * * *
9120279 TTACCGATGGCTGTGTGCCGATCATTTTACTGTTATTGATGGTTGTATACCGATCATGTCACTG
1 CTACTGATGGCTGTGTGCCGATCATGTTACCGTTACTGATGACTATATACCGATCATATCACTA
* * * *
9120343 CTACTGATGGCTTTGTGTCGATCATGTTACCGTTACTGATGACTATGTGCCGATCATATCACTA
1 CTACTGATGGCTGTGTGCCGATCATGTTACCGTTACTGATGACTATATACCGATCATATCACTA
9120407 CTACTGATG
1 CTACTGATG
9120416 ACTTTTTGCC
Statistics
Matches: 105, Mismatches: 31, Indels: 2
0.76 0.22 0.01
Matches are distributed among these distances:
64 105 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (64 bp):
CTACTGATGGCTGTGTGCCGATCATGTTACCGTTACTGATGACTATATACCGATCATATCACTA
Found at i:9120415 original size:96 final size:96
Alignment explanation
Indices: 9120235--9120415 Score: 229
Period size: 96 Copynumber: 1.9 Consensus size: 96
9120225 CTTTGTACTA
* * *
9120235 ATCATAGTACTGTTACTGATGACTTTGTGCCGATCATATTACCATTACCGATGGCTGTGTGCCGA
1 ATCATAGTACTGCTACTGATGACTTTGTGCCGATCATATTACCATTACCGATGACTATGTGCCGA
* * ** *
9120300 TCATTTTACTGTTATTGATGGTTGTATACCG
66 TCATATCACTACTACTGATGGTTGTATACCG
* * * * *
9120331 ATCAT-GTCACTGCTACTGATGGCTTTGTGTCGATCATGTTACCGTTACTGATGACTATGTGCCG
1 ATCATAGT-ACTGCTACTGATGACTTTGTGCCGATCATATTACCATTACCGATGACTATGTGCCG
9120395 ATCATATCACTACTACTGATG
65 ATCATATCACTACTACTGATG
9120416 ACTTTTTGCC
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
95 2 0.03
96 69 0.97
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (96 bp):
ATCATAGTACTGCTACTGATGACTTTGTGCCGATCATATTACCATTACCGATGACTATGTGCCGA
TCATATCACTACTACTGATGGTTGTATACCG
Found at i:9126852 original size:17 final size:18
Alignment explanation
Indices: 9126825--9126860 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
9126815 GGTAGAAAAT
9126825 GGGCAGACTTCGTCAATC
1 GGGCAGACTTCGTCAATC
9126843 GGGC-GACTTCGTCAATC
1 GGGCAGACTTCGTCAATC
9126860 G
1 G
9126861 ATCTACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.22
Consensus pattern (18 bp):
GGGCAGACTTCGTCAATC
Found at i:9131719 original size:3 final size:3
Alignment explanation
Indices: 9131705--9131763 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
9131695 TAATATAATA
* *
9131705 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TAC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
9131753 TTC TTC TTC TT
1 TTC TTC TTC TT
9131764 TTACAAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:9134100 original size:22 final size:22
Alignment explanation
Indices: 9134075--9134121 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
9134065 GAGTTGTGGA
9134075 GGACCGGAGGTGGATCGGTGCC
1 GGACCGGAGGTGGATCGGTGCC
*
9134097 GGACCGGAGGTGGATTGGTGCC
1 GGACCGGAGGTGGATCGGTGCC
9134119 GGA
1 GGA
9134122 GGTGAAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.19, G:0.51, T:0.15
Consensus pattern (22 bp):
GGACCGGAGGTGGATCGGTGCC
Found at i:9134254 original size:22 final size:22
Alignment explanation
Indices: 9134229--9134270 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
9134219 GTGGAGAACT
9134229 GGAGGTGGATCAGTGCCGGACC
1 GGAGGTGGATCAGTGCCGGACC
*
9134251 GGAGGTGGATCGGTGCCGGA
1 GGAGGTGGATCAGTGCCGGA
9134271 GGTGAAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.19, G:0.50, T:0.14
Consensus pattern (22 bp):
GGAGGTGGATCAGTGCCGGACC
Found at i:9135176 original size:17 final size:19
Alignment explanation
Indices: 9135150--9135184 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9135140 CCACCCTCTG
9135150 TTTTTCAGTTTT-ACTTTA
1 TTTTTCAGTTTTAACTTTA
9135168 TTTTT-AGTTTTAACTTT
1 TTTTTCAGTTTTAACTTT
9135185 TAAAAGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.17, C:0.09, G:0.06, T:0.69
Consensus pattern (19 bp):
TTTTTCAGTTTTAACTTTA
Found at i:9138658 original size:16 final size:16
Alignment explanation
Indices: 9138637--9138675 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
9138627 ATTTAAATTT
9138637 AAAAAAGAAAAAAGAA
1 AAAAAAGAAAAAAGAA
*
9138653 AAAAAAG-AAACAGAA
1 AAAAAAGAAAAAAGAA
*
9138668 AGAAAAGA
1 AAAAAAGA
9138676 TCGGAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAGAA
Found at i:9139083 original size:6 final size:6
Alignment explanation
Indices: 9139072--9139106 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
9139062 TTATGAGTGT
*
9139072 TATATG TATATG TATATG TATATG TATATA TATAT
1 TATATG TATATG TATATG TATATG TATATG TATAT
9139107 TTCTCTATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:9149982 original size:18 final size:17
Alignment explanation
Indices: 9149946--9149985 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9149936 TAAAAAAAAT
9149946 ATAATTTTATCATTTTA
1 ATAATTTTATCATTTTA
9149963 ATAA-TTTAT-ATCTTT-
1 ATAATTTTATCAT-TTTA
9149978 ATAATTTT
1 ATAATTTT
9149986 GAAAGGACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.29
16 11 0.52
17 4 0.19
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTATCATTTTA
Found at i:9150517 original size:11 final size:11
Alignment explanation
Indices: 9150491--9150548 Score: 71
Period size: 11 Copynumber: 5.2 Consensus size: 11
9150481 AACTAATCCT
*
9150491 CTCTCAAATTTT
1 CTCTC-AATTTC
9150503 CTCTCAATTTC
1 CTCTCAATTTC
*
9150514 CTCTAAATTTC
1 CTCTCAATTTC
*
9150525 CTCTCAATTTG
1 CTCTCAATTTC
*
9150536 CTCTCAAATTC
1 CTCTCAATTTC
9150547 CT
1 CT
9150549 TCCAAATTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
11 35 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:9150548 original size:22 final size:23
Alignment explanation
Indices: 9150491--9150545 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
9150481 AACTAATCCT
*
9150491 CTCTCAAATTTTCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
9150514 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
9150536 CTCTCAAATT
1 CTCTCAAATT
9150546 CCTTCCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:9150583 original size:51 final size:51
Alignment explanation
Indices: 9150526--9150625 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
9150516 CTAAATTTCC
9150526 TCTCAATTTGCTCTCAAATTCCT-TCCAAATTTCTCTGAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTGAAATCCATATTTAA
* * * * *
9150577 TCTCAATTTGCTTTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTGAAATCCATATTT
9150626 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.03, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTGAAATCCATATTTAA
Found at i:9151035 original size:7 final size:7
Alignment explanation
Indices: 9151025--9151058 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
9151015 TATTTTTTAT
*
9151025 TTTTAAG
1 TTTTAAA
9151032 TTTT-AA
1 TTTTAAA
9151038 TTTTAAA
1 TTTTAAA
9151045 TTTTAAA
1 TTTTAAA
9151052 TTTTAAA
1 TTTTAAA
9151059 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Found at i:9151041 original size:13 final size:13
Alignment explanation
Indices: 9151019--9151058 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
9151009 TAAATATATT
* *
9151019 TTTTATTTTTAAG
1 TTTTAATTTTAAA
9151032 TTTTAATTTTAAA
1 TTTTAATTTTAAA
9151045 TTTTAAATTTTAAA
1 TTTT-AATTTTAAA
9151059 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
TTTTAATTTTAAA
Found at i:9151069 original size:28 final size:28
Alignment explanation
Indices: 9151038--9151096 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
9151028 TAAGTTTTAA
*
9151038 TTTTAAATTTTAAATTTTAAAATATTTT
1 TTTTAAATTTTAAATTTTAAAATAATTT
** * *
9151066 TTTTATTTTTTTATTTTTAAAATAATTT
1 TTTTAAATTTTAAATTTTAAAATAATTT
9151094 TTT
1 TTT
9151097 AATGTTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTTAAATTTTAAATTTTAAAATAATTT
Found at i:9153251 original size:21 final size:21
Alignment explanation
Indices: 9153246--9153771 Score: 547
Period size: 22 Copynumber: 25.0 Consensus size: 21
9153236 TAAAAACCCT
9153246 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
9153267 AACTCTAACCCTTGAA-TTAAA
1 AACCCTAACCCTT-AACTTAAA
*
9153288 AACCCTAAACCCTTGACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
9153310 AACCATAAATCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
9153332 AACTCTAAACCCTAAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
9153354 AACCTTAACTCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
9153375 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
9153397 AACCCTAACCC----C-T--A
1 AACCCTAACCCTTAACTTAAA
*
9153411 AACCCTAACCCTTAA-ATAAA
1 AACCCTAACCCTTAACTTAAA
* *
9153431 AACCCTAACCTTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
9153452 AACCCTAACCCTTGAA-TTAAA
1 AACCCTAACCCTT-AACTTAAA
*
9153473 AATCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
9153495 AA-CC-AATCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
9153514 AACCCTAAACCTTTAACTT-AA
1 AACCCT-AACCCTTAACTTAAA
*
9153535 AACCCTAAACTCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
9153557 AACCCTAATCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
* *
9153578 AACCCTAAACCTTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
9153600 AATCATAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAA
9153622 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
9153644 AACTCTAACCCTTGACTTTAAA
1 AACCCTAACCCTTAAC-TTAAA
* * *
9153666 ACCCCAAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAA
9153687 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
9153709 AACCCTAACTCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
9153730 AACCCTAACTCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
9153751 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
9153772 TATAATTCTT
Statistics
Matches: 427, Mismatches: 56, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
14 12 0.03
16 1 0.00
17 1 0.00
18 1 0.00
19 15 0.04
20 17 0.04
21 182 0.43
22 198 0.46
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.26
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:9153255 original size:27 final size:27
Alignment explanation
Indices: 9153225--9153278 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
9153215 ACAAACCTTA
9153225 AACCCTTAACTTAAAAACCCTAACCCT
1 AACCCTTAACTTAAAAACCCTAACCCT
*
9153252 AACCCTTAACTTAAAAACTCTAACCCT
1 AACCCTTAACTTAAAAACCCTAACCCT
9153279 TGAATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (27 bp):
AACCCTTAACTTAAAAACCCTAACCCT
Found at i:9153307 original size:43 final size:43
Alignment explanation
Indices: 9153225--9153771 Score: 572
Period size: 43 Copynumber: 12.9 Consensus size: 43
9153215 ACAAACCTTA
*
9153225 AACCCTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAACTCT
1 AACCCTTAACTTAAAAACCCT-A----AACCCTTAACTTAAAAACCCT
* *
9153273 AACCCTTGAA-TTAAAAACCCTAAACCCTTGACTTAAAAACCAT
1 AACCCTT-AACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * * * *
9153316 AAATCCTTAACCTAAAAACTCTAAACCCTAAACTTAAAAACCTT
1 -AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* *
9153360 AACTCTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
*
9153403 AACCC----C-T--AAACCCT-AACCCTTAA-ATAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * *
9153437 AACCTTTAACTTTAAAACCCT-AACCCTTGAA-TTAAAAATCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTT-AACTTAAAAACCCT
* *
9153479 AAACCCTTAACTTAAAAA-CC--AATCTTTAACTTAAAAACCCT
1 -AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* *
9153520 AAACCTTTAACTT-AAAACCCTAAACTCTTAACTTAAAAACCCT
1 -AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * * * * *
9153563 AATCCTTAACTTTAAAACCCTAAACCTTTAACTTTAAAATCAT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* *
9153606 AAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACTCT
1 -AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
* * * *
9153650 AACCCTTGACTTTAAAACCCCAAACCCTTAACCTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
*
9153693 AAACCCTTAACTTAAAAACCCT-AACTCTTAACTTAAAAACCCT
1 -AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
*
9153736 AACTCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
9153772 TATAATTCTT
Statistics
Matches: 422, Mismatches: 58, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
34 14 0.03
35 9 0.02
36 7 0.02
38 2 0.00
39 2 0.00
40 6 0.01
41 43 0.10
42 57 0.14
43 174 0.41
44 87 0.21
47 1 0.00
48 18 0.04
49 2 0.00
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.26
Consensus pattern (43 bp):
AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT
Found at i:9153413 original size:14 final size:14
Alignment explanation
Indices: 9153396--9153426 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9153386 CTTAACTTAA
9153396 AAACCCTAACCCCT
1 AAACCCTAACCCCT
*
9153410 AAACCCTAACCCTT
1 AAACCCTAACCCCT
9153424 AAA
1 AAA
9153427 TAAAAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCCTAACCCCT
Found at i:9159762 original size:3 final size:3
Alignment explanation
Indices: 9159756--9159784 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9159746 ATTGAAATGC
9159756 TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
9159785 ACCGGTGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.66, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:9171535 original size:74 final size:74
Alignment explanation
Indices: 9171414--9171560 Score: 267
Period size: 74 Copynumber: 2.0 Consensus size: 74
9171404 CAGAAATTCA
* * *
9171414 CAAGTATAAAAGCCAGTGTGAAGTTGACAATGTGATTCTGTTCTTATAATTCTGTGCATTCTTGA
1 CAAGTAGAAAAGCCAGTGTGAAGCTGACAATGTGATTCTCTTCTTATAATTCTGTGCATTCTTGA
9171479 TCTTGTTTC
66 TCTTGTTTC
9171488 CAAGTAGAAAAGCCAGTGTGAAGCTGACAATGTGATTCTCTTCTTATAATTCTGTGCATTCTTGA
1 CAAGTAGAAAAGCCAGTGTGAAGCTGACAATGTGATTCTCTTCTTATAATTCTGTGCATTCTTGA
9171553 TCTTGTTT
66 TCTTGTTT
9171561 ATTACAAATC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (74 bp):
CAAGTAGAAAAGCCAGTGTGAAGCTGACAATGTGATTCTCTTCTTATAATTCTGTGCATTCTTGA
TCTTGTTTC
Found at i:9172113 original size:7 final size:7
Alignment explanation
Indices: 9172101--9172127 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9172091 GAAAAAGCAC
9172101 TTACACG
1 TTACACG
9172108 TTACACG
1 TTACACG
9172115 TTACACG
1 TTACACG
9172122 TTACAC
1 TTACAC
9172128 CTAATATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (7 bp):
TTACACG
Found at i:9172540 original size:21 final size:21
Alignment explanation
Indices: 9172507--9172547 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9172497 ATCACCTCGG
*
9172507 TCCTCTTCATCTCCATCTCCA
1 TCCTCATCATCTCCATCTCCA
* *
9172528 TCCTCATCGTCTCTATCTCC
1 TCCTCATCATCTCCATCTCC
9172548 CTCGCCATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.46, G:0.02, T:0.39
Consensus pattern (21 bp):
TCCTCATCATCTCCATCTCCA
Found at i:9176365 original size:16 final size:16
Alignment explanation
Indices: 9176343--9176411 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
9176333 TTTGGTTCGC
9176343 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
9176359 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9176375 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
9176392 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9176408 TGTA
1 TGTA
9176412 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9176389 original size:33 final size:32
Alignment explanation
Indices: 9176343--9176411 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
9176333 TTTGGTTCGC
9176343 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
9176375 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
9176408 TGTA
1 TGTA
9176412 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:9176476 original size:44 final size:45
Alignment explanation
Indices: 9176392--9176482 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
9176382 GGATTAGAGG
* * *
9176392 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
9176437 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
9176481 TG
1 TG
9176483 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:9176668 original size:18 final size:17
Alignment explanation
Indices: 9176647--9176681 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9176637 TTATTATTAA
*
9176647 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9176665 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9176682 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9176788 original size:18 final size:17
Alignment explanation
Indices: 9176767--9176801 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9176757 TTATTATTAA
*
9176767 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9176785 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9176802 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9177137 original size:120 final size:120
Alignment explanation
Indices: 9176630--9177089 Score: 771
Period size: 120 Copynumber: 3.8 Consensus size: 120
9176620 ATCATATTTA
*
9176630 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
9176695 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
9176750 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
9176815 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
9176870 AACATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAGTAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAATAATT-A
* * * *
9176934 ATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
9176990 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAAT-ATTAA
1 AACATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAATAATT-A
*
9177054 ATATTCTTATATGAATTTTCTAAAATCATAATATAT
65 ATATTCTTATATGAATTTACTAAAATCATAATATAT
9177090 ATAATACTAC
Statistics
Matches: 329, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
119 3 0.01
120 326 0.99
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:9177216 original size:14 final size:15
Alignment explanation
Indices: 9177197--9177229 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9177187 CATTATTCTT
*
9177197 AAAATTCAAAAA-TA
1 AAAATTAAAAAACTA
9177211 AAAATTAAAAAACTA
1 AAAATTAAAAAACTA
9177226 AAAA
1 AAAA
9177230 ATTTAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATTAAAAAACTA
Found at i:9177699 original size:58 final size:58
Alignment explanation
Indices: 9177576--9177725 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
9177566 AAAGTTGCTA
* **
9177576 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACTACCAGCATGTCAAGGATTAAATT
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
* * * *
9177634 TGTTTTGGCACCAAAAGTAAACCACAAGTCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-CAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
*
9177693 TGTTTGGGCACTAAAAGCAACCGCAA-TCACAAG
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAG
9177726 CCACAAGTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
Found at i:9181748 original size:13 final size:13
Alignment explanation
Indices: 9181730--9181756 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9181720 CATACCAATC
9181730 ATTATGCTAAGCT
1 ATTATGCTAAGCT
9181743 ATTATGCTAAGCT
1 ATTATGCTAAGCT
9181756 A
1 A
9181757 CCAAACTTTA
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:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTATGCTAAGCT
Found at i:9182390 original size:43 final size:43
Alignment explanation
Indices: 9182321--9182406 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
9182311 TCATATCTCA
9182321 TTTCTCATATCATAATTATTTATCATATTTGT-CATTTCAATAT
1 TTTCTCATATCATAATTATTTATCATATTT-TCCATTTCAATAT
* *
9182364 TTTCTCATTTCAT-ATTCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATATCATAATT-ATTTATCATATTTTCCATTTCAATAT
9182407 CAATCACATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 4 0.10
43 35 0.90
ACGTcount: A:0.27, C:0.17, G:0.01, T:0.55
Consensus pattern (43 bp):
TTTCTCATATCATAATTATTTATCATATTTTCCATTTCAATAT
Found at i:9182813 original size:17 final size:17
Alignment explanation
Indices: 9182788--9182830 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
9182778 AATCACATTT
*
9182788 TTTCTTAATACACATATA
1 TTTCATAATACA-ATATA
9182806 -TTCATAAT-CAATATA
1 TTTCATAATACAATATA
9182821 TTTCATAATA
1 TTTCATAATA
9182831 TACAAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 5 0.23
16 10 0.45
17 7 0.32
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTCATAATACAATATA
Found at i:9183105 original size:18 final size:19
Alignment explanation
Indices: 9183082--9183123 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
9183072 AATATTACAC
*
9183082 ATTTTAA-CTTCACATTAT
1 ATTTTAATCTTCACACTAT
*
9183100 ATTTTAATTTTCACACTAT
1 ATTTTAATCTTCACACTAT
9183119 ATTTT
1 ATTTT
9183124 TCTTATTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTAATCTTCACACTAT
Found at i:9184402 original size:10 final size:10
Alignment explanation
Indices: 9184387--9184417 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
9184377 TTATTTTATT
9184387 TTTTATTTAA
1 TTTTATTTAA
9184397 TTTTATTTAA
1 TTTTATTTAA
9184407 TTTTATGTTAA
1 TTTTAT-TTAA
9184418 AGTGGTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTTATTTAA
Found at i:9196956 original size:17 final size:18
Alignment explanation
Indices: 9196934--9196970 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
9196924 TTATTCTTTT
9196934 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
9196951 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
9196969 AT
1 AT
9196971 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:9197713 original size:9 final size:9
Alignment explanation
Indices: 9197701--9197753 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
9197691 AAAAATATAT
9197701 AAAAAATCA
1 AAAAAATCA
*
9197710 AAAAAATAA
1 AAAAAATCA
*
9197719 AAAAAATAA
1 AAAAAATCA
9197728 AAAAAATC-
1 AAAAAATCA
9197736 -AAAAATC-
1 AAAAAATCA
9197743 AAAAAATCA
1 AAAAAATCA
9197752 AA
1 AA
9197754 GTCAAAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
7 7 0.17
8 7 0.17
9 26 0.65
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAATCA
Found at i:9197722 original size:18 final size:18
Alignment explanation
Indices: 9197689--9197748 Score: 70
Period size: 17 Copynumber: 3.3 Consensus size: 18
9197679 TTCAAACTCA
9197689 AAAAAAATATATAAAAAATC
1 AAAAAAATA-A-AAAAAATC
9197709 AAAAAAATAAAAAAAAT-
1 AAAAAAATAAAAAAAATC
**
9197726 AAAAAAA-ATCAAAAATC
1 AAAAAAATAAAAAAAATC
9197743 AAAAAA
1 AAAAAA
9197749 TCAAAGTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
16 7 0.19
17 13 0.35
18 7 0.19
19 1 0.03
20 9 0.24
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAAAAATAAAAAAAATC
Found at i:9197747 original size:27 final size:28
Alignment explanation
Indices: 9197686--9197748 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
9197676 GAGTTCAAAC
*
9197686 TCAAAAAAAATATATAAAAAATCAAAAA
1 TCAAAAAAAATATAAAAAAAATCAAAAA
*
9197714 --AATAAAAAAAATAAAAAAAATCAAAAA
1 TCAA-AAAAAATATAAAAAAAATCAAAAA
9197741 TCAAAAAA
1 TCAAAAAA
9197749 TCAAAGTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 2 0.07
27 22 0.73
28 4 0.13
29 2 0.07
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.14
Consensus pattern (28 bp):
TCAAAAAAAATATAAAAAAAATCAAAAA
Found at i:9197786 original size:13 final size:12
Alignment explanation
Indices: 9197765--9197803 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
9197755 TCAAAATAGG
9197765 AAAAAAAGAAAA
1 AAAAAAAGAAAA
9197777 AAAAAGAAGAAAA
1 AAAAA-AAGAAAA
*
9197790 AGAAAAAGCAAAA
1 AAAAAAAG-AAAA
9197803 A
1 A
9197804 GGAGAGGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:9198646 original size:8 final size:8
Alignment explanation
Indices: 9198601--9198639 Score: 60
Period size: 8 Copynumber: 4.6 Consensus size: 8
9198591 TTGAGTCAAA
9198601 AAAAAGATG
1 AAAAA-ATG
9198610 AAAAAAATG
1 -AAAAAATG
9198619 AAAAAATG
1 AAAAAATG
9198627 AAAAAATG
1 AAAAAATG
9198635 AAAAA
1 AAAAA
9198640 GTAAAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 21 0.72
9 3 0.10
10 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Done.