Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 20 of 126
Found at i:5940126 original size:24 final size:23
Alignment explanation
Indices: 5940060--5940127 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
5940050 TAATTTTAAA
5940060 AATATA-TTTTA-TA-TTAATATT
1 AATATATTTTTATTATTTAAT-TT
* *
5940081 AATATATTTTTATAATTAAATTT
1 AATATATTTTTATTATTTAATTT
5940104 AA-ATAATTTTTAATTATTTAATTT
1 AATAT-ATTTTT-ATTATTTAATTT
5940128 GAATTGAGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.16
22 7 0.18
23 11 0.29
24 14 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATATATTTTTATTATTTAATTT
Found at i:5942383 original size:27 final size:27
Alignment explanation
Indices: 5942337--5942388 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
5942327 CTTAAAAATT
* * *
5942337 ATTATAACCTATTAAGATAACACGAGG
1 ATTATAACATATAAAAATAACACGAGG
*
5942364 ATTATAACATATAAAAATAATACGA
1 ATTATAACATATAAAAATAACACGA
5942389 ATACGATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (27 bp):
ATTATAACATATAAAAATAACACGAGG
Found at i:5951930 original size:37 final size:37
Alignment explanation
Indices: 5951878--5951951 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
5951868 CTTTCATAGC
*
5951878 CATGTTGACAGCACAAGAAGTAGAATAAGCAGTGCGA
1 CATGTTGACACCACAAGAAGTAGAATAAGCAGTGCGA
*
5951915 CATGTTGACTCCACAAGAAGTAGAATAAGCAGTGCGA
1 CATGTTGACACCACAAGAAGTAGAATAAGCAGTGCGA
5951952 ATGGAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.18
Consensus pattern (37 bp):
CATGTTGACACCACAAGAAGTAGAATAAGCAGTGCGA
Found at i:5954309 original size:5 final size:5
Alignment explanation
Indices: 5954299--5954324 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5954289 GATTGAATAG
5954299 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
5954325 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:5964124 original size:21 final size:21
Alignment explanation
Indices: 5964100--5964167 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
5964090 ATTTCAATTA
5964100 AAATTTATGTAATTTTTACAT
1 AAATTTATGTAATTTTTACAT
** *
5964121 AAATTTA--CCA-TTTCA-ATT
1 AAATTTATGTAATTTTTACA-T
5964139 AAAATTTATGTAATTTTTACAT
1 -AAATTTATGTAATTTTTACAT
5964161 AAATTTA
1 AAATTTA
5964168 CCATTTCAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
17 1 0.03
18 5 0.14
19 8 0.23
21 15 0.43
22 5 0.14
23 1 0.03
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (21 bp):
AAATTTATGTAATTTTTACAT
Found at i:5964126 original size:40 final size:40
Alignment explanation
Indices: 5964080--5964202 Score: 237
Period size: 40 Copynumber: 3.1 Consensus size: 40
5964070 TTTTAATACT
5964080 TAAATTTACCATTTCAATTAAAATTTATGTAATTTTTACA
1 TAAATTTACCATTTCAATTAAAATTTATGTAATTTTTACA
5964120 TAAATTTACCATTTCAATTAAAATTTATGTAATTTTTACA
1 TAAATTTACCATTTCAATTAAAATTTATGTAATTTTTACA
*
5964160 TAAATTTACCATTTCAATTAAAATTTATGTAATTATTACA
1 TAAATTTACCATTTCAATTAAAATTTATGTAATTTTTACA
5964200 TAA
1 TAA
5964203 TTTTTAAAAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (40 bp):
TAAATTTACCATTTCAATTAAAATTTATGTAATTTTTACA
Found at i:5964397 original size:16 final size:16
Alignment explanation
Indices: 5964373--5964405 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5964363 ATTAATATTT
5964373 TTATAATATTTTTATA
1 TTATAATATTTTTATA
*
5964389 TTATCATATTTTTATA
1 TTATAATATTTTTATA
5964405 T
1 T
5964406 AATCTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATAATATTTTTATA
Found at i:5965197 original size:44 final size:44
Alignment explanation
Indices: 5965149--5965235 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
5965139 TAGAAATGCC
*
5965149 ATCTTAATTTTGCATTCAATCAAATTTTGGCAGGACAGTTTGGT
1 ATCTTAATTTTGCATTCAATCAAATTTTAGCAGGACAGTTTGGT
* *
5965193 ATCTTAATTTTGCATTTAATCAAATTTTAGCAGGGCAGTTTGG
1 ATCTTAATTTTGCATTCAATCAAATTTTAGCAGGACAGTTTGG
5965236 CATGACAATC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (44 bp):
ATCTTAATTTTGCATTCAATCAAATTTTAGCAGGACAGTTTGGT
Found at i:5968364 original size:37 final size:37
Alignment explanation
Indices: 5968323--5968461 Score: 251
Period size: 37 Copynumber: 3.8 Consensus size: 37
5968313 TTTGAGTACT
5968323 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
5968360 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
5968397 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
5968434 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
5968462 TAGCTTCAGC
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:5968533 original size:45 final size:46
Alignment explanation
Indices: 5968424--5968547 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
5968414 GTGATAAGTG
* *
5968424 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
5968470 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
5968515 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
5968548 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:5972637 original size:56 final size:54
Alignment explanation
Indices: 5972556--5972765 Score: 179
Period size: 56 Copynumber: 4.0 Consensus size: 54
5972546 AATTTGATTG
*
5972556 TTTATAGAAATGTCATTTTAATTTTGCATTCAATCAAATTTTGACAGGACAGTTTA
1 TTTATAGAAATGT--TTTTAATTTTACATTCAATCAAATTTTGACAGGACAGTTTA
* * *
5972612 TTTATAGAAATGTTTTCTTAATTTTGCATTCAATCAAATTTTG---GCA-AG-ATA
1 TTTATAGAAATG-TTT-TTAATTTTACATTCAATCAAATTTTGACAGGACAGTTTA
* * * * * ** *
5972663 GTT-TAG-CA---TCTTAATTTTACATTCAATTAAATTTTGGCAGGGTAGTTTG
1 TTTATAGAAATGTTTTTAATTTTACATTCAATCAAATTTTGACAGGACAGTTTA
* *
5972712 CTTATAGAAATGTCTTTTAATTTTACATTCAATCAAATTTTGACAAGACAGTTT
1 TTTATAGAAATGT-TTTTAATTTTACATTCAATCAAATTTTGACAGGACAGTTT
5972766 GGCATCTTAA
Statistics
Matches: 122, Mismatches: 19, Indels: 27
0.73 0.11 0.16
Matches are distributed among these distances:
44 24 0.20
45 1 0.01
47 1 0.01
48 2 0.02
49 4 0.03
50 6 0.05
51 5 0.04
52 2 0.02
53 2 0.02
55 36 0.30
56 38 0.31
57 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (54 bp):
TTTATAGAAATGTTTTTAATTTTACATTCAATCAAATTTTGACAGGACAGTTTA
Found at i:5972695 original size:44 final size:44
Alignment explanation
Indices: 5972627--5972800 Score: 168
Period size: 44 Copynumber: 3.7 Consensus size: 44
5972617 AGAAATGTTT
*
5972627 TCTTAATTTTGCATTCAATCAAATTTTGGCAAGATAGTTTAGCA
1 TCTTAATTTTACATTCAATCAAATTTTGGCAAGATAGTTTAGCA
* * * *
5972671 TCTTAATTTTACATTCAATTAAATTTTGGCAGGGTAGTTTGCTTATAGAAA
1 TCTTAATTTTACATTCAATCAAATTTTGGCA----AGATAG-TT-TAG-CA
* * *
5972722 TGTCTTTTAATTTTACATTCAATCAAATTTTGACAAGACAGTTTGGCA
1 --TC--TTAATTTTACATTCAATCAAATTTTGGCAAGATAGTTTAGCA
*
5972770 TCTTAATTTTACATTCAATCAAAATTTGGCA
1 TCTTAATTTTACATTCAATCAAATTTTGGCA
5972801 GGGCAATTTG
Statistics
Matches: 105, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
44 56 0.53
46 2 0.02
48 5 0.05
49 4 0.04
50 5 0.05
51 4 0.04
53 2 0.02
55 27 0.26
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (44 bp):
TCTTAATTTTACATTCAATCAAATTTTGGCAAGATAGTTTAGCA
Found at i:5972772 original size:99 final size:100
Alignment explanation
Indices: 5972573--5972805 Score: 342
Period size: 99 Copynumber: 2.3 Consensus size: 100
5972563 AAATGTCATT
* * * * * *
5972573 TTAATTTTGCATTCAATCAAATTTTGACAGGACAGTTTATTTATAGAAATGTTTTCTTAATTTTG
1 TTAATTTTACATTCAATCAAATTTTGGCAGGGCAGTTTACTTATAGAAATGTCTTCTTAATTTTA
* *
5972638 CATTCAATCAAATTTTGGCAAGATAGTTTAGCATC
66 CATTCAATCAAATTTTGACAAGACAGTTTAGCATC
* * *
5972673 TTAATTTTACATTCAATTAAATTTTGGCAGGGTAGTTTGCTTATAGAAATGTCTT-TTAATTTTA
1 TTAATTTTACATTCAATCAAATTTTGGCAGGGCAGTTTACTTATAGAAATGTCTTCTTAATTTTA
*
5972737 CATTCAATCAAATTTTGACAAGACAGTTTGGCATC
66 CATTCAATCAAATTTTGACAAGACAGTTTAGCATC
*
5972772 TTAATTTTACATTCAATCAAAATTTGGCAGGGCA
1 TTAATTTTACATTCAATCAAATTTTGGCAGGGCA
5972806 ATTTGGCATG
Statistics
Matches: 118, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 71 0.60
100 47 0.40
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (100 bp):
TTAATTTTACATTCAATCAAATTTTGGCAGGGCAGTTTACTTATAGAAATGTCTTCTTAATTTTA
CATTCAATCAAATTTTGACAAGACAGTTTAGCATC
Found at i:5972811 original size:44 final size:44
Alignment explanation
Indices: 5972728--5972814 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
5972718 GAAATGTCTT
* *
5972728 TTAATTTTACATTCAATCAAATTTTGACAAGACAGTTTGGCATC
1 TTAATTTTACATTCAATCAAAATTTGACAAGACAATTTGGCATC
* * *
5972772 TTAATTTTACATTCAATCAAAATTTGGCAGGGCAATTTGGCAT
1 TTAATTTTACATTCAATCAAAATTTGACAAGACAATTTGGCAT
5972815 GACAATCTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (44 bp):
TTAATTTTACATTCAATCAAAATTTGACAAGACAATTTGGCATC
Found at i:5981581 original size:7 final size:7
Alignment explanation
Indices: 5981571--5981598 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
5981561 ATAAATTAAT
5981571 AATTTTA
1 AATTTTA
5981578 AATTTTA
1 AATTTTA
5981585 AATTTTA
1 AATTTTA
5981592 AATTTTA
1 AATTTTA
5981599 TTTTACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATTTTA
Found at i:5983504 original size:186 final size:186
Alignment explanation
Indices: 5983190--5983565 Score: 707
Period size: 186 Copynumber: 2.0 Consensus size: 186
5983180 TGTTCTTATT
5983190 TTGGATTTCTCTTCCTCTTACAGTATCAACCCCTCAAATGAATAAGTACATACTACATTTTCACT
1 TTGGATTTCTCTTCCTCTTACAGTATCAACCCCTCAAATGAATAAGTACATACTACATTTTCACT
5983255 TAGGTGAACCCACATTGATTGTTTCTCTGTATCTGATGGTTGTGTGTTTTTACCTATTATTTCCT
66 TAGGTGAACCCACATTGATTGTTTCTCTGTATCTGATGGTTGTGTGTTTTTACCTATTATTTCCT
*
5983320 GCTTTCGGATCCAAAGCTGCCAGCCTGAACTTCCCTTTGTTTGCATCTAGATCATC
131 GCTTTCGGATCCAAAGCTACCAGCCTGAACTTCCCTTTGTTTGCATCTAGATCATC
* *
5983376 TTGGATTTCTCTTCCTCTTACCGTATCAACCCCTCAAATGAATAAGTACATGCTACATTTTCACT
1 TTGGATTTCTCTTCCTCTTACAGTATCAACCCCTCAAATGAATAAGTACATACTACATTTTCACT
*
5983441 TAGGTGAACCCACATTGATTGTTTCTCTGTATCTGATGGTTGTGTGTTTTTAGCTATTATTTCCT
66 TAGGTGAACCCACATTGATTGTTTCTCTGTATCTGATGGTTGTGTGTTTTTACCTATTATTTCCT
*
5983506 GCTTTCGGATTCAAAGCTACCAGCCTGAACTTCCCTTTGTTTGCATCTAGATCATC
131 GCTTTCGGATCCAAAGCTACCAGCCTGAACTTCCCTTTGTTTGCATCTAGATCATC
5983562 TTGG
1 TTGG
5983566 CCTTGCTTCA
Statistics
Matches: 185, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
186 185 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (186 bp):
TTGGATTTCTCTTCCTCTTACAGTATCAACCCCTCAAATGAATAAGTACATACTACATTTTCACT
TAGGTGAACCCACATTGATTGTTTCTCTGTATCTGATGGTTGTGTGTTTTTACCTATTATTTCCT
GCTTTCGGATCCAAAGCTACCAGCCTGAACTTCCCTTTGTTTGCATCTAGATCATC
Found at i:6005267 original size:13 final size:13
Alignment explanation
Indices: 6005249--6005275 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6005239 AAGTTAGACT
6005249 AGGAAAAGATAAC
1 AGGAAAAGATAAC
6005262 AGGAAAAGATAAC
1 AGGAAAAGATAAC
6005275 A
1 A
6005276 AAGTTTAACT
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:0.63, C:0.07, G:0.22, T:0.07
Consensus pattern (13 bp):
AGGAAAAGATAAC
Found at i:6010237 original size:2 final size:2
Alignment explanation
Indices: 6010230--6010256 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6010220 TCTAACTGAA
6010230 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
6010257 GCTGTTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6012137 original size:25 final size:24
Alignment explanation
Indices: 6012101--6012167 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 24
6012091 GGGCCTGGAT
*
6012101 TATATATTAAATATATATTTTTTA
1 TATATATCAAATATATATTTTTTA
* *
6012125 TTTTTAATCAAATATATATTTTTTA
1 TATAT-ATCAAATATATATTTTTTA
*
6012150 TATATATTAAATATATAT
1 TATATATCAAATATATAT
6012168 AAAATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 15 0.42
25 21 0.58
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATATCAAATATATATTTTTTA
Found at i:6012185 original size:11 final size:11
Alignment explanation
Indices: 6012149--6012179 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6012139 TATATTTTTT
*
6012149 ATATATATTAA
1 ATATATATAAA
6012160 ATATATATAAA
1 ATATATATAAA
6012171 ATATATATA
1 ATATATATA
6012180 TGATATGGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATATATAAA
Found at i:6017848 original size:13 final size:12
Alignment explanation
Indices: 6017814--6017853 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
6017804 ATTTTATTTT
6017814 TATT-TTTAAAA
1 TATTATTTAAAA
6017825 -A-TATTTAAAA
1 TATTATTTAAAA
6017835 TATTATTATAAAA
1 TATTATT-TAAAA
6017848 TATTAT
1 TATTAT
6017854 ATTTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 8 0.32
11 1 0.04
12 4 0.16
13 11 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTATTTAAAA
Found at i:6024169 original size:16 final size:16
Alignment explanation
Indices: 6024148--6024183 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6024138 TATCACATTC
6024148 AACCTATATTTATTTA
1 AACCTATATTTATTTA
6024164 AACCTATATTTATTTA
1 AACCTATATTTATTTA
6024180 AACC
1 AACC
6024184 CCTTCTCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (16 bp):
AACCTATATTTATTTA
Found at i:6024400 original size:11 final size:11
Alignment explanation
Indices: 6024384--6024410 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6024374 AAATCTAAAG
6024384 TTTTAAAATTA
1 TTTTAAAATTA
6024395 TTTTAAAATTA
1 TTTTAAAATTA
6024406 TTTTA
1 TTTTA
6024411 TGTGTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:6024950 original size:21 final size:22
Alignment explanation
Indices: 6024919--6024959 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6024909 GCTTGGTTTT
6024919 TTAAGTGTTTAATGATAGATTA
1 TTAAGTGTTTAATGATAGATTA
*
6024941 TTAAG-GTTTAATGTTAGAT
1 TTAAGTGTTTAATGATAGAT
6024960 ATACAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (22 bp):
TTAAGTGTTTAATGATAGATTA
Found at i:6025652 original size:25 final size:25
Alignment explanation
Indices: 6025613--6025692 Score: 128
Period size: 25 Copynumber: 3.2 Consensus size: 25
6025603 TTTTATGAGT
6025613 TTACCG-T-TTCAGCTCGATAGAGC
1 TTACCGTTCTTCAGCTCGATAGAGC
6025636 TTACCGTTCTTCAGCTCGATAGAGC
1 TTACCGTTCTTCAGCTCGATAGAGC
*
6025661 TTACCGTTCTTCAGCTCGAAATGAGC
1 TTACCGTTCTTCAGCTCGATA-GAGC
6025687 TTACCG
1 TTACCG
6025693 ATCATGGCTC
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
23 6 0.11
24 1 0.02
25 36 0.68
26 10 0.19
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (25 bp):
TTACCGTTCTTCAGCTCGATAGAGC
Found at i:6030827 original size:25 final size:25
Alignment explanation
Indices: 6030799--6030875 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
6030789 CCTTAGAGCA
* *
6030799 CTCTCTGATTATTAACACGTTAGTG
1 CTCTCCGATTATTAACACATTAGTG
*
6030824 CTCTCCGATTATTAGCACATTAGTG
1 CTCTCCGATTATTAACACATTAGTG
* * *
6030849 CCCTCCG--T-TTAGCACATTTGTG
1 CTCTCCGATTATTAACACATTAGTG
6030871 CTCTC
1 CTCTC
6030876 TGTATATTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 17 0.37
23 1 0.02
25 28 0.61
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (25 bp):
CTCTCCGATTATTAACACATTAGTG
Found at i:6032496 original size:18 final size:18
Alignment explanation
Indices: 6032473--6032507 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6032463 CCGAAACTTC
6032473 ATTTTAAT-TTTTATACAA
1 ATTTTAATATTTT-TACAA
6032491 ATTTTAATATTTTTACA
1 ATTTTAATATTTTTACA
6032508 CAAAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATATTTTTACAA
Found at i:6032913 original size:20 final size:19
Alignment explanation
Indices: 6032858--6032915 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
6032848 AATTAAAAAA
*
6032858 AAAAAACTAAAATAATTAAT
1 AAAAAA-TAAAATAAATAAT
*
6032878 AAAAAATAGAAA-AAATCAT
1 AAAAAATA-AAATAAATAAT
6032897 AAAAGAATAAAATAAATAA
1 AAAA-AATAAAATAAATAA
6032916 ATTATAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.19
Consensus pattern (19 bp):
AAAAAATAAAATAAATAAT
Found at i:6037639 original size:21 final size:21
Alignment explanation
Indices: 6037605--6037645 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6037595 ACATTCATTC
*
6037605 AATTTAATCTCTATTTTTTTT
1 AATTTAATCGCTATTTTTTTT
*
6037626 AATTTGATCGCTATTTTTTT
1 AATTTAATCGCTATTTTTTT
6037646 ATTTGAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.10, G:0.05, T:0.63
Consensus pattern (21 bp):
AATTTAATCGCTATTTTTTTT
Found at i:6037774 original size:21 final size:20
Alignment explanation
Indices: 6037750--6037797 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
6037740 TTTTTAATAT
*
6037750 TAAAAAAAATCATAAAAATTA
1 TAAAAAAAATCATAAAAA-AA
* *
6037771 TAAACAAAATTTATAAAAAAA
1 TAAA-AAAAATCATAAAAAAA
6037792 TAAAAA
1 TAAAAA
6037798 TACTGACCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 9 0.39
22 12 0.52
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAAAAAATCATAAAAAAA
Found at i:6038564 original size:14 final size:15
Alignment explanation
Indices: 6038536--6038566 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
6038526 CACATATCAA
6038536 ATTTCTATGTATTTC
1 ATTTCTATGTATTTC
6038551 ATTTCTAT-TATTTC
1 ATTTCTATGTATTTC
6038565 AT
1 AT
6038567 CAACATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTTCTATGTATTTC
Found at i:6041227 original size:15 final size:15
Alignment explanation
Indices: 6041209--6041239 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6041199 ATATTATTAT
*
6041209 TTTTTGTTAAATAAA
1 TTTTTATTAAATAAA
6041224 TTTTTATTAAATAAA
1 TTTTTATTAAATAAA
6041239 T
1 T
6041240 AAGATAATTG
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTTTATTAAATAAA
Found at i:6041506 original size:29 final size:28
Alignment explanation
Indices: 6041424--6041507 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
6041414 GTAAGTAATA
6041424 AAAAGAAAAA-AGAAATAAAAGAAGAACAG
1 AAAAGAAAAAGAGAAA-AAAAGAA-AACAG
* *
6041453 AAAAGAAACAGAGAACAAAAGGAAAACAG
1 AAAAGAAAAAGAGAA-AAAAAGAAAACAG
** *
6041482 GGAAGAAAAAGTGAAAGAAAAGAAAA
1 AAAAGAAAAAGAGAAA-AAAAGAAAA
6041508 GGGGAAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.02
29 33 0.73
30 10 0.22
31 1 0.02
ACGTcount: A:0.71, C:0.05, G:0.21, T:0.02
Consensus pattern (28 bp):
AAAAGAAAAAGAGAAAAAAAGAAAACAG
Found at i:6041868 original size:23 final size:24
Alignment explanation
Indices: 6041833--6041877 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
6041823 AATATGGCAA
6041833 GAAATTAAGTAGAAAAG-AAGTAT
1 GAAATTAAGTAGAAAAGTAAGTAT
6041856 GAAA-TAAGCTAGAAAAGTAAGT
1 GAAATTAAG-TAGAAAAGTAAGT
6041878 GAGCTTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (24 bp):
GAAATTAAGTAGAAAAGTAAGTAT
Found at i:6042158 original size:24 final size:23
Alignment explanation
Indices: 6042131--6042175 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
6042121 ATCATGGGAC
6042131 ATTT-AAAGTAAGGTAAGTAATAAT
1 ATTTGAAAGTAA-GTAAG-AATAAT
*
6042155 ATTTGAAATTAAGTAAGAATA
1 ATTTGAAAGTAAGTAAGAATA
6042176 TGTGTGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 9 0.47
25 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (23 bp):
ATTTGAAAGTAAGTAAGAATAAT
Found at i:6046081 original size:21 final size:23
Alignment explanation
Indices: 6046040--6046082 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6046030 GAGATAAAAA
6046040 GGAAAATAGAAACAGAAATGAAG
1 GGAAAATAGAAACAGAAATGAAG
6046063 GGAAAATA-AAACA-AAATGAA
1 GGAAAATAGAAACAGAAATGAA
6046083 ATAATGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.65, C:0.05, G:0.21, T:0.09
Consensus pattern (23 bp):
GGAAAATAGAAACAGAAATGAAG
Found at i:6046439 original size:30 final size:29
Alignment explanation
Indices: 6046405--6046468 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
6046395 AATTTAAAAG
6046405 AATTAGATC-AAATTAAAATTTCATGTATAA
1 AATTAGA-CAAAATTAAAATTT-ATGTATAA
*
6046435 AATTATACAAAATTAAAATTTATGTATAA
1 AATTAGACAAAATTAAAATTTATGTATAA
6046464 AATTA
1 AATTA
6046469 TACATTAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (29 bp):
AATTAGACAAAATTAAAATTTATGTATAA
Found at i:6046460 original size:29 final size:30
Alignment explanation
Indices: 6046414--6046472 Score: 111
Period size: 29 Copynumber: 2.0 Consensus size: 30
6046404 GAATTAGATC
6046414 AAATTAAAATTTCATGTATAAAATTATACA
1 AAATTAAAATTTCATGTATAAAATTATACA
6046444 AAATTAAAATTT-ATGTATAAAATTATACA
1 AAATTAAAATTTCATGTATAAAATTATACA
6046473 TTAAACTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTAAAATTTCATGTATAAAATTATACA
Found at i:6049548 original size:72 final size:72
Alignment explanation
Indices: 6049431--6049572 Score: 257
Period size: 72 Copynumber: 2.0 Consensus size: 72
6049421 TAAGGATGAT
6049431 GTCTACTGTCTAGTCGATATCTGACTTCTAGCTTACAGAGCAATTTCCGTAACTTAACTGCAGAA
1 GTCTACTGTCTAGTCGATATCTGACTTCTAGCTTACAGAGCAATTTCCGTAACTTAACTGCAGAA
6049496 AGCCTTA
66 AGCCTTA
* * *
6049503 GTCTACTTTCTTGTCGATATCTGTCTTCTAGCTTACAGAGCAATTTCCGTAACTTAACTGCAGAA
1 GTCTACTGTCTAGTCGATATCTGACTTCTAGCTTACAGAGCAATTTCCGTAACTTAACTGCAGAA
6049568 AGCCT
66 AGCCT
6049573 ACATCTTCCT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (72 bp):
GTCTACTGTCTAGTCGATATCTGACTTCTAGCTTACAGAGCAATTTCCGTAACTTAACTGCAGAA
AGCCTTA
Found at i:6052653 original size:19 final size:19
Alignment explanation
Indices: 6052629--6052672 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6052619 TCTTTCACAG
*
6052629 TAAAAA-ATATTAATTATTA
1 TAAAAAGATATTAA-TATGA
*
6052648 TAAAAAGTTATTAATATGA
1 TAAAAAGATATTAATATGA
6052667 TAAAAA
1 TAAAAA
6052673 TAAACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TAAAAAGATATTAATATGA
Found at i:6053492 original size:18 final size:20
Alignment explanation
Indices: 6053456--6053493 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6053446 AAACTATGTA
6053456 TATTTTTATGAATAAGTATAT
1 TATTTTTATGAAT-AGTATAT
6053477 TATTTTTAT-AAT-GTATA
1 TATTTTTATGAATAGTATA
6053494 GCATGGACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (20 bp):
TATTTTTATGAATAGTATAT
Found at i:6055546 original size:31 final size:31
Alignment explanation
Indices: 6055509--6055578 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
6055499 TATTTTTTAT
6055509 GAAGAAAATGAATCTTTTTATC-AGAGGATCA
1 GAAGAAAATGAATCTTTTTATCGA-AGGATCA
6055540 GAAGAAAATGAATCTTTTTATCGAAGGATCA
1 GAAGAAAATGAATCTTTTTATCGAAGGATCA
*
6055571 GAAAAAAA
1 GAAGAAAA
6055579 AGGGTCCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
31 36 0.97
32 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.26
Consensus pattern (31 bp):
GAAGAAAATGAATCTTTTTATCGAAGGATCA
Found at i:6061391 original size:185 final size:185
Alignment explanation
Indices: 6061079--6061450 Score: 744
Period size: 185 Copynumber: 2.0 Consensus size: 185
6061069 ATTGAAAAAT
6061079 ATTCAAAAATATAAGAGTGAAGCAATTTAATATGTGAATAATGAAATTATGATAAAAGTTTAATG
1 ATTCAAAAATATAAGAGTGAAGCAATTTAATATGTGAATAATGAAATTATGATAAAAGTTTAATG
6061144 AATGTGTTATGAGATGATGAAATATACATAAAGTATTGTAAAAGTGAAATTATAGAAAAATATTG
66 AATGTGTTATGAGATGATGAAATATACATAAAGTATTGTAAAAGTGAAATTATAGAAAAATATTG
6061209 AATTTTTATAATGATAAGGACTAAATTGTTAAACTTGAGAAAATATGTGGATGAA
131 AATTTTTATAATGATAAGGACTAAATTGTTAAACTTGAGAAAATATGTGGATGAA
6061264 ATTCAAAAATATAAGAGTGAAGCAATTTAATATGTGAATAATGAAATTATGATAAAAGTTTAATG
1 ATTCAAAAATATAAGAGTGAAGCAATTTAATATGTGAATAATGAAATTATGATAAAAGTTTAATG
6061329 AATGTGTTATGAGATGATGAAATATACATAAAGTATTGTAAAAGTGAAATTATAGAAAAATATTG
66 AATGTGTTATGAGATGATGAAATATACATAAAGTATTGTAAAAGTGAAATTATAGAAAAATATTG
6061394 AATTTTTATAATGATAAGGACTAAATTGTTAAACTTGAGAAAATATGTGGATGAA
131 AATTTTTATAATGATAAGGACTAAATTGTTAAACTTGAGAAAATATGTGGATGAA
6061449 AT
1 AT
6061451 AATAGAGTGA
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 187 1.00
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (185 bp):
ATTCAAAAATATAAGAGTGAAGCAATTTAATATGTGAATAATGAAATTATGATAAAAGTTTAATG
AATGTGTTATGAGATGATGAAATATACATAAAGTATTGTAAAAGTGAAATTATAGAAAAATATTG
AATTTTTATAATGATAAGGACTAAATTGTTAAACTTGAGAAAATATGTGGATGAA
Found at i:6061614 original size:16 final size:16
Alignment explanation
Indices: 6061595--6061628 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6061585 GACTAAATTG
6061595 AAAAGTTATGGAAGTT
1 AAAAGTTATGGAAGTT
6061611 AAAAGTTATGGAAGTT
1 AAAAGTTATGGAAGTT
6061627 AA
1 AA
6061629 TAAGAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (16 bp):
AAAAGTTATGGAAGTT
Found at i:6064901 original size:20 final size:20
Alignment explanation
Indices: 6064876--6064915 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6064866 AATTATGCTG
6064876 ATAACTCTAGTTTTACTGGA
1 ATAACTCTAGTTTTACTGGA
6064896 ATAACTCTAGTTTTACTGGA
1 ATAACTCTAGTTTTACTGGA
6064916 GCGTTTCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
ATAACTCTAGTTTTACTGGA
Found at i:6070280 original size:31 final size:32
Alignment explanation
Indices: 6070245--6070319 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 32
6070235 GGAGGAAAAC
**
6070245 TTATTGACTTAAATGCTAAATGTTGCTGTTG-
1 TTATTGACTTAAATGCTAAATGTTGCTACTGT
6070276 TTATTGACTTAAATGCTAAATGTTGCTACTGT
1 TTATTGACTTAAATGCTAAATGTTGCTACTGT
6070308 TTATTGACTTAA
1 TTATTGACTTAA
6070320 CTGTGAAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 29 0.71
32 12 0.29
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (32 bp):
TTATTGACTTAAATGCTAAATGTTGCTACTGT
Found at i:6082127 original size:5 final size:5
Alignment explanation
Indices: 6082097--6082139 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
6082087 AGAAGAGAAT
6082097 AAAGA GAAAG- AAAGAA AAATGA AAAGA AAAGA AAAGA AAAGA A
1 AAAGA -AAAGA AAAG-A AAA-GA AAAGA AAAGA AAAGA AAAGA A
6082140 TTAATATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.12
5 18 0.53
6 11 0.32
7 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:6082135 original size:15 final size:16
Alignment explanation
Indices: 6082087--6082139 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
6082077 AGGGTGTCGG
*
6082087 AGAAGAGAATAAAGAGAA
1 AGAAAAGAA-AAAGA-AA
6082105 AG-AAAGAAAAATGAAA
1 AGAAAAGAAAAA-GAAA
6082121 AGAAAAG-AAAAGAAA
1 AGAAAAGAAAAAGAAA
6082136 AGAA
1 AGAA
6082140 TTAATATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 11 0.34
17 11 0.34
18 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.04
Consensus pattern (16 bp):
AGAAAAGAAAAAGAAA
Found at i:6084980 original size:19 final size:19
Alignment explanation
Indices: 6084935--6084980 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6084925 GCCTTTTATT
*
6084935 TATTATT-TATTTTATATT
1 TATTATTATATTTTATATA
6084953 TACTT-TTATATTTTATATA
1 TA-TTATTATATTTTATATA
6084972 TATTATTAT
1 TATTATTAT
6084981 CGACCAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATTATATTTTATATA
Found at i:6086375 original size:6 final size:6
Alignment explanation
Indices: 6086364--6086397 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6086354 ACCTGTTTTT
6086364 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAG
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAG
6086398 CTTTGCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:6090313 original size:3 final size:3
Alignment explanation
Indices: 6090305--6090348 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6090295 ATACTAAACT
6090305 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6090349 TCAAATTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6105928 original size:17 final size:17
Alignment explanation
Indices: 6105908--6105941 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6105898 AATTTTTTAA
6105908 ATGTCTATGTTTTGTCC
1 ATGTCTATGTTTTGTCC
6105925 ATGTCTATGTTTTGTCC
1 ATGTCTATGTTTTGTCC
6105942 CCCAACCTCC
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:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (17 bp):
ATGTCTATGTTTTGTCC
Found at i:6108196 original size:4 final size:4
Alignment explanation
Indices: 6108187--6108223 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
6108177 TTACTTGATG
6108187 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
6108224 ATGTCCATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:6110944 original size:15 final size:17
Alignment explanation
Indices: 6110926--6110959 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
6110916 TTTTTCTCTT
6110926 AAATTATT-TTTT-ATA
1 AAATTATTATTTTAATA
6110941 AAATTATTATTTTAATA
1 AAATTATTATTTTAATA
6110958 AA
1 AA
6110960 TAAACCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTATTATTTTAATA
Found at i:6111853 original size:16 final size:18
Alignment explanation
Indices: 6111803--6111854 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
6111793 TATCAAATTT
6111803 AAAAT-TTAAAATTAATAA
1 AAAATCTTAAAATT-ATAA
*
6111821 AAAATCTTAAAAATATAA
1 AAAATCTTAAAATTATAA
*
6111839 AAATTC-T-AAATTATAA
1 AAAATCTTAAAATTATAA
6111855 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.27
17 1 0.03
18 14 0.47
19 7 0.23
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATCTTAAAATTATAA
Found at i:6116313 original size:19 final size:18
Alignment explanation
Indices: 6116272--6116313 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
6116262 TGTTAAGATG
* *
6116272 ATTATATAAAAAATTTCA
1 ATTAAATAAAAAATTTAA
6116290 A-TAAATAAAAAATATTAA
1 ATTAAATAAAAAAT-TTAA
6116308 ATTAAA
1 ATTAAA
6116314 ATATTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 11 0.55
18 5 0.25
19 4 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTAAATAAAAAATTTAA
Found at i:6119758 original size:32 final size:32
Alignment explanation
Indices: 6119722--6119802 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 32
6119712 TGGGCCAGAC
* *
6119722 CGTGTGGGCCACACGGGTAAGGCCAATCTGAG
1 CGTGTGAGCCACACGGGAAAGGCCAATCTGAG
*
6119754 CGTGTGAGCCACACGGAAAAGGCCAATCTGAG
1 CGTGTGAGCCACACGGGAAAGGCCAATCTGAG
6119786 CGTGTGAGCCACACGGG
1 CGTGTGAGCCACACGGG
6119803 CATGTGAGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.25, C:0.26, G:0.36, T:0.14
Consensus pattern (32 bp):
CGTGTGAGCCACACGGGAAAGGCCAATCTGAG
Found at i:6119815 original size:18 final size:18
Alignment explanation
Indices: 6119788--6119832 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
6119778 AATCTGAGCG
6119788 TGTGAG-CCACACGGGCA
1 TGTGAGCCCACACGGGCA
6119805 TGTGAGCCCACACGGGCA
1 TGTGAGCCCACACGGGCA
*
6119823 TGTGGGCCCA
1 TGTGAGCCCA
6119833 TAATTCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.20, C:0.31, G:0.36, T:0.13
Consensus pattern (18 bp):
TGTGAGCCCACACGGGCA
Found at i:6120545 original size:17 final size:18
Alignment explanation
Indices: 6120520--6120553 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6120510 TTACTTAATA
6120520 AATTATGG-TTTATTTAT
1 AATTATGGTTTTATTTAT
*
6120537 AATTTTGGTTTTATTTA
1 AATTATGGTTTTATTTA
6120554 GGAGTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (18 bp):
AATTATGGTTTTATTTAT
Found at i:6123440 original size:21 final size:21
Alignment explanation
Indices: 6123414--6123480 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
6123404 ATATAAATGC
*
6123414 TAAATGGAAACTCGTAAGGGT
1 TAAATGGAAACTCATAAGGGT
* * *
6123435 TAAATGGAAGCTCATAAGAGC
1 TAAATGGAAACTCATAAGGGT
* * *
6123456 TGAACGGAAACCCATAAGGGT
1 TAAATGGAAACTCATAAGGGT
6123477 TAAA
1 TAAA
6123481 CTGAAGCTCA
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.19
Consensus pattern (21 bp):
TAAATGGAAACTCATAAGGGT
Found at i:6123478 original size:42 final size:42
Alignment explanation
Indices: 6123413--6123524 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
6123403 TATATAAATG
* * * * *
6123413 CTAAATGGAAACTCGTAAGGGTTAAA-TGGAAGCTCATAAGAG
1 CTAAACGGAAACCCATAAGGGTTAAACT-GAAGCTCAAAAGAA
*
6123455 CTGAACGGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAA
1 CTAAACGGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAA
* *
6123497 CTAAACTGAAACCCAGAAGGGTTAAACT
1 CTAAACGGAAACCCATAAGGGTTAAACT
6123525 AAAACTCATA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 59 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (42 bp):
CTAAACGGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAA
Found at i:6123522 original size:21 final size:21
Alignment explanation
Indices: 6123462--6123529 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
6123452 GAGCTGAACG
*
6123462 GAAACCCATAAGGGTTAAACT
1 GAAACCCAAAAGGGTTAAACT
* * ***
6123483 GAAGCTCAAAAGAACTAAACT
1 GAAACCCAAAAGGGTTAAACT
*
6123504 GAAACCCAGAAGGGTTAAACT
1 GAAACCCAAAAGGGTTAAACT
*
6123525 AAAAC
1 GAAAC
6123530 TCATATGAGT
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.49, C:0.19, G:0.18, T:0.15
Consensus pattern (21 bp):
GAAACCCAAAAGGGTTAAACT
Found at i:6135349 original size:22 final size:21
Alignment explanation
Indices: 6135326--6135403 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 21
6135316 TCCAAACAAT
*
6135326 AACAACAAAATAGTAGCAATAT
1 AACAACAAAATAGTAGCAA-AC
* * *
6135348 AATATCAAAATGGTAGCAAAAC
1 AACAACAAAATAGTAGC-AAAC
* * * *
6135370 AACATCAAAATGGCAACAAAC
1 AACAACAAAATAGTAGCAAAC
6135391 AACAACAAAATAG
1 AACAACAAAATAG
6135404 CAGTGAAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 15 0.33
22 29 0.63
23 2 0.04
ACGTcount: A:0.59, C:0.17, G:0.10, T:0.14
Consensus pattern (21 bp):
AACAACAAAATAGTAGCAAAC
Found at i:6135392 original size:21 final size:22
Alignment explanation
Indices: 6135351--6135401 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
6135341 GCAATATAAT
* *
6135351 ATCAAAATGGTAGCAAAACAAC
1 ATCAAAATGGCAACAAAACAAC
6135373 ATCAAAATGGCAAC-AAACAAC
1 ATCAAAATGGCAACAAAACAAC
*
6135394 AACAAAAT
1 ATCAAAAT
6135402 AGCAGTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.59, C:0.20, G:0.10, T:0.12
Consensus pattern (22 bp):
ATCAAAATGGCAACAAAACAAC
Found at i:6138527 original size:21 final size:21
Alignment explanation
Indices: 6138488--6138527 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6138478 TAAACCTGAT
*
6138488 CAAAACATAACAATTTCAATC
1 CAAAACATAACAATATCAATC
6138509 CAAAACAT-ACATATATCAA
1 CAAAACATAACA-ATATCAA
6138528 CCTACTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
CAAAACATAACAATATCAATC
Found at i:6139672 original size:18 final size:17
Alignment explanation
Indices: 6139645--6139678 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6139635 ATGTATTTTA
6139645 AAATTATAAAATATAAC
1 AAATTATAAAATATAAC
*
6139662 AAATATATAAATTATAA
1 AAAT-TATAAAATATAA
6139679 GATATAGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTATAAAATATAAC
Found at i:6139764 original size:43 final size:43
Alignment explanation
Indices: 6139715--6139837 Score: 212
Period size: 43 Copynumber: 2.9 Consensus size: 43
6139705 AATCGTATAG
* *
6139715 ATGTATGTATA-ATTTAAGATTATAAAATATATATAAAGAATCT
1 ATGTATGTATATATAT-ATATTATAAAATATATATAAAGAATCT
6139758 ATGTATGTATATATATATATTATAAAATATATATAAAGAATCT
1 ATGTATGTATATATATATATTATAAAATATATATAAAGAATCT
6139801 ATGTATGTATATATATATATTATAAAATATATATAAA
1 ATGTATGTATATATATATATTATAAAATATATATAAA
6139838 AAATATGTAT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
43 74 0.96
44 3 0.04
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (43 bp):
ATGTATGTATATATATATATTATAAAATATATATAAAGAATCT
Found at i:6140985 original size:40 final size:42
Alignment explanation
Indices: 6140911--6140993 Score: 125
Period size: 40 Copynumber: 2.0 Consensus size: 42
6140901 TGAGATTGAT
*
6140911 TCTTAAGAAATAAAAAAGGAATGAATAAGTAAATAAATGGAGA
1 TCTTAAGAAATAAAAAA-GAATAAATAAGTAAATAAATGGAGA
*
6140954 TCTTGAGAAAT-AAAAA-AATAAATAAGTAAATAAATGGAGA
1 TCTTAAGAAATAAAAAAGAATAAATAAGTAAATAAATGGAGA
6140994 GCAAGCAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 23 0.61
42 5 0.13
43 10 0.26
ACGTcount: A:0.59, C:0.02, G:0.17, T:0.22
Consensus pattern (42 bp):
TCTTAAGAAATAAAAAAGAATAAATAAGTAAATAAATGGAGA
Found at i:6141994 original size:22 final size:22
Alignment explanation
Indices: 6141969--6142049 Score: 99
Period size: 22 Copynumber: 3.7 Consensus size: 22
6141959 ACCACACCAG
* *
6141969 TAGGCACCAAAGTGCTGAGCAG
1 TAGGCACCAAAGTGCTGAACAA
**
6141991 TAGGCACTGAAGTGCTGAACAA
1 TAGGCACCAAAGTGCTGAACAA
**
6142013 TAGGCACTGAAGTGCTGAACAA
1 TAGGCACCAAAGTGCTGAACAA
*
6142035 TAGGCACCATAGTGC
1 TAGGCACCAAAGTGC
6142050 AAATCAGTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.17
Consensus pattern (22 bp):
TAGGCACCAAAGTGCTGAACAA
Found at i:6142090 original size:20 final size:22
Alignment explanation
Indices: 6142045--6142093 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
6142035 TAGGCACCAT
*
6142045 AGTGCAAATCAGTAGCCATTGA
1 AGTGCAAATCAGTAGCCATCGA
*
6142067 AGTGCAAA-CAGT-GGCATCGA
1 AGTGCAAATCAGTAGCCATCGA
6142087 AGTGCAA
1 AGTGCAA
6142094 TCCTGTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.52
21 4 0.16
22 8 0.32
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (22 bp):
AGTGCAAATCAGTAGCCATCGA
Found at i:6143007 original size:15 final size:17
Alignment explanation
Indices: 6142989--6143025 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
6142979 ATTTTTTATG
6142989 TTTTAATTT-ACAT-AT
1 TTTTAATTTAACATAAT
6143004 TTTT-ATTTAACATAAT
1 TTTTAATTTAACATAAT
6143020 TTTTAA
1 TTTTAA
6143026 CTAAGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 8 0.42
16 6 0.32
17 1 0.05
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTAATTTAACATAAT
Found at i:6146088 original size:28 final size:28
Alignment explanation
Indices: 6146048--6146101 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
6146038 AGCCCCCTAA
*
6146048 AATCGCTTCTGGATAAAATGATAATTAG
1 AATCGCCTCTGGATAAAATGATAATTAG
6146076 AATCGCCTCTGGATAAAATGATAATT
1 AATCGCCTCTGGATAAAATGATAATT
6146102 TTATATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (28 bp):
AATCGCCTCTGGATAAAATGATAATTAG
Found at i:6146634 original size:19 final size:19
Alignment explanation
Indices: 6146610--6146647 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6146600 TAAAAGTATG
6146610 ATGCTATGGGAATTTATTA
1 ATGCTATGGGAATTTATTA
6146629 ATGCTATGGGAATTTATTA
1 ATGCTATGGGAATTTATTA
6146648 TCAATACTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (19 bp):
ATGCTATGGGAATTTATTA
Found at i:6146880 original size:29 final size:30
Alignment explanation
Indices: 6146847--6146923 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
6146837 TTTCTCTCGG
*
6146847 GTTACATTTTAGTCACTTATGTT-TGAAAT
1 GTTACATTTTAGTCACTTACGTTATGAAAT
* * * *
6146876 GTTACGTTTTAGTCTCTTACGTTAATGTAGT
1 GTTACATTTTAGTCACTTACGTT-ATGAAAT
*
6146907 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
6146924 GAGCTGTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 20 0.53
31 18 0.47
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.47
Consensus pattern (30 bp):
GTTACATTTTAGTCACTTACGTTATGAAAT
Found at i:6164973 original size:17 final size:15
Alignment explanation
Indices: 6164961--6164991 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6164951 AAAAAGAATT
6164961 TATTTAAAAAAAGTA
1 TATTTAAAAAAAGTA
6164976 TATTTAAAAAAAGTA
1 TATTTAAAAAAAGTA
6164991 T
1 T
6164992 TGTAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
TATTTAAAAAAAGTA
Found at i:6164992 original size:13 final size:14
Alignment explanation
Indices: 6164961--6164998 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
6164951 AAAAAGAATT
6164961 TATTTAAAAAAAGTA
1 TATTTAAAAAAAG-A
6164976 TATTTAAAAAAAG-
1 TATTTAAAAAAAGA
6164989 TATTGTAAAA
1 TATT-TAAAA
6164999 TGGTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (14 bp):
TATTTAAAAAAAGA
Found at i:6166437 original size:9 final size:9
Alignment explanation
Indices: 6166425--6166466 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
6166415 AAATTGTAAA
6166425 AAAATATAT
1 AAAATATAT
6166434 AAAATATAT
1 AAAATATAT
6166443 AAAATAT-T
1 AAAATATAT
*
6166451 AGAAA-ATGT
1 A-AAATATAT
6166460 AAAATAT
1 AAAATAT
6166467 TGTAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAATATAT
Found at i:6166737 original size:11 final size:11
Alignment explanation
Indices: 6166721--6166752 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6166711 CTCTAAAATT
6166721 CTCTCAATTTC
1 CTCTCAATTTC
*
6166732 CTCTCAATTTT
1 CTCTCAATTTC
6166743 CTCTCAATTT
1 CTCTCAATTT
6166753 GCCCTGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:6166747 original size:22 final size:22
Alignment explanation
Indices: 6166719--6166771 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
6166709 TTCTCTAAAA
*
6166719 TTCTCTCAATTT-CCTCTCAATT
1 TTCTCTCAATTTGCC-CTCAAAT
*
6166741 TTCTCTCAATTTGCCCTGAAAT
1 TTCTCTCAATTTGCCCTCAAAT
6166763 TTCTCTCAA
1 TTCTCTCAA
6166772 ATCCCTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.21, C:0.30, G:0.04, T:0.45
Consensus pattern (22 bp):
TTCTCTCAATTTGCCCTCAAAT
Found at i:6168517 original size:30 final size:30
Alignment explanation
Indices: 6168474--6168534 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6168464 ACGCAAACCT
* * *
6168474 ATCACCAAGGCCCAGACATTCACCTGGCCC
1 ATCACCAACGCCCAGACAATCACCAGGCCC
* *
6168504 ATCATCAACGCCCATACAATCACCAGGCCC
1 ATCACCAACGCCCAGACAATCACCAGGCCC
6168534 A
1 A
6168535 GCAACAGCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.43, G:0.13, T:0.13
Consensus pattern (30 bp):
ATCACCAACGCCCAGACAATCACCAGGCCC
Found at i:6172733 original size:126 final size:126
Alignment explanation
Indices: 6172477--6172755 Score: 470
Period size: 126 Copynumber: 2.2 Consensus size: 126
6172467 ACATGGGAGC
*
6172477 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTCTACTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCACATCCACGTGGGAGCTTCTTTCAGTACTTCTACTGA
* *
6172542 CAAAGCATCCTGCTTAAAACGTTTTTGACACTGTTTGCTCAGAAACATCTACTCGAAATTA
66 CAAAGCATCCTGCTTAAAACGTTTTTGACACTGTTTACTCAGAAACATCTACTCGAAATGA
* * * *
6172603 TTTTTTCAGGAGCTACTGTAGCAAAAGCACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCACATCCACGTGGGAGCTTCTTTCAGTACTTCTACTGA
* *
6172668 CAAAGCATCCTGCTTAAAGCGTTTTT-ACACTGTTTACTCAGAAACGTCTACTCGAAATGA
66 CAAAGCATCCTGCTTAAAACGTTTTTGACACTGTTTACTCAGAAACATCTACTCGAAATGA
6172728 TTTTTTCAGGAGCTACTGTAGCAAAAGC
1 TTTTTTCAGGAGCTACTGTAGCAAAAGC
6172756 GAGTTCAACC
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
125 59 0.41
126 85 0.59
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (126 bp):
TTTTTTCAGGAGCTACTGTAGCAAAAGCACATCCACGTGGGAGCTTCTTTCAGTACTTCTACTGA
CAAAGCATCCTGCTTAAAACGTTTTTGACACTGTTTACTCAGAAACATCTACTCGAAATGA
Found at i:6173670 original size:16 final size:16
Alignment explanation
Indices: 6173649--6173685 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
6173639 TTGGTTCGCT
6173649 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
6173665 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
6173681 GTAAT
1 GTAAT
6173686 AACAATTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:6173760 original size:44 final size:45
Alignment explanation
Indices: 6173667--6173761 Score: 113
Period size: 44 Copynumber: 2.1 Consensus size: 45
6173657 ATAGAGGCGT
* *
6173667 AATGGAATAGAGGCGTAATAACAATTCAATTGTTTGATTGAATGT
1 AATGGAATAGAGGCGTAATAACAATTCAATTGTTTGATTGAACGG
** * *
6173712 AATGGAATAGAGGCGTAAT-AGGATTC-TTGTGTTTGGTTGAACGG
1 AATGGAATAGAGGCGTAATAACAATTCAAT-TGTTTGATTGAACGG
6173756 AATGGA
1 AATGGA
6173762 GGTGTAATAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.53
45 19 0.44
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAACAATTCAATTGTTTGATTGAACGG
Found at i:6177260 original size:17 final size:16
Alignment explanation
Indices: 6177230--6177271 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
6177220 TTAAAAAAAT
6177230 ATTTTTTT-TATTTTC
1 ATTTTTTTCTATTTTC
6177245 ATTTTTTTCTACTTTTC
1 ATTTTTTTCTA-TTTTC
6177262 -TTTCTTTTCT
1 ATTT-TTTTCT
6177272 TTTATAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
17 11 0.46
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTTTCTATTTTC
Found at i:6178261 original size:24 final size:22
Alignment explanation
Indices: 6178208--6178262 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
6178198 TTTTCCTGAC
*
6178208 TCTTTTATTTGTTTGTCATTTT
1 TCTTTTTTTTGTTTGTCATTTT
*
6178230 TCGTTTTTTTTTGTTTTTCATTATT
1 TC--TTTTTTTTGTTTGTCATT-TT
6178255 TACTTTTT
1 T-CTTTTT
6178263 CAGTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 2 0.07
24 21 0.78
25 3 0.11
26 1 0.04
ACGTcount: A:0.09, C:0.09, G:0.07, T:0.75
Consensus pattern (22 bp):
TCTTTTTTTTGTTTGTCATTTT
Found at i:6178263 original size:15 final size:16
Alignment explanation
Indices: 6178243--6178272 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6178233 TTTTTTTTTG
6178243 TTTTTCA-TTATTTAC
1 TTTTTCAGTTATTTAC
6178258 TTTTTCAGTTATTTA
1 TTTTTCAGTTATTTA
6178273 TTTATTTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTCAGTTATTTAC
Found at i:6178373 original size:22 final size:22
Alignment explanation
Indices: 6178302--6178386 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 22
6178292 TTTTTATTGG
* * *
6178302 TTTTATAATATTTTTAATGTATA
1 TTTTA-AATATTTTAAATATAAA
* **
6178325 TTTTAAATGTTTTATAATATTATT
1 TTTTAAATATTTTA-AATA-TAAA
6178349 TTTTAAA-ATTTTAAATATAAA
1 TTTTAAATATTTTAAATATAAA
6178370 TTTTAAATTATTTTAAA
1 TTTTAAA-TATTTTAAA
6178387 AAAAATTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 9 0.18
22 11 0.22
23 21 0.41
24 10 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTAAATATTTTAAATATAAA
Found at i:6178392 original size:22 final size:21
Alignment explanation
Indices: 6178349--6178393 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
6178339 TAATATTATT
*
6178349 TTTTAAAATTTTAAATATAAA
1 TTTTAAAATTTTAAATAAAAA
6178370 TTTTAAATTATTTTAAA-AAAAA
1 TTTTAAA--ATTTTAAATAAAAA
6178392 TT
1 TT
6178394 AAATATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 6 0.29
23 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAATTTTAAATAAAAA
Found at i:6178564 original size:23 final size:22
Alignment explanation
Indices: 6178538--6178587 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6178528 ACTTTTAAAG
* *
6178538 ATATTCAAACTTTTTAAAAAATT
1 ATATTCAAA-ATTTTAAAAAATA
*
6178561 ATATTTAAAATTTTAAAAAATA
1 ATATTCAAAATTTTAAAAAATA
6178583 ATATT
1 ATATT
6178588 TTATTTGGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATTCAAAATTTTAAAAAATA
Found at i:6178656 original size:7 final size:7
Alignment explanation
Indices: 6178644--6178678 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
6178634 TTTTAATATA
6178644 AAAATTT
1 AAAATTT
6178651 AAAATTT
1 AAAATTT
6178658 AAAATTT
1 AAAATTT
6178665 AAAATTT
1 AAAATTT
6178672 AAAATTT
1 AAAATTT
6178679 TGTTTTAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:6185513 original size:40 final size:40
Alignment explanation
Indices: 6185413--6185677 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
6185403 GCTCCTCGTT
* * * *
6185413 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
6185453 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
6185492 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
6185532 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
6185572 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
6185612 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
6185653 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
6185678 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:6185637 original size:80 final size:80
Alignment explanation
Indices: 6185380--6185677 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
6185370 AAATCACGTA
* ** * * *
6185380 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
6185442 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
6185458 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
6185521 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
6185538 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
6185602 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
6185618 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
6185678 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:6185686 original size:41 final size:41
Alignment explanation
Indices: 6185609--6185686 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
6185599 TTTGTATCTC
* * *
6185609 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
6185650 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
6185687 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:6192188 original size:30 final size:32
Alignment explanation
Indices: 6192130--6192191 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
6192120 AAATAAATAA
*
6192130 TAAATAAAGGACAAATAAAAAAACTGAAAAAG
1 TAAATAAAGGACAAACAAAAAAACTGAAAAAG
*
6192162 TAAATAAAGTA-AAACAAAAAAA-TGAAAAAG
1 TAAATAAAGGACAAACAAAAAAACTGAAAAAG
6192192 GACAAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 8 0.29
31 10 0.36
32 10 0.36
ACGTcount: A:0.71, C:0.05, G:0.11, T:0.13
Consensus pattern (32 bp):
TAAATAAAGGACAAACAAAAAAACTGAAAAAG
Found at i:6192206 original size:31 final size:31
Alignment explanation
Indices: 6192146--6192206 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
6192136 AAGGACAAAT
* *
6192146 AAAAAAACTGAAAAAGTAAATAAAGTAAAAC
1 AAAAAAACTGAAAAAGGAAATAAAATAAAAC
6192177 AAAAAAA-TGAAAAAGGACAA-ACAAATAAAA
1 AAAAAAACTGAAAAAGGA-AATA-AAATAAAA
6192207 GAACAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.74, C:0.07, G:0.10, T:0.10
Consensus pattern (31 bp):
AAAAAAACTGAAAAAGGAAATAAAATAAAAC
Found at i:6192224 original size:11 final size:11
Alignment explanation
Indices: 6192195--6192231 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
6192185 GAAAAAGGAC
6192195 AAACAAATAAA
1 AAACAAATAAA
6192206 AGAACAAATAAA
1 A-AACAAATAAA
6192218 AAACAAATAAA
1 AAACAAATAAA
6192229 AAA
1 AAA
6192232 AGCAGGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.81, C:0.08, G:0.03, T:0.08
Consensus pattern (11 bp):
AAACAAATAAA
Found at i:6192232 original size:12 final size:12
Alignment explanation
Indices: 6192195--6192232 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
6192185 GAAAAAGGAC
6192195 AAACAAATAAAA
1 AAACAAATAAAA
*
6192207 GAACAAAT-AAA
1 AAACAAATAAAA
6192218 AAACAAATAAAA
1 AAACAAATAAAA
6192230 AAA
1 AAA
6192233 GCAGGGTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (12 bp):
AAACAAATAAAA
Found at i:6193045 original size:17 final size:17
Alignment explanation
Indices: 6193023--6193080 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
6193013 TTCAACATAC
6193023 TTAAAATTTTAATATAT
1 TTAAAATTTTAATATAT
6193040 TTAAAATTCTTTAAGT-T-T
1 TTAAAA-T-TTTAA-TATAT
6193058 TTAAAATTTTAA-ATAT
1 TTAAAATTTTAATATAT
6193074 ATTAAAA
1 -TTAAAA
6193081 AGTATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
15 1 0.03
16 6 0.17
17 13 0.37
18 8 0.23
19 6 0.17
20 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAAAATTTTAATATAT
Found at i:6193152 original size:40 final size:41
Alignment explanation
Indices: 6193101--6193180 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
6193091 ATTTTACGTA
*
6193101 TTAAAAAATATATTAAATATATT-AAAATTTTAATATATTT
1 TTAAAAAATATATTAAATATATTAAAAAATTTAATATATTT
*
6193141 TTAAAAAATATATTGAATATATTAAAAAATTTAATATATT
1 TTAAAAAATATATTAAATATATTAAAAAATTTAATATATT
6193181 ACAATTTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 22 0.59
41 15 0.41
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (41 bp):
TTAAAAAATATATTAAATATATTAAAAAATTTAATATATTT
Found at i:6193239 original size:18 final size:18
Alignment explanation
Indices: 6193216--6193299 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 18
6193206 TATGCTTAAC
6193216 ATTTTTTTAATATATTTA
1 ATTTTTTTAATATATTTA
*
6193234 ATTTTTTAAATATA-TT-
1 ATTTTTTTAATATATTTA
** * *
6193250 ATTAAAATTTATTATACTTA
1 ATT--TTTTTAATATATTTA
*
6193270 ACATTTTTTAATATATTTAA
1 A-TTTTTTTAATATATTT-A
6193290 ATTTTTTTAA
1 ATTTTTTTAA
6193300 GTTTTTTTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
16 3 0.06
17 2 0.04
18 20 0.41
19 20 0.41
20 3 0.06
21 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTTTAATATATTTA
Found at i:6193297 original size:19 final size:19
Alignment explanation
Indices: 6193211--6193314 Score: 74
Period size: 19 Copynumber: 5.5 Consensus size: 19
6193201 TTGTTTATGC
6193211 TTAACATTTTTTTAATATAT
1 TTAA-ATTTTTTTAATATAT
*
6193231 TT-AATTTTTTAAATATATT
1 TTAAATTTTTTTAATATA-T
* * *
6193250 ATTAAA---ATTTATTATAC
1 -TTAAATTTTTTTAATATAT
6193267 TTAACA-TTTTTTAATATAT
1 TTAA-ATTTTTTTAATATAT
* *
6193286 TTAAATTTTTTTAAGTTTTT
1 TTAAATTTTTTTAA-TATAT
6193306 TTAAATTTT
1 TTAAATTTT
6193315 AAATATATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.06
17 1 0.02
18 21 0.32
19 22 0.33
20 16 0.24
21 2 0.03
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (19 bp):
TTAAATTTTTTTAATATAT
Found at i:6200378 original size:29 final size:30
Alignment explanation
Indices: 6200317--6200382 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
6200307 AAGTACAGCA
*
6200317 ACTAAAAGTGATCAATTCAAAAAGCATAAAG
1 ACTAAAAGTGATCAAAT-AAAAAGCATAAAG
* * *
6200348 ACTAAAATTGATCAAAT-AAAAGTATAGAG
1 ACTAAAAGTGATCAAATAAAAAGCATAAAG
6200377 ACTAAA
1 ACTAAA
6200383 TTTACAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.52
31 15 0.48
ACGTcount: A:0.56, C:0.11, G:0.12, T:0.21
Consensus pattern (30 bp):
ACTAAAAGTGATCAAATAAAAAGCATAAAG
Found at i:6201071 original size:13 final size:13
Alignment explanation
Indices: 6201053--6201080 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6201043 ATAATATATT
6201053 TATTAATTAAAAA
1 TATTAATTAAAAA
6201066 TATTAATTAAAAA
1 TATTAATTAAAAA
6201079 TA
1 TA
6201081 ATAAAAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:6211885 original size:14 final size:14
Alignment explanation
Indices: 6211866--6211894 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6211856 AATGATGAGA
6211866 TTCAGCCCATTATT
1 TTCAGCCCATTATT
6211880 TTCAGCCCATTATT
1 TTCAGCCCATTATT
6211894 T
1 T
6211895 AAGGGTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (14 bp):
TTCAGCCCATTATT
Found at i:6222236 original size:970 final size:970
Alignment explanation
Indices: 6220468--6222407 Score: 3880
Period size: 970 Copynumber: 2.0 Consensus size: 970
6220458 TTTTCTTTAT
6220468 GTAATGTTTTTTTTCTTTGTATAATAATTAATAGTCTAGGCCTACTTTGATCAATGGTGGCTGTG
1 GTAATGTTTTTTTTCTTTGTATAATAATTAATAGTCTAGGCCTACTTTGATCAATGGTGGCTGTG
6220533 ATGTGCAAGCTTCGCTTTTGGGTTGTTTGAGAGTACAATTGTCCAAAGTCTAGGGTCGGAAGAGA
66 ATGTGCAAGCTTCGCTTTTGGGTTGTTTGAGAGTACAATTGTCCAAAGTCTAGGGTCGGAAGAGA
6220598 TTTTAAAAAAATAATTTTTTAACTTTTAATATGGGGAAAAAATATTTTCGGACTAAAATTAATTA
131 TTTTAAAAAAATAATTTTTTAACTTTTAATATGGGGAAAAAATATTTTCGGACTAAAATTAATTA
6220663 ATTAAATGCATAGGCCTTTCAATTTTTTATCATAAATACTTCATCTATTGGGACCCCAAAATTCT
196 ATTAAATGCATAGGCCTTTCAATTTTTTATCATAAATACTTCATCTATTGGGACCCCAAAATTCT
6220728 TTTAGTGTTTATTATATTACATTTTATAATTCTTTTAAAAGGGCTTCAATTTATTATTTCTACTT
261 TTTAGTGTTTATTATATTACATTTTATAATTCTTTTAAAAGGGCTTCAATTTATTATTTCTACTT
6220793 GGGTTTAAAAATGTCAAGAATGAACTTCATGGTGCGGTGGAATATTTTATCTAATTTCATTGTTA
326 GGGTTTAAAAATGTCAAGAATGAACTTCATGGTGCGGTGGAATATTTTATCTAATTTCATTGTTA
6220858 TCGTTGTTTTTAACCTTACCAGAAGTAAACACACCACCATCCGAACTAAGCCTAAGTAATTATTT
391 TCGTTGTTTTTAACCTTACCAGAAGTAAACACACCACCATCCGAACTAAGCCTAAGTAATTATTT
6220923 GTGTATATTTCCTCTTATATCAGCTAATTATATTTAAGTAGTTTAATACTTTTATAATTTTTTAT
456 GTGTATATTTCCTCTTATATCAGCTAATTATATTTAAGTAGTTTAATACTTTTATAATTTTTTAT
6220988 ATGTTCATAATTTGTGTAACATAAATTTTAGTACGTTTGTGTATTTATATCATATTTATATAATT
521 ATGTTCATAATTTGTGTAACATAAATTTTAGTACGTTTGTGTATTTATATCATATTTATATAATT
6221053 TTTTGTCCTTTTCGTATAATGTTTTTAGTTTCTTGGCATAATTATAAACTTCAATATTTACAATT
586 TTTTGTCCTTTTCGTATAATGTTTTTAGTTTCTTGGCATAATTATAAACTTCAATATTTACAATT
6221118 TTTTTATTTTAATTCTTATTAATTTTTTAAGTTAATTTTCATCGTTAATCTTAAAAAAATTAAAT
651 TTTTTATTTTAATTCTTATTAATTTTTTAAGTTAATTTTCATCGTTAATCTTAAAAAAATTAAAT
6221183 TATTTTTTAATATAAATATTTATTAAAATATTGCTCTAGTAAAGATGGTGTGACAATTCATATGG
716 TATTTTTTAATATAAATATTTATTAAAATATTGCTCTAGTAAAGATGGTGTGACAATTCATATGG
6221248 CAATCCACGGGTATTTTTATGCTGACGTGACAATATTTATTTTATATGCCACTACATCAACAAAT
781 CAATCCACGGGTATTTTTATGCTGACGTGACAATATTTATTTTATATGCCACTACATCAACAAAT
6221313 AATTTAAAAAATAAATTAAAAATTAAAAAAATTAAAAAAAAAAGAAAAGAAGAAGAGCACATGCA
846 AATTTAAAAAATAAATTAAAAATTAAAAAAATTAAAAAAAAAAGAAAAGAAGAAGAGCACATGCA
6221378 AAATGTCATGTGAGCTACCATGTTAAAAAATTTAACGTTTTAGTTCACATTTCCGTTAAA
911 AAATGTCATGTGAGCTACCATGTTAAAAAATTTAACGTTTTAGTTCACATTTCCGTTAAA
6221438 GTAATGTTTTTTTTCTTTGTATAATAATTAATAGTCTAGGCCTACTTTGATCAATGGTGGCTGTG
1 GTAATGTTTTTTTTCTTTGTATAATAATTAATAGTCTAGGCCTACTTTGATCAATGGTGGCTGTG
6221503 ATGTGCAAGCTTCGCTTTTGGGTTGTTTGAGAGTACAATTGTCCAAAGTCTAGGGTCGGAAGAGA
66 ATGTGCAAGCTTCGCTTTTGGGTTGTTTGAGAGTACAATTGTCCAAAGTCTAGGGTCGGAAGAGA
6221568 TTTTAAAAAAATAATTTTTTAACTTTTAATATGGGGAAAAAATATTTTCGGACTAAAATTAATTA
131 TTTTAAAAAAATAATTTTTTAACTTTTAATATGGGGAAAAAATATTTTCGGACTAAAATTAATTA
6221633 ATTAAATGCATAGGCCTTTCAATTTTTTATCATAAATACTTCATCTATTGGGACCCCAAAATTCT
196 ATTAAATGCATAGGCCTTTCAATTTTTTATCATAAATACTTCATCTATTGGGACCCCAAAATTCT
6221698 TTTAGTGTTTATTATATTACATTTTATAATTCTTTTAAAAGGGCTTCAATTTATTATTTCTACTT
261 TTTAGTGTTTATTATATTACATTTTATAATTCTTTTAAAAGGGCTTCAATTTATTATTTCTACTT
6221763 GGGTTTAAAAATGTCAAGAATGAACTTCATGGTGCGGTGGAATATTTTATCTAATTTCATTGTTA
326 GGGTTTAAAAATGTCAAGAATGAACTTCATGGTGCGGTGGAATATTTTATCTAATTTCATTGTTA
6221828 TCGTTGTTTTTAACCTTACCAGAAGTAAACACACCACCATCCGAACTAAGCCTAAGTAATTATTT
391 TCGTTGTTTTTAACCTTACCAGAAGTAAACACACCACCATCCGAACTAAGCCTAAGTAATTATTT
6221893 GTGTATATTTCCTCTTATATCAGCTAATTATATTTAAGTAGTTTAATACTTTTATAATTTTTTAT
456 GTGTATATTTCCTCTTATATCAGCTAATTATATTTAAGTAGTTTAATACTTTTATAATTTTTTAT
6221958 ATGTTCATAATTTGTGTAACATAAATTTTAGTACGTTTGTGTATTTATATCATATTTATATAATT
521 ATGTTCATAATTTGTGTAACATAAATTTTAGTACGTTTGTGTATTTATATCATATTTATATAATT
6222023 TTTTGTCCTTTTCGTATAATGTTTTTAGTTTCTTGGCATAATTATAAACTTCAATATTTACAATT
586 TTTTGTCCTTTTCGTATAATGTTTTTAGTTTCTTGGCATAATTATAAACTTCAATATTTACAATT
6222088 TTTTTATTTTAATTCTTATTAATTTTTTAAGTTAATTTTCATCGTTAATCTTAAAAAAATTAAAT
651 TTTTTATTTTAATTCTTATTAATTTTTTAAGTTAATTTTCATCGTTAATCTTAAAAAAATTAAAT
6222153 TATTTTTTAATATAAATATTTATTAAAATATTGCTCTAGTAAAGATGGTGTGACAATTCATATGG
716 TATTTTTTAATATAAATATTTATTAAAATATTGCTCTAGTAAAGATGGTGTGACAATTCATATGG
6222218 CAATCCACGGGTATTTTTATGCTGACGTGACAATATTTATTTTATATGCCACTACATCAACAAAT
781 CAATCCACGGGTATTTTTATGCTGACGTGACAATATTTATTTTATATGCCACTACATCAACAAAT
6222283 AATTTAAAAAATAAATTAAAAATTAAAAAAATTAAAAAAAAAAGAAAAGAAGAAGAGCACATGCA
846 AATTTAAAAAATAAATTAAAAATTAAAAAAATTAAAAAAAAAAGAAAAGAAGAAGAGCACATGCA
6222348 AAATGTCATGTGAGCTACCATGTTAAAAAATTTAACGTTTTAGTTCACATTTCCGTTAAA
911 AAATGTCATGTGAGCTACCATGTTAAAAAATTTAACGTTTTAGTTCACATTTCCGTTAAA
6222408 AAAACAACAG
Statistics
Matches: 970, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
970 970 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (970 bp):
GTAATGTTTTTTTTCTTTGTATAATAATTAATAGTCTAGGCCTACTTTGATCAATGGTGGCTGTG
ATGTGCAAGCTTCGCTTTTGGGTTGTTTGAGAGTACAATTGTCCAAAGTCTAGGGTCGGAAGAGA
TTTTAAAAAAATAATTTTTTAACTTTTAATATGGGGAAAAAATATTTTCGGACTAAAATTAATTA
ATTAAATGCATAGGCCTTTCAATTTTTTATCATAAATACTTCATCTATTGGGACCCCAAAATTCT
TTTAGTGTTTATTATATTACATTTTATAATTCTTTTAAAAGGGCTTCAATTTATTATTTCTACTT
GGGTTTAAAAATGTCAAGAATGAACTTCATGGTGCGGTGGAATATTTTATCTAATTTCATTGTTA
TCGTTGTTTTTAACCTTACCAGAAGTAAACACACCACCATCCGAACTAAGCCTAAGTAATTATTT
GTGTATATTTCCTCTTATATCAGCTAATTATATTTAAGTAGTTTAATACTTTTATAATTTTTTAT
ATGTTCATAATTTGTGTAACATAAATTTTAGTACGTTTGTGTATTTATATCATATTTATATAATT
TTTTGTCCTTTTCGTATAATGTTTTTAGTTTCTTGGCATAATTATAAACTTCAATATTTACAATT
TTTTTATTTTAATTCTTATTAATTTTTTAAGTTAATTTTCATCGTTAATCTTAAAAAAATTAAAT
TATTTTTTAATATAAATATTTATTAAAATATTGCTCTAGTAAAGATGGTGTGACAATTCATATGG
CAATCCACGGGTATTTTTATGCTGACGTGACAATATTTATTTTATATGCCACTACATCAACAAAT
AATTTAAAAAATAAATTAAAAATTAAAAAAATTAAAAAAAAAAGAAAAGAAGAAGAGCACATGCA
AAATGTCATGTGAGCTACCATGTTAAAAAATTTAACGTTTTAGTTCACATTTCCGTTAAA
Found at i:6231707 original size:108 final size:108
Alignment explanation
Indices: 6231518--6232062 Score: 901
Period size: 108 Copynumber: 5.0 Consensus size: 108
6231508 ATATAACTAT
**
6231518 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGGTGTAAACCCTAAATCGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
*
6231583 ACTCAACACAACCCTATTCCCTATCCCATCGAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
*
6231626 ATAAATCTCAACCTTTTGTTATTAACTATCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
*
6231691 ACTCAACACAACCCTATTCCCTATCCCATCGAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
* * * *
6231734 ATAAATCCCAACCTTTTGTTATTAACTAGCATAACAAAAATAACATAAACCCTAAATTGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
6231799 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
* ** *
6231842 ATAAATCCCAATATTTTGTTATTAGCTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
*
6231907 ACTCAACACAACCTTATTCCCTATCCCATCCAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
* * * *
6231950 ATAAATCTCAACCTTTTGTTATTAATTAGCATAACGAAAATGACGTAAACCCTAAATTGATTTAA
1 ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
* *
6232015 ACTAAACACAACCCTATTCCCTAACCCATCCAACCTCTTTGTA
66 ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
6232058 TATAA
1 -ATAA
6232063 CTAAATATTG
Statistics
Matches: 409, Mismatches: 27, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
108 405 0.99
109 4 0.01
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.30
Consensus pattern (108 bp):
ATAAATCTCAACCTTTTGTTATTAACTAGCATAACAAAAATGACGTAAACCCTAAATCGATCTAA
ACTCAACACAACCCTATTCCCTATCCCATCCAACCTCTTTGTA
Found at i:6233542 original size:210 final size:211
Alignment explanation
Indices: 6233019--6233561 Score: 537
Period size: 205 Copynumber: 2.6 Consensus size: 211
6233009 AAAATCAGTT
* **
6233019 TTTTGGACTAAAAATGATAGCTTTCATGGGTCAAAGATCTATGGTGAATTTGAGGTGACTGATGA
1 TTTTGGAC-CAAAATGATAGCTTTCATATGTCAAAGATCTATGGTGAATTTGA-G-G--TGATGA
* * * * * *
6233084 TCTAATTGGATTTATGGGG-TTGCTCTTTCCTTAATTATTAATTTATACAGTTCTTCTCTACTTC
61 TCTAATTGGATTGATGGGGTTTTC-CTTCCCTTAATGATTAATATATACAGTTCTTCTCTACTTA
* * * *
6233148 AGTGTAAAGGGTGTTTTGCTATCTTTCTAGATTGATATCATGTTTGGTTTCATCAACTGCTATAT
125 AATGTAAAGGGTGTTTTGCCATCTTTCTACATTGATATCATGTTTGGTTTCATCAACTACTATAT
6233213 GTAATTCAACATTGAAAATTCCTC
190 GTAATTCAACATTG--AATTCCTC
*
6233237 TTTTGGACTAAAATGATAGCTTTCATATGTCAAAGATCTAT-G-G----T--GGTGATGATCTAA
1 TTTTGGACCAAAATGATAGCTTTCATATGTCAAAGATCTATGGTGAATTTGAGGTGATGATCTAA
* * ** *
6233294 TTGGATTGATGGTGTTTTTCTTGACTGT-ATGATTAATATGTACAGTTCTTCTCTACTTAAATGT
66 TTGGATTGATGGGGTTTTCCTTCCCT-TAATGATTAATATATACAGTTCTTCTCTACTTAAATGT
* * ** * *
6233358 AGAGGGTGTTTTGCCATCTCTTC-ACATTGA-ATAATTAGTTTTTTTTTATCAAATTAC-AT-TG
130 AAAGGGTGTTTTGCCATCT-TTCTACATTGATATCA-T-GTTTGGTTTCATC-AACTACTATATG
* * *
6233419 -AATAT-TA-GTTG-ATTCAGTC
191 TAAT-TCAACATTGAATTC-CTC
* *
6233438 TTGTTGGACCAAAATGATAGATTTCATATGTCAAAGATCTATGGTGAATTTGAGGTGATGATCCA
1 TT-TTGGACCAAAATGATAGCTTTCATATGTCAAAGATCTATGGTGAATTTGAGGTGATGATCTA
*
6233503 ATTGGATTGATGGGGTTTTCCTTCCCTTAATGATTAATATATATAGTTCTTCTCTACTT
65 ATTGGATTGATGGGGTTTTCCTTCCCTTAATGATTAATATATACAGTTCTTCTCTACTT
6233562 CAGAGTTACG
Statistics
Matches: 272, Mismatches: 35, Indels: 44
0.77 0.10 0.13
Matches are distributed among these distances:
200 4 0.01
201 4 0.01
202 37 0.14
203 4 0.01
204 8 0.03
205 86 0.32
206 18 0.07
207 5 0.02
208 2 0.01
209 1 0.00
210 62 0.23
211 1 0.00
215 1 0.00
216 1 0.00
217 30 0.11
218 8 0.03
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (211 bp):
TTTTGGACCAAAATGATAGCTTTCATATGTCAAAGATCTATGGTGAATTTGAGGTGATGATCTAA
TTGGATTGATGGGGTTTTCCTTCCCTTAATGATTAATATATACAGTTCTTCTCTACTTAAATGTA
AAGGGTGTTTTGCCATCTTTCTACATTGATATCATGTTTGGTTTCATCAACTACTATATGTAATT
CAACATTGAATTCCTC
Found at i:6242064 original size:28 final size:30
Alignment explanation
Indices: 6242033--6242111 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 30
6242023 TCAAAATATT
*
6242033 TTTTTTATCAC-AAG-TGGTACCTAAACTA
1 TTTTTTACCACTAAGTTGGTACCTAAACTA
* *
6242061 --TTTTCCCCCTAAGTTGGTACCTAAACTA
1 TTTTTTACCACTAAGTTGGTACCTAAACTA
* * *
6242089 TTTTTT-CCCCCAAGTTGGAACCT
1 TTTTTTACCACTAAGTTGGTACCT
6242112 TTGTCGTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 6 0.14
27 3 0.07
28 14 0.33
29 15 0.36
30 4 0.10
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.38
Consensus pattern (30 bp):
TTTTTTACCACTAAGTTGGTACCTAAACTA
Found at i:6242103 original size:29 final size:27
Alignment explanation
Indices: 6242043--6242111 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 27
6242033 TTTTTTATCA
6242043 CAAG-TGGTACCTAAACTATTTTCCCC
1 CAAGTTGGTACCTAAACTATTTTCCCC
6242069 CTAAGTTGGTACCTAAACTATTTTTTCCCC
1 C-AAGTTGGTACCTAAACTA--TTTTCCCC
*
6242099 CAAGTTGGAACCT
1 CAAGTTGGTACCT
6242112 TTGTCGTTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
26 1 0.03
27 3 0.08
28 14 0.37
29 11 0.29
30 9 0.24
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (27 bp):
CAAGTTGGTACCTAAACTATTTTCCCC
Found at i:6246991 original size:46 final size:46
Alignment explanation
Indices: 6246922--6247060 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
6246912 ACATTACTAT
* *
6246922 AACTCAGTATGGTTTTCTACACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
6246968 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * * *
6247014 AACTCAATATGGTTTTCTTTA-TCGAAATAACATACCTGCTTTTCAC
1 AACTCAGTATGGTTTTCTTCACT-GAAATACCATACCTACTTTTCAC
6247060 A
1 A
6247061 CTTTGCCATG
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
45 1 0.01
46 85 0.99
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:6250288 original size:21 final size:21
Alignment explanation
Indices: 6250262--6250304 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
6250252 ACGAGTTTAA
6250262 GCTTTTTGGATACTTGCAAAT
1 GCTTTTTGGATACTTGCAAAT
6250283 GCTTTTTGGATACTTGCAAAT
1 GCTTTTTGGATACTTGCAAAT
6250304 G
1 G
6250305 ATGTCTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (21 bp):
GCTTTTTGGATACTTGCAAAT
Found at i:6252612 original size:21 final size:20
Alignment explanation
Indices: 6252586--6252643 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
6252576 AATAAACACC
6252586 AAAAAA-AATTTTAGAAAATTA
1 AAAAAAGAATTTTA-AAAA-TA
*
6252607 AAAAAAGTATTTTAAAAATA
1 AAAAAAGAATTTTAAAAATA
*
6252627 AAAAAAGTATTTTAAAA
1 AAAAAAGAATTTTAAAA
6252644 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 19 0.54
21 10 0.29
22 6 0.17
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAAAGAATTTTAAAAATA
Found at i:6252645 original size:19 final size:20
Alignment explanation
Indices: 6252593--6252643 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
6252583 ACCAAAAAAA
6252593 ATTTTAGAAAATTAAAAAAAGT
1 ATTTTA-AAAA-TAAAAAAAGT
6252615 ATTTTAAAAATAAAAAAAGT
1 ATTTTAAAAATAAAAAAAGT
6252635 ATTTTAAAA
1 ATTTTAAAA
6252644 TATTTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 19 0.66
21 4 0.14
22 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (20 bp):
ATTTTAAAAATAAAAAAAGT
Found at i:6253903 original size:3 final size:3
Alignment explanation
Indices: 6253897--6253932 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
6253887 GCCATCGCCG
6253897 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
6253933 ACCCATTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:6255398 original size:31 final size:31
Alignment explanation
Indices: 6255363--6255443 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
6255353 ATTCAATTTC
6255363 AAAAGTTATAATATT-A-TTATTAAATTATTCA
1 AAAAGTT-TAAT-TTAAGTTATTAAATTATTCA
* **
6255394 AAAAGTTTCATTTAAGTTATTAAATTATTTG
1 AAAAGTTTAATTTAAGTTATTAAATTATTCA
* *
6255425 AAAATTTTCATTTAAGTTA
1 AAAAGTTTAATTTAAGTTA
6255444 CTAGATAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 2 0.05
30 4 0.09
31 38 0.86
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (31 bp):
AAAAGTTTAATTTAAGTTATTAAATTATTCA
Found at i:6258467 original size:31 final size:31
Alignment explanation
Indices: 6258432--6258491 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
6258422 CCAGTGACTA
**
6258432 AAATAAAAGTTTTTGAATAGTTCAATGATTT
1 AAATAAAAACTTTTGAATAGTTCAATGATTT
*
6258463 AAATAAAAACTTTTGAATAGTTCAGTGAT
1 AAATAAAAACTTTTGAATAGTTCAATGAT
6258492 CAAATTGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.38
Consensus pattern (31 bp):
AAATAAAAACTTTTGAATAGTTCAATGATTT
Found at i:6259551 original size:25 final size:25
Alignment explanation
Indices: 6259518--6259571 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
6259508 AATATTTTTT
* **
6259518 TAAATTTAAATATTTTAATTAATAA
1 TAAAGTTAAATATAATAATTAATAA
6259543 TAAAGTTAAATATAATAATTAATAA
1 TAAAGTTAAATATAATAATTAATAA
6259568 TAAA
1 TAAA
6259572 TATAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
TAAAGTTAAATATAATAATTAATAA
Found at i:6259930 original size:10 final size:10
Alignment explanation
Indices: 6259910--6260001 Score: 75
Period size: 10 Copynumber: 9.1 Consensus size: 10
6259900 GCCCATTTTT
6259910 ATTTT-AAAA
1 ATTTTAAAAA
6259919 ATTTTAAAAA
1 ATTTTAAAAA
**
6259929 ATTAAAAAAA
1 ATTTTAAAAA
6259939 GTATTTTAAAAA
1 --ATTTTAAAAA
*
6259951 TATTTTAAAAT
1 -ATTTTAAAAA
6259962 ATTTT--AAA
1 ATTTTAAAAA
*
6259970 A-TTAAAAAA
1 ATTTTAAAAA
6259979 ATTTTAAAAA
1 ATTTTAAAAA
6259989 AGTATTTAAAAA
1 A-T-TTTAAAAA
6260001 A
1 A
6260002 AATTTAAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
7 2 0.03
8 3 0.04
9 9 0.13
10 25 0.37
11 11 0.16
12 17 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:6259951 original size:21 final size:20
Alignment explanation
Indices: 6259915--6260057 Score: 72
Period size: 21 Copynumber: 7.2 Consensus size: 20
6259905 TTTTTATTTT
*
6259915 AAAAAT-TTTAAAAAATTAA
1 AAAAATATTTTAAAAATTAA
**
6259934 AAAAAGTATTTTAAAAATATTT
1 AAAAA-TATTTTAAAAAT-TAA
*
6259956 TAAAATATTTT-AAAATTAA
1 AAAAATATTTTAAAAATTAA
*
6259975 AAAAAT-TTTAAAAAAGTATTTAA
1 AAAAATATTT-TAAAA--A-TTAA
6259998 AAAAA-A-TTT-AAAATT-A
1 AAAAATATTTTAAAAATTAA
* **
6260014 AAAAA-A-TTAAAAAAGTATGT
1 AAAAATATTTTAAAAA-T-TAA
6260034 AAAAATATTTT-AAAATTAA
1 AAAAATATTTTAAAAATTAA
6260053 AAAAA
1 AAAAA
6260058 ATAAATATAT
Statistics
Matches: 95, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
16 9 0.09
17 6 0.06
18 5 0.05
19 18 0.19
20 18 0.19
21 20 0.21
22 10 0.11
23 9 0.09
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAAATATTTTAAAAATTAA
Found at i:6259987 original size:11 final size:11
Alignment explanation
Indices: 6259915--6260010 Score: 64
Period size: 11 Copynumber: 9.2 Consensus size: 11
6259905 TTTTTATTTT
6259915 AAAAATTTT-A
1 AAAAATTTTAA
*
6259925 AAAAA-TTAAA
1 AAAAATTTTAA
6259935 AAAAGTATTTTAA
1 AAAA--ATTTTAA
*
6259948 AAATATTTT-A
1 AAAAATTTTAA
*
6259958 AAATATTTT--
1 AAAAATTTTAA
6259967 -AAAA--TTAA
1 AAAAATTTTAA
6259975 AAAAATTTTAA
1 AAAAATTTTAA
*
6259986 AAAAGTATTTAA
1 AAAAAT-TTTAA
*
6259998 AAAAAATTTAA
1 AAAAATTTTAA
6260009 AA
1 AA
6260011 TTAAAAAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
6 2 0.03
8 3 0.04
9 6 0.09
10 20 0.29
11 21 0.30
12 10 0.14
13 7 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAAATTTTAA
Done.