Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 34 of 168
Found at i:9022515 original size:39 final size:41
Alignment explanation
Indices: 9022453--9022534 Score: 141
Period size: 39 Copynumber: 2.0 Consensus size: 41
9022443 ATGTTGTATG
9022453 GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGGTT
1 GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGGTT
*
9022494 GATAGTTGG-TT-ATGAAAATGCATGATTGAATATTTGGTT
1 GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGGTT
9022533 GA
1 GA
9022535 CATATGCACC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 29 0.73
40 2 0.05
41 9 0.22
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.40
Consensus pattern (41 bp):
GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGGTT
Found at i:9028789 original size:40 final size:40
Alignment explanation
Indices: 9028745--9028824 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
9028735 GCTTTCATAG
*
9028745 CTCACCCCCTTATTTTTACTTCTTTTGAGATAACTCACAA
1 CTCACCCCCTTATTTTTACTTCTTTTCAGATAACTCACAA
* *
9028785 CTCACCCCCTTATTTTTCCTTCTTTTCAGATAACTTACAA
1 CTCACCCCCTTATTTTTACTTCTTTTCAGATAACTCACAA
9028825 GGTTAGGACG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.24, C:0.31, G:0.04, T:0.41
Consensus pattern (40 bp):
CTCACCCCCTTATTTTTACTTCTTTTCAGATAACTCACAA
Found at i:9029540 original size:19 final size:19
Alignment explanation
Indices: 9029516--9029552 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9029506 TTTTTCAATT
9029516 TTTTATACTTTATATAATG
1 TTTTATACTTTATATAATG
*
9029535 TTTTATATTTTATATAAT
1 TTTTATACTTTATATAAT
9029553 TGATATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATACTTTATATAATG
Found at i:9029634 original size:16 final size:18
Alignment explanation
Indices: 9029605--9029642 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
9029595 TTTTTTTGAG
9029605 TTTTTAATACTTTTT-AT
1 TTTTTAATACTTTTTCAT
*
9029622 TTTTTTATA-TTTTTCAT
1 TTTTTAATACTTTTTCAT
9029639 TTTT
1 TTTT
9029643 ATATTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTAATACTTTTTCAT
Found at i:9032975 original size:6 final size:6
Alignment explanation
Indices: 9032964--9032989 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9032954 TATATAATAT
9032964 ATATAG ATATAG ATATAG ATATAG AT
1 ATATAG ATATAG ATATAG ATATAG AT
9032990 CTTTAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
ATATAG
Found at i:9033243 original size:6 final size:6
Alignment explanation
Indices: 9033234--9033260 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9033224 TTATTATTAT
9033234 ATATAG ATATAG ATATAG ATATAG ATA
1 ATATAG ATATAG ATATAG ATATAG ATA
9033261 GATAAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
ATATAG
Found at i:9033261 original size:16 final size:16
Alignment explanation
Indices: 9033242--9033281 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
9033232 ATATATAGAT
* *
9033242 ATAGATATAGATATAG
1 ATAGATAAAGAGATAG
*
9033258 ATAGATAAATAGATAG
1 ATAGATAAAGAGATAG
9033274 ATAGATAA
1 ATAGATAA
9033282 CATGAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (16 bp):
ATAGATAAAGAGATAG
Found at i:9035267 original size:31 final size:31
Alignment explanation
Indices: 9035232--9035290 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
9035222 TGGTAAACCC
9035232 TTATTTGAGCACTTTTAAAAATGTTTGATAT
1 TTATTTGAGCACTTTTAAAAATGTTTGATAT
* *
9035263 TTATTTGATCACTTTTGAAAATGTTTGA
1 TTATTTGAGCACTTTTAAAAATGTTTGA
9035291 GCATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.49
Consensus pattern (31 bp):
TTATTTGAGCACTTTTAAAAATGTTTGATAT
Found at i:9039995 original size:34 final size:35
Alignment explanation
Indices: 9039949--9040018 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
9039939 TTGGTATTAA
*
9039949 AATTTCTATAAAATTTATGT-AAAATCAAACAATC
1 AATTTCTATAAAATTTATATAAAAATCAAACAATC
* * *
9039983 AATTTCTGTAAAATTTCTATAAAAATCAAATAATC
1 AATTTCTATAAAATTTATATAAAAATCAAACAATC
9040018 A
1 A
9040019 GAAAACAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (35 bp):
AATTTCTATAAAATTTATATAAAAATCAAACAATC
Found at i:9042421 original size:39 final size:40
Alignment explanation
Indices: 9042376--9042462 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 40
9042366 AAAAATTATA
* *
9042376 TTTAATACAATAAAATATTTATTATATTTAT-TTGTGTTT
1 TTTAATACAATAAAACATTTATTATATTTATGTAGTGTTT
*
9042415 TTTAATATAATAAAACATTTATTATATTTATGGTAGTGTTT
1 TTTAATACAATAAAACATTTATTATATTTAT-GTAGTGTTT
9042456 TTTAATA
1 TTTAATA
9042463 TGTTTTTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 29 0.67
41 14 0.33
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (40 bp):
TTTAATACAATAAAACATTTATTATATTTATGTAGTGTTT
Found at i:9051152 original size:24 final size:25
Alignment explanation
Indices: 9051108--9051155 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
9051098 AAGTAAATCC
* *
9051108 CTCTCGATAGAAATTGGTAGAATTT
1 CTCTCAATAGAAATTGATAGAATTT
9051133 CTCTCAATAG-AATTGATAGAATT
1 CTCTCAATAGAAATTGATAGAATT
9051156 GTTATTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (25 bp):
CTCTCAATAGAAATTGATAGAATTT
Found at i:9052740 original size:21 final size:19
Alignment explanation
Indices: 9052698--9052747 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
9052688 TTATGTTTTG
* *
9052698 TTAATTAAGTAAAATATGA
1 TTAATTAAGTAAAACATAA
9052717 TTAATTAAGATAAAAACATAA
1 TTAATTAAG-T-AAAACATAA
9052738 TTAATTAAGT
1 TTAATTAAGT
9052748 TATAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 16 0.59
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (19 bp):
TTAATTAAGTAAAACATAA
Found at i:9053016 original size:20 final size:21
Alignment explanation
Indices: 9052991--9053029 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
9052981 TTTCCATGAT
9052991 TGTGAAATTGAT-GAAATTGG
1 TGTGAAATTGATAGAAATTGG
9053011 TGTGAAATTGATAGAAATT
1 TGTGAAATTGATAGAAATT
9053030 AAGCTTGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (21 bp):
TGTGAAATTGATAGAAATTGG
Found at i:9056310 original size:2 final size:2
Alignment explanation
Indices: 9056297--9056333 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
9056287 CCTTAATGTT
* *
9056297 TA TA TG TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9056334 GAATCTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9056314 original size:12 final size:12
Alignment explanation
Indices: 9056297--9056333 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
9056287 CCTTAATGTT
9056297 TATATGTATATA
1 TATATGTATATA
9056309 TATATGTATATA
1 TATATGTATATA
*
9056321 TATATATATATA
1 TATATGTATATA
9056333 T
1 T
9056334 GAATCTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (12 bp):
TATATGTATATA
Found at i:9059438 original size:10 final size:10
Alignment explanation
Indices: 9059425--9059449 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9059415 TATGCTTAAT
9059425 ATTAATAGAA
1 ATTAATAGAA
9059435 ATTAATAGAA
1 ATTAATAGAA
9059445 ATTAA
1 ATTAA
9059450 GCTTAGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (10 bp):
ATTAATAGAA
Found at i:9067946 original size:13 final size:13
Alignment explanation
Indices: 9067914--9067946 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
9067904 GCCAACTCAT
*
9067914 CTTTTTAATTCAC
1 CTTTTTGATTCAC
9067927 CTTTTTGATTCAC
1 CTTTTTGATTCAC
9067940 CTTTTTG
1 CTTTTTG
9067947 GGAATGTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.58
Consensus pattern (13 bp):
CTTTTTGATTCAC
Found at i:9084969 original size:25 final size:25
Alignment explanation
Indices: 9084924--9084983 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
9084914 CTAGTCATTA
* * *
9084924 TGCCACATAGCCTTTATAGGTAACC
1 TGCCACAAAGACTTTACAGGTAACC
* *
9084949 TTCCTCAAAGACTTTACAGGTAACC
1 TGCCACAAAGACTTTACAGGTAACC
9084974 TGCCACAAAG
1 TGCCACAAAG
9084984 GCTTCCTAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (25 bp):
TGCCACAAAGACTTTACAGGTAACC
Found at i:9085063 original size:25 final size:25
Alignment explanation
Indices: 9084975--9085063 Score: 117
Period size: 25 Copynumber: 3.6 Consensus size: 25
9084965 CAGGTAACCT
9084975 GCCACAAAGGC-TTCCTAAATAAATC
1 GCCACAAAGGCTTTCC-AAATAAATC
* * * * *
9085000 GCCACAAAGGCTTTACAAGTGACTT
1 GCCACAAAGGCTTTCCAAATAAATC
9085025 GCCACAAAGGCTTTCCAAATAAATC
1 GCCACAAAGGCTTTCCAAATAAATC
9085050 GCCACAAAGGCTTT
1 GCCACAAAGGCTTT
9085064 ACAAGTGACT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 50 0.94
26 3 0.06
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (25 bp):
GCCACAAAGGCTTTCCAAATAAATC
Found at i:9085070 original size:50 final size:50
Alignment explanation
Indices: 9084954--9085085 Score: 194
Period size: 50 Copynumber: 2.6 Consensus size: 50
9084944 TAACCTTCCT
* * * *
9084954 CAAAGACTTTACAGGTAACCTGCCACAAAGGCTTCCTAAATAAATCGCCA
1 CAAAGGCTTTACAAGTGACTTGCCACAAAGGCTTCCTAAATAAATCGCCA
9085004 CAAAGGCTTTACAAGTGACTTGCCACAAAGGCTTTCC-AAATAAATCGCCA
1 CAAAGGCTTTACAAGTGACTTGCCACAAAGGC-TTCCTAAATAAATCGCCA
**
9085054 CAAAGGCTTTACAAGTGACTCACCACAAAGGC
1 CAAAGGCTTTACAAGTGACTTGCCACAAAGGC
9085086 ACCACATAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
50 71 0.95
51 4 0.05
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.20
Consensus pattern (50 bp):
CAAAGGCTTTACAAGTGACTTGCCACAAAGGCTTCCTAAATAAATCGCCA
Found at i:9085079 original size:25 final size:25
Alignment explanation
Indices: 9084998--9085085 Score: 122
Period size: 25 Copynumber: 3.5 Consensus size: 25
9084988 CCTAAATAAA
9084998 TCGCCACAAAGGCTTTACAAGTGAC
1 TCGCCACAAAGGCTTTACAAGTGAC
* * * * *
9085023 TTGCCACAAAGGCTTTCCAAATAAA
1 TCGCCACAAAGGCTTTACAAGTGAC
9085048 TCGCCACAAAGGCTTTACAAGTGAC
1 TCGCCACAAAGGCTTTACAAGTGAC
*
9085073 TCACCACAAAGGC
1 TCGCCACAAAGGC
9085086 ACCACATAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.19
Consensus pattern (25 bp):
TCGCCACAAAGGCTTTACAAGTGAC
Found at i:9090503 original size:110 final size:106
Alignment explanation
Indices: 9090388--9090614 Score: 316
Period size: 110 Copynumber: 2.1 Consensus size: 106
9090378 AAAGGAAAAA
9090388 AAAAAAG-AAAAAGGAAAAAAAAATTTGGTGCTGGCCTGTCAATGACCGGCACCCAGAACAATTT
1 AAAAAAGTAAAAA-G-AAAAAAAATTTGGTGCTGGCCTGTCAATGACCGGCACCCAGAACAATTT
* * *
9090452 AAAAAAAATAATTTTTTTTTCGTGTCAGAATGAGATATCAATATACG
64 ---AAAAA-AATTCTTTTTTCATGTCAGAATCAGATATCAATATACG
* *
9090499 AAAAAAGTAAAAAGAAAAAAAATTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAA
1 AAAAAAGTAAAAAGAAAAAAAATTTGGTGCTGGCCTGTCAATGACCGGCACCCAGAACAATTTAA
* *
9090564 AAAAATTCTTTTTTCATGTCAGAATCAGATATCAGTACAC-
66 AAAAATTCTTTTTTCATGTCAGAATCAGATATCAATATACG
9090604 AAAAAA-TAAAA
1 AAAAAAGTAAAA
9090615 TAAAATTTTT
Statistics
Matches: 108, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
104 5 0.05
105 6 0.06
106 32 0.30
107 5 0.05
110 47 0.44
111 8 0.07
112 5 0.05
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.25
Consensus pattern (106 bp):
AAAAAAGTAAAAAGAAAAAAAATTTGGTGCTGGCCTGTCAATGACCGGCACCCAGAACAATTTAA
AAAAATTCTTTTTTCATGTCAGAATCAGATATCAATATACG
Found at i:9093859 original size:43 final size:44
Alignment explanation
Indices: 9093797--9093900 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 44
9093787 GAATTGAATT
* *
9093797 AAATAAAATTCTGAAAAGTGAGTCAAA-ATAAATTGGATAGAAAC
1 AAATGAAATT-TGAAAAGTGAGTCAAAGATAAATAGGATAGAAAC
** *
9093841 AAATGAAATTTGAAAAGTGAGTCAAAGATGGATAGGATAGAAAT
1 AAATGAAATTTGAAAAGTGAGTCAAAGATAAATAGGATAGAAAC
9093885 AAATGAAATTTGAAAA
1 AAATGAAATTTGAAAA
9093901 ATTAGTCAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 16 0.30
44 38 0.70
ACGTcount: A:0.54, C:0.04, G:0.19, T:0.23
Consensus pattern (44 bp):
AAATGAAATTTGAAAAGTGAGTCAAAGATAAATAGGATAGAAAC
Found at i:9094326 original size:44 final size:43
Alignment explanation
Indices: 9094276--9094414 Score: 152
Period size: 44 Copynumber: 3.1 Consensus size: 43
9094266 GTTCTAACTA
*
9094276 ACTTTTCAAATTTCATTTATTTCTATCCCATCCATCTTTGACTC
1 ACTTTTCAAATTTCATTTATTTCTATCCAATCCAT-TTTGACTC
* * ** *
9094320 ACTTTTCAAATCTCATTTGTTTCTATCCAATTTATTTTAACTC
1 ACTTTTCAAATTTCATTTATTTCTATCCAATCCATTTTGACTC
* * *
9094363 ACTTTTCAGAATTTCATTTAATTCAATTCAATCTCATTTATTGACTC
1 ACTTTTCA-AATTTCATTTATTTCTATCCAATC-CA-TT-TTGACTC
9094410 ACTTT
1 ACTTT
9094415 CTTTTTCCTA
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
43 15 0.19
44 48 0.62
45 1 0.01
46 2 0.03
47 11 0.14
ACGTcount: A:0.26, C:0.22, G:0.03, T:0.49
Consensus pattern (43 bp):
ACTTTTCAAATTTCATTTATTTCTATCCAATCCATTTTGACTC
Found at i:9094543 original size:51 final size:53
Alignment explanation
Indices: 9094461--9094604 Score: 195
Period size: 52 Copynumber: 2.7 Consensus size: 53
9094451 TTGACAAATC
* * * *
9094461 CATCTGACACTCTTTTTTTTCATTCAGTCTCATTAATTTCAA-TTTTTTTCTTA
1 CATCTAACAC-CTTTTTTTTCATTAAATCTCATTAATTTCAATTTTTTTTCCTA
9094514 CATCTAACACCTTTTTTTT-ATTAAATCTCATCT-ATTTCAATTTTTTTTCCTA
1 CATCTAACACCTTTTTTTTCATTAAATCTCAT-TAATTTCAATTTTTTTTCCTA
*
9094566 CACCTAACACCTTTTTTTTCATTAAATCTCATTTAATTT
1 CATCTAACACCTTTTTTTTCATTAAATCTCA-TTAATTT
9094605 TACAAGAATA
Statistics
Matches: 81, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
51 17 0.21
52 38 0.47
53 21 0.26
54 5 0.06
ACGTcount: A:0.24, C:0.22, G:0.01, T:0.53
Consensus pattern (53 bp):
CATCTAACACCTTTTTTTTCATTAAATCTCATTAATTTCAATTTTTTTTCCTA
Found at i:9097592 original size:7 final size:7
Alignment explanation
Indices: 9097582--9097612 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
9097572 TTTTCGTATA
9097582 CTGATAT
1 CTGATAT
9097589 CTGATAT
1 CTGATAT
9097596 CTGATAT
1 CTGATAT
9097603 CTGAT-T
1 CTGATAT
9097609 CTGA
1 CTGA
9097613 CACGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (7 bp):
CTGATAT
Found at i:9097798 original size:17 final size:17
Alignment explanation
Indices: 9097776--9097808 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9097766 AAAAAAAAAA
*
9097776 TTTTTTT-TCCTTTTTC
1 TTTTTTTCTTCTTTTTC
9097792 TTTTTTTCTTCTTTTTC
1 TTTTTTTCTTCTTTTTC
9097809 GTATATCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTCTTCTTTTTC
Found at i:9105671 original size:104 final size:104
Alignment explanation
Indices: 9105492--9105966 Score: 803
Period size: 104 Copynumber: 4.6 Consensus size: 104
9105482 TAACCGTTAT
** *
9105492 TGGTGGATCCCGCACTTAGCACCACCACTG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
9105556 GAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 GAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
9105595 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
9105660 GAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 GAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
*
9105699 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCATCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
9105764 GAATCAGCACATAGTAACCCCCTTTTCATTTCAAAGATA
66 GAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
* *
9105803 TGGTGGATGTCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAACAACCCCTCGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
9105868 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * **
9105908 TGGTGGATCA-CGCACATAGCACCACCCATG-AATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCT
9105967 TTTTTATACA
Statistics
Matches: 353, Mismatches: 16, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
103 27 0.08
104 287 0.81
105 39 0.11
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
GAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:9106959 original size:25 final size:25
Alignment explanation
Indices: 9106925--9106976 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
9106915 GTCCGCGAGA
9106925 CTGCCGACATGAAATTGAGTTTATT
1 CTGCCGACATGAAATTGAGTTTATT
9106950 CTGCCGACATGAAATTGAGTTTATT
1 CTGCCGACATGAAATTGAGTTTATT
9106975 CT
1 CT
9106977 TCCCTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (25 bp):
CTGCCGACATGAAATTGAGTTTATT
Found at i:9119915 original size:24 final size:24
Alignment explanation
Indices: 9119900--9119951 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9119890 AATCAAAGTC
9119900 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
9119924 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
9119948 AAAT
1 AAAT
9119952 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:9127384 original size:24 final size:24
Alignment explanation
Indices: 9127357--9127406 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
9127347 TCAAAGTCAC
* *
9127357 ATATATTATGCTAATAAATGCTAA
1 ATATATTATACTAATAAATACTAA
*
9127381 ATATATTATACTCATAAATACTAA
1 ATATATTATACTAATAAATACTAA
9127405 AT
1 AT
9127407 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATATTATACTAATAAATACTAA
Found at i:9130174 original size:92 final size:92
Alignment explanation
Indices: 9130065--9130281 Score: 285
Period size: 92 Copynumber: 2.4 Consensus size: 92
9130055 TACAAATAAT
* * * * *
9130065 AGCTACCAGTATAAGTTGTGTATAAACCATGAGTGCTTGCAAGTTAATACGTTGTCATTAGTTGT
1 AGCTACCAGTATAAGTTGTGGATAAACCACGAGTGCTTGCAAGTTAATACGTTGCCAGTAGTTAT
*
9130130 GAATACACAATGATTTTTGCAGATGAA
66 GAATACACAACGATTTTTGCAGATGAA
* *
9130157 AGCTACTAGTATAAGTTGTGGATAAACCACGAGTGCTTGCAGGTTAATACGTTGCCAGTAGTTAT
1 AGCTACCAGTATAAGTTGTGGATAAACCACGAGTGCTTGCAAGTTAATACGTTGCCAGTAGTTAT
* * *
9130222 GAATACACAACGGTTTTTGTAGATGGA
66 GAATACACAACGATTTTTGCAGATGAA
* * * *
9130249 AGTTGCCA--ATAATTTGTGGATAAACCACCAGTG
1 AGCTACCAGTATAAGTTGTGGATAAACCACGAGTG
9130282 TTTGTAGTTA
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
90 23 0.21
92 86 0.79
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (92 bp):
AGCTACCAGTATAAGTTGTGGATAAACCACGAGTGCTTGCAAGTTAATACGTTGCCAGTAGTTAT
GAATACACAACGATTTTTGCAGATGAA
Found at i:9130348 original size:322 final size:322
Alignment explanation
Indices: 9129723--9130370 Score: 825
Period size: 322 Copynumber: 2.0 Consensus size: 322
9129713 TTGTGAATAC
* * * * *
9129723 ACAATGGGTTTATAGATAATAGCTGCCAGTATAAGTTGTGGATAAACCATGAGTGCTTGCAGGTT
1 ACAATGAGTTTACAAATAATAGCTACCAGTATAAGTTGTGGATAAACCATGAGTGCTTGCAAGTT
* **
9129788 AATACACAGCCTGTAGTTGTGAATACACAACGATTTTTCCAGAAGAAAGTTGTCAATATAAGTTG
66 AATACACAGCATGTAGTTGTGAATACACAACGATTTTTCCAGAAGAAAGTACTCAATATAAGTTG
* * *
9129853 TGGCTAAACCATGAGTGCTTGCAGGTTAATACACTGCCAATAGTTGTAAATACACAACGATTTTT
131 TGGATAAACCACGAGTGCTTGCAGGTTAATACACTGCCAATAGTTATAAATACACAACGATTTTT
* * * * *
9129918 GCAGCTAAAAGCTGCTAGTAATCTGTGGATAAACCACCAGTGCTTGTAGTTAAAACTGTCAGTAC
196 GCAGATAAAAGCTGCCAATAATCTGTGGATAAACCACCAGTGCTTGTAGTTAAAACTGCCAATAC
* * * * *
9129983 TTCTTCCTTTCAATACATCTCACCCCATACAATGTAATATGACATGCAG-GCATCAATATAAT
261 TTCCTCCTTTCAACACATCCCACCCCATACAACGTAATATGACATG-AGAGCATCAATACAAT
*
9130045 ACAATGAGTTTACAAATAATAGCTACCAGTATAAGTTGTGTATAAACCATGAGTGCTTGCAAGTT
1 ACAATGAGTTTACAAATAATAGCTACCAGTATAAGTTGTGGATAAACCATGAGTGCTTGCAAGTT
*** * * * *
9130110 AATACGTTGTCAT-TAGTTGTGAATACACAATGATTTTTGCAGATGAAAGCTACT-AGTATAAGT
66 AATACACAG-CATGTAGTTGTGAATACACAACGATTTTTCCAGAAGAAAG-TACTCAATATAAGT
** * * *
9130173 TGTGGATAAACCACGAGTGCTTGCAGGTTAATACGTTGCCAGTAGTTATGAATACACAACGGTTT
129 TGTGGATAAACCACGAGTGCTTGCAGGTTAATACACTGCCAATAGTTATAAATACACAACGATTT
* ** * * *
9130238 TTGTAGATGGAAGTTGCCAATAATTTGTGGATAAACCACCAGTGTTTGTAGTTAAAACTGCCAAT
194 TTGCAGATAAAAGCTGCCAATAATCTGTGGATAAACCACCAGTGCTTGTAGTTAAAACTGCCAAT
* * * * * * *
9130303 GCTTCCTCCTTTCAACGCGTCCCGCCCCGTGCAACGTAGTATGACATGAGAGCATCAATACAAT
259 ACTTCCTCCTTTCAACACATCCCACCCCATACAACGTAATATGACATGAGAGCATCAATACAAT
9130367 ACAA
1 ACAA
9130371 AAATAGTAAA
Statistics
Matches: 276, Mismatches: 47, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
321 2 0.01
322 270 0.98
323 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (322 bp):
ACAATGAGTTTACAAATAATAGCTACCAGTATAAGTTGTGGATAAACCATGAGTGCTTGCAAGTT
AATACACAGCATGTAGTTGTGAATACACAACGATTTTTCCAGAAGAAAGTACTCAATATAAGTTG
TGGATAAACCACGAGTGCTTGCAGGTTAATACACTGCCAATAGTTATAAATACACAACGATTTTT
GCAGATAAAAGCTGCCAATAATCTGTGGATAAACCACCAGTGCTTGTAGTTAAAACTGCCAATAC
TTCCTCCTTTCAACACATCCCACCCCATACAACGTAATATGACATGAGAGCATCAATACAAT
Found at i:9133829 original size:15 final size:15
Alignment explanation
Indices: 9133809--9133844 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
9133799 ACAATTTGAT
9133809 GTCTTCGTTTAAACC
1 GTCTTCGTTTAAACC
9133824 GTCTTCGTTTAAACC
1 GTCTTCGTTTAAACC
*
9133839 ATCTTC
1 GTCTTC
9133845 AAACCGAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.28, G:0.11, T:0.42
Consensus pattern (15 bp):
GTCTTCGTTTAAACC
Found at i:9135052 original size:54 final size:54
Alignment explanation
Indices: 9134972--9135117 Score: 154
Period size: 54 Copynumber: 2.7 Consensus size: 54
9134962 CATGTCTTCA
* *
9134972 ACCGTGTAACTCACTGAGTTAG-GTCACACGATCGTGTCACAAACCATGTGTCAG
1 ACCGTGTAACTCTCTGACTT-GTGTCACACGATCGTGTCACAAACCATGTGTCAG
* * ** * *
9135026 ACCGTGTAACTCTCTAACTTGTGTCACACGA-CTGTTTCACAGGCCGTGTGTTAG
1 ACCGTGTAACTCTCTGACTTGTGTCACACGATC-GTGTCACAAACCATGTGTCAG
* *
9135080 ACCGTGTAACTCTCTGACTTGAT-ACACACAATCGTGTC
1 ACCGTGTAACTCTCTGACTTG-TGTCACACGATCGTGTC
9135118 TTAGGCCATG
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
53 2 0.03
54 72 0.95
55 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (54 bp):
ACCGTGTAACTCTCTGACTTGTGTCACACGATCGTGTCACAAACCATGTGTCAG
Found at i:9148612 original size:31 final size:31
Alignment explanation
Indices: 9148577--9148645 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
9148567 AAAATAATCC
*
9148577 TTGAACTATTTGAGAGGTTTCATTTAAGTTA
1 TTGAACTATTTGAAAGGTTTCATTTAAGTTA
* * *
9148608 TTGAATTATTTGAAAGTTTTTATTTAAGTTA
1 TTGAACTATTTGAAAGGTTTCATTTAAGTTA
*
9148639 TCGAACT
1 TTGAACT
9148646 GTTAAGTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (31 bp):
TTGAACTATTTGAAAGGTTTCATTTAAGTTA
Found at i:9152868 original size:19 final size:19
Alignment explanation
Indices: 9152844--9152884 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
9152834 CATAAAAGCT
9152844 TTAAAAAAATGTATATATA
1 TTAAAAAAATGTATATATA
*
9152863 TTAAAAAAATGTGTATATA
1 TTAAAAAAATGTATATATA
9152882 TTA
1 TTA
9152885 TATATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (19 bp):
TTAAAAAAATGTATATATA
Found at i:9152916 original size:23 final size:25
Alignment explanation
Indices: 9152865--9152916 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
9152855 TATATATATT
* * *
9152865 AAAAAAATGTGTATATATTATATAT
1 AAAAAAATGTGTATATAATACATAA
9152890 AAAAAAATGTGT-T-TAATACATAA
1 AAAAAAATGTGTATATAATACATAA
9152913 AAAA
1 AAAA
9152917 TGCATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.46
24 1 0.04
25 12 0.50
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.33
Consensus pattern (25 bp):
AAAAAAATGTGTATATAATACATAA
Found at i:9154246 original size:44 final size:43
Alignment explanation
Indices: 9154109--9154247 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
9154099 ATCTGATGTG
* * * * *
9154109 ATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGCGGTTTT-A
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGAT-T-TGTTTTTCA
* * * * *
9154153 ATCCACTCCATTGCAACTTCAAGGAGATAGGATTAT-TTTCTTCT
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATT-TGTTT-TTCA
*
9154197 GTCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATTTTCA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-TTTTCA
9154241 ATCTACT
1 ATCTACT
9154248 TCACCATCAG
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
42 2 0.03
43 4 0.05
44 65 0.89
45 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (43 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTTTTTCA
Found at i:9154312 original size:44 final size:44
Alignment explanation
Indices: 9154263--9154541 Score: 378
Period size: 44 Copynumber: 6.3 Consensus size: 44
9154253 ATCAGTATGG
* * *
9154263 GAAGACAAGACCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACAT
* * * *
9154307 GAAGACAAGATCTGTTTTCTTCGATCTACTTCACGCTAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACAT
* *
9154351 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGTCAGTACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACAT
*
9154395 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACAT
* * * * ***
9154439 GAAGACAAGATCTGCTTTCTTCGATCTATTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAGTACAT
* *
9154484 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACAT
9154528 GAAGACAAGATCTG
1 GAAGACAAGATCTG
9154542 TTGCTTTTCA
Statistics
Matches: 202, Mismatches: 32, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
44 168 0.83
45 34 0.17
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACAT
Found at i:9154426 original size:132 final size:133
Alignment explanation
Indices: 9154263--9154541 Score: 416
Period size: 132 Copynumber: 2.1 Consensus size: 133
9154253 ATCAGTATGG
* * * * *
9154263 GAAGACAAGACCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* * * * *
9154328 CGATCTACTTC-ACGCTAATACATGAAGACAAGATCTGCTATCTTTGATCTACTTCACGTCAGTA
66 CGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTA
9154392 CAT
131 CAT
9154395 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
* * * **
9154460 CGATCTATTTCGCCACCAGTATGGGAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTA
66 CGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTA
9154525 CAT
131 CAT
9154528 GAAGACAAGATCTG
1 GAAGACAAGATCTG
9154542 TTGCTTTTCA
Statistics
Matches: 131, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
132 70 0.53
133 61 0.47
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (133 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTA
CAT
Found at i:9162751 original size:20 final size:20
Alignment explanation
Indices: 9162713--9162752 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9162703 TAAAGGTATT
**
9162713 TAATGCATATGATGTGATGC
1 TAATGCATATGATACGATGC
9162733 TAATGCATATGATACGATGC
1 TAATGCATATGATACGATGC
9162753 ATGAGGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (20 bp):
TAATGCATATGATACGATGC
Found at i:9167442 original size:3 final size:3
Alignment explanation
Indices: 9167436--9167504 Score: 111
Period size: 3 Copynumber: 23.0 Consensus size: 3
9167426 AGCAATAACT
* * *
9167436 ATA ATA ATG ATA ATA ATA ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9167484 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
9167505 GTATAACATG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9169743 original size:46 final size:45
Alignment explanation
Indices: 9169676--9170102 Score: 433
Period size: 46 Copynumber: 10.2 Consensus size: 45
9169666 NNNNNNNNNN
*
9169676 GATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACTT
1 GATCAGATAAGTGTAGCTAA-GCTACCACTTATCACTTTTTCACTT
* *
9169722 GATCAGATAAGTGTAGGTAAGGCTAACACTTATCACTTTTTCACTT
1 GATCAGATAAGTGTAGCTAA-GCTACCACTTATCACTTTTTCACTT
9169768 GATCAGATAA--GTA--T-AG----CACTTATCACTTTTTCACTT
1 GATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTTTCACTT
*
9169804 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCA-TTTTGTCTCTT
1 GATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTT-TCACTT
9169850 GATCAGATAA--GT-G-T-AG----CACTTATCACTTTTTCACTT
1 GATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTTTCACTT
* *
9169886 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTT
1 GATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTTTCACTT
*
9169932 GATCAAATAA--GT-G-T-AG----CACTTATCACTTTTTCACTT
1 GATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTTTCACTT
* *
9169968 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTT
1 GATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTTTCACTT
9170014 GATCAGATAA--GT-G-T-A--T--CACTTATCACTTTTTCACTT
1 GATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTTTCACTT
* *
9170050 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTT
1 GATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTTTCACTT
9170096 GATCAGA
1 GATCAGA
9170103 AGTACTCAAA
Statistics
Matches: 322, Mismatches: 17, Indels: 84
0.76 0.04 0.20
Matches are distributed among these distances:
36 109 0.34
37 4 0.01
38 10 0.03
39 3 0.01
40 10 0.03
41 1 0.00
42 11 0.03
43 3 0.01
44 10 0.03
45 4 0.01
46 157 0.49
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.36
Consensus pattern (45 bp):
GATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTTTCACTT
Found at i:9169789 original size:36 final size:36
Alignment explanation
Indices: 9169748--9170066 Score: 253
Period size: 36 Copynumber: 8.0 Consensus size: 36
9169738 GTAAGGCTAA
9169748 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
9169784 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* *
9169826 CTACCACTTATCA-TTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTT-TCACTTGATCAGATAAGTATAG
9169866 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * * *
9169908 CTACCACTTATCACTTTGTCTCTTGATCAAATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
9169948 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * * *
9169990 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAT
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
9170030 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
9170066 C
1 C
9170067 TAAAGCTACC
Statistics
Matches: 232, Mismatches: 19, Indels: 64
0.74 0.06 0.20
Matches are distributed among these distances:
36 115 0.50
37 4 0.02
38 7 0.03
40 8 0.03
42 9 0.04
44 6 0.03
45 4 0.02
46 79 0.34
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:9169851 original size:82 final size:82
Alignment explanation
Indices: 9169702--9170102 Score: 703
Period size: 82 Copynumber: 4.9 Consensus size: 82
9169692 CTAAGGCTAC
* * * * * *
9169702 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGGTAAGGCTAACACTTATCACTTTTTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
9169767 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
*
9169784 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
9169849 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
9169866 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
9169931 TGATCAAATAAGTGTAG
66 TGATCAGATAAGTGTAG
9169948 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
9170013 TGATCAGATAAGTGTAT
66 TGATCAGATAAGTGTAG
*
9170030 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
9170095 TGATCAGA
66 TGATCAGA
9170103 AGTACTCAAA
Statistics
Matches: 306, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 306 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTGTAG
Found at i:9185681 original size:28 final size:30
Alignment explanation
Indices: 9185644--9185699 Score: 55
Period size: 28 Copynumber: 1.9 Consensus size: 30
9185634 TTCTTTTAAA
* *
9185644 ATTTTAAAAATTTTAAAA-TATA-AAAA-TT
1 ATTTTAAAAAATTAAAAAGTA-ATAAAAATT
*
9185672 ATTTTTAAAAATTAAAAAGTAATAAAAA
1 ATTTTAAAAAATTAAAAAGTAATAAAAA
9185700 ATATAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
28 16 0.73
29 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
ATTTTAAAAAATTAAAAAGTAATAAAAATT
Found at i:9186710 original size:7 final size:7
Alignment explanation
Indices: 9186698--9186725 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9186688 AGTTACTATA
9186698 CTAAATT
1 CTAAATT
9186705 CTAAATT
1 CTAAATT
9186712 CTAAATT
1 CTAAATT
9186719 CTAAATT
1 CTAAATT
9186726 TGTGTTATAA
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:0.14, G:0.00, T:0.43
Consensus pattern (7 bp):
CTAAATT
Found at i:9190551 original size:21 final size:19
Alignment explanation
Indices: 9190526--9190565 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
9190516 AAATTTATTC
9190526 TATATTAAATCATTATTTAAA
1 TATATTAAAT--TTATTTAAA
*
9190547 TATATTTAATTTATTTAAA
1 TATATTAAATTTATTTAAA
9190566 ATTCAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTAAATTTATTTAAA
Found at i:9195105 original size:100 final size:100
Alignment explanation
Indices: 9194907--9195127 Score: 270
Period size: 100 Copynumber: 2.2 Consensus size: 100
9194897 TTGGTCGTAT
* *
9194907 CGCCACATTTGGTGTTGGCACCAAATGAATTTTTTTATTAGATTTTGGTGCCTCCACATGAAGAG
1 CGCCACATTTGGAGTTGGCACCAAAGGAATTTTTTTATTAGATTTTGGTGCCTCCACATGAAGAG
* *
9194972 ACGACATCGAAAAATTCAAAAAAAATTATTGGTGT
66 ACGACATCGAAAAATTCAAAAAAAATTACTGGTGC
* * *
9195007 TGCCACATTTGGAGTTGGCACC-AGGGAATTTTTTT-TATAGATTTTGGTGCCTCCACATGAGGA
1 CGCCACATTTGGAGTTGGCACCAAAGGAATTTTTTTAT-TAGATTTTGGTGCCTCCACATGAAGA
* * *
9195070 GACGATATC-AAAATTTTGTTAAAAAAAA-TACTGGTGC
65 GACGACATCGAAAA--AT-TCAAAAAAAATTACTGGTGC
* *
9195107 CACCACATCTGGAGTTGGCAC
1 CGCCACATTTGGAGTTGGCAC
9195128 TAAGGGAAAC
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
98 5 0.05
99 44 0.42
100 46 0.44
101 9 0.09
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (100 bp):
CGCCACATTTGGAGTTGGCACCAAAGGAATTTTTTTATTAGATTTTGGTGCCTCCACATGAAGAG
ACGACATCGAAAAATTCAAAAAAAATTACTGGTGC
Found at i:9195690 original size:16 final size:15
Alignment explanation
Indices: 9195661--9195689 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9195651 GGATATAGTA
9195661 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
9195676 AAATATTTAAAAAA
1 AAATATTTAAAAAA
9195690 AAGAGACACA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:9196295 original size:16 final size:15
Alignment explanation
Indices: 9196271--9196312 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
9196261 ATAATAAACA
9196271 AATATTATTTTAAATAT
1 AATA-TATTTTAAAT-T
*
9196288 AATATATTTTTAATT
1 AATATATTTTAAATT
9196303 -ATATATTTTA
1 AATATATTTTA
9196313 TTAATGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 1 0.04
16 9 0.39
17 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AATATATTTTAAATT
Found at i:9202906 original size:15 final size:16
Alignment explanation
Indices: 9202878--9202913 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
9202868 TACCTTTTTT
9202878 TTTTTACTTCATTTCC
1 TTTTTACTTCATTTCC
*
9202894 TTTTTCCTT-ATTTCC
1 TTTTTACTTCATTTCC
9202909 TTTTT
1 TTTTT
9202914 TTTCCGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTACTTCATTTCC
Found at i:9202913 original size:16 final size:17
Alignment explanation
Indices: 9202877--9202914 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9202867 TTACCTTTTT
9202877 TTTTTTACTTCATTTCC
1 TTTTTTACTTCATTTCC
*
9202894 -TTTTTCCTT-ATTTCC
1 TTTTTTACTTCATTTCC
9202909 TTTTTT
1 TTTTTT
9202915 TTCCGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTACTTCATTTCC
Found at i:9214369 original size:41 final size:41
Alignment explanation
Indices: 9214173--9214357 Score: 307
Period size: 41 Copynumber: 4.5 Consensus size: 41
9214163 ACCGGCACTT
* * * *
9214173 AGCCTGCTAGACATAAAGTCTGATATGTTTCACTGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
*
9214214 AGCCTGTTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
*
9214255 AGCCTGCTAGACGTAATTTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
*
9214296 AGCCTGCTAGATGTAATGTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
9214337 AGCCTGCTAGACGTAATGTCT
1 AGCCTGCTAGACGTAATGTCT
9214358 AGATTACTTC
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 134 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
Found at i:9214557 original size:12 final size:12
Alignment explanation
Indices: 9214540--9214564 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9214530 AAATTCATAA
9214540 ACATATATATAT
1 ACATATATATAT
9214552 ACATATATATAT
1 ACATATATATAT
9214564 A
1 A
9214565 AAGTCGAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:9215002 original size:2 final size:2
Alignment explanation
Indices: 9214997--9215034 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
9214987 ATTCGAATCT
*
9214997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9215035 CTTTGATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9220173 original size:34 final size:34
Alignment explanation
Indices: 9220130--9220205 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
9220120 CATTTTTTTT
*
9220130 TTTGGTGTGCTAGATGGATCAGCTCATATGAGCA
1 TTTGGTGTGCTAGATGGATCAGCTCATACGAGCA
* * *
9220164 TTTGGTGTGCTGGATGGATTAGCTCTTACGAGCA
1 TTTGGTGTGCTAGATGGATCAGCTCATACGAGCA
*
9220198 TCTGGTGT
1 TTTGGTGT
9220206 AACACCCTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.18, C:0.14, G:0.32, T:0.36
Consensus pattern (34 bp):
TTTGGTGTGCTAGATGGATCAGCTCATACGAGCA
Found at i:9222008 original size:43 final size:43
Alignment explanation
Indices: 9221958--9222062 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
9221948 TCCTAGATAT
* * *
9221958 GGTCTTACATGTTATCACATATCGATACCACTACCCCAGACAG
1 GGTCTTACACGTAATCACATATCGATACCAATACCCCAGACAG
* * ** *
9222001 GGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCACATATCGATACCAATACCCCAGACAG
*
9222044 GGTCTTACACGAAATCACA
1 GGTCTTACACGTAATCACA
9222063 CTCCAAGAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATACCAATACCCCAGACAG
Found at i:9226675 original size:60 final size:60
Alignment explanation
Indices: 9226609--9226727 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
9226599 AAAAAAAACT
* * *
9226609 AAAATAAATTTTCAAACAATAAATTTTATATATTATGACGAGAT-GACCATACTAGTTGAG
1 AAAATAAATTTTCAAACAATAAATTGTATATATTATCACGAGATCG-CCATACTAATTGAG
** *
9226669 AAAATAAATTTTCAAACAATGTATTGTATATATTATCATGAGATCGCCATACTAATTGA
1 AAAATAAATTTTCAAACAATAAATTGTATATATTATCACGAGATCGCCATACTAATTGA
9226728 TTTATCAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 51 0.98
61 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (60 bp):
AAAATAAATTTTCAAACAATAAATTGTATATATTATCACGAGATCGCCATACTAATTGAG
Found at i:9227192 original size:12 final size:13
Alignment explanation
Indices: 9227175--9227204 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9227165 CTAAGAGACT
9227175 AAAAA-TATATTA
1 AAAAATTATATTA
9227187 AAAAATTATATTA
1 AAAAATTATATTA
9227200 AAAAA
1 AAAAA
9227205 CACTATCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAATTATATTA
Found at i:9227265 original size:40 final size:42
Alignment explanation
Indices: 9227191--9227271 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 42
9227181 ATATTAAAAA
* * *
9227191 ATTATATTAAAAAACACTATCATAAATTTGATAAATGTTTTT
1 ATTATATTAAAAAACACTATAATAAATATGATAAATATTTTT
*
9227233 ATTATATTAAAAATCAC-A-AATAAATATGATAAATATTTT
1 ATTATATTAAAAAACACTATAATAAATATGATAAATATTTT
9227272 AGGCATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 18 0.51
41 1 0.03
42 16 0.46
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (42 bp):
ATTATATTAAAAAACACTATAATAAATATGATAAATATTTTT
Found at i:9227548 original size:20 final size:22
Alignment explanation
Indices: 9227513--9227552 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
9227503 CAGTAAATGG
9227513 TTTTAAAATTATTAAAATTATT
1 TTTTAAAATTATTAAAATTATT
9227535 TTTTAAAA-TA-TAAAATTA
1 TTTTAAAATTATTAAAATTA
9227553 CTAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTAAAATTATTAAAATTATT
Found at i:9227574 original size:37 final size:37
Alignment explanation
Indices: 9227518--9227594 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
9227508 AATGGTTTTA
9227518 AAATTATTAAAATTATTTTTTAAAATATAAAATTACT
1 AAATTATTAAAATTATTTTTTAAAATATAAAATTACT
* * *
9227555 AAATTATT-ATATTATTTTTTTGAAATATAAAATTATT
1 AAATTATTAAAATTA-TTTTTTAAAATATAAAATTACT
9227592 AAA
1 AAA
9227595 ATAGAACATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 5 0.14
37 31 0.86
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (37 bp):
AAATTATTAAAATTATTTTTTAAAATATAAAATTACT
Found at i:9228377 original size:27 final size:29
Alignment explanation
Indices: 9228314--9228384 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
9228304 GCAACGATCT
9228314 ATTTTAATAATTTTATATTTCAAAAAAATA
1 ATTTTAATAATTTTATATTT-AAAAAAATA
*
9228344 A-TATAATAATTTTATA-TT-AAAAAATA
1 ATTTTAATAATTTTATATTTAAAAAAATA
9228370 ATTTTAATAATTTTA
1 ATTTTAATAATTTTA
9228385 AAATCATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 9 0.24
27 12 0.32
28 2 0.05
29 14 0.37
30 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTTTAATAATTTTATATTTAAAAAAATA
Found at i:9230024 original size:16 final size:16
Alignment explanation
Indices: 9229990--9230032 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
9229980 AATTGAAATG
*
9229990 AATAT-ATATATGTGTA
1 AATATGATA-ATGTGCA
*
9230006 AATGTGATAATGTGCA
1 AATATGATAATGTGCA
9230022 AATATGATAAT
1 AATATGATAAT
9230033 TGGATATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (16 bp):
AATATGATAATGTGCA
Found at i:9232922 original size:27 final size:28
Alignment explanation
Indices: 9232892--9232946 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
9232882 CAATAATACG
9232892 AGCAAGACTAAAGAT-AAG-ATAAATAAA
1 AGCAA-ACTAAAGATAAAGAATAAATAAA
**
9232919 AGCAAACTAATTATAAAGAATAAATAAA
1 AGCAAACTAAAGATAAAGAATAAATAAA
9232947 TAAATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 8 0.33
28 9 0.38
ACGTcount: A:0.64, C:0.07, G:0.11, T:0.18
Consensus pattern (28 bp):
AGCAAACTAAAGATAAAGAATAAATAAA
Found at i:9234448 original size:19 final size:19
Alignment explanation
Indices: 9234402--9234448 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
9234392 GTTTTTTATT
*
9234402 TTTATTTTTGGGCTTGTAA
1 TTTATTTTTGGACTTGTAA
*
9234421 TTTATTTTTTGGACTGTTTAA
1 TTTA-TTTTTGGACT-TGTAA
9234442 -TTATTTT
1 TTTATTTT
9234449 GGAATTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.33
20 12 0.50
21 4 0.17
ACGTcount: A:0.17, C:0.04, G:0.15, T:0.64
Consensus pattern (19 bp):
TTTATTTTTGGACTTGTAA
Found at i:9234729 original size:25 final size:24
Alignment explanation
Indices: 9234701--9234754 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
9234691 GTTGAATAAT
* *
9234701 GGTAAGATCATACGAGCTGAGTATC
1 GGTAAGATCATAAGAGCTG-GAATC
* *
9234726 GGTAAGCTCATAAGAGTTGGAATC
1 GGTAAGATCATAAGAGCTGGAATC
9234750 GGTAA
1 GGTAA
9234755 CCCTAATGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (24 bp):
GGTAAGATCATAAGAGCTGGAATC
Found at i:9235751 original size:9 final size:9
Alignment explanation
Indices: 9235737--9235763 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9235727 CTAATAGCAA
9235737 TTGACTTTT
1 TTGACTTTT
9235746 TTGACTTTT
1 TTGACTTTT
9235755 TTGACTTTT
1 TTGACTTTT
9235764 ATAATTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (9 bp):
TTGACTTTT
Found at i:9237546 original size:41 final size:42
Alignment explanation
Indices: 9237488--9237600 Score: 120
Period size: 41 Copynumber: 2.7 Consensus size: 42
9237478 ATTTTTGAGG
* **
9237488 TATGATTTCGTGTAAGACCATATCTGGGGCATTGGCATCG-TA
1 TATGA-TTCGTGTAAGACCATATCTGGGACAGAGGCATCGATA
* *
9237530 TATGATTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATA
1 TATGATTCGTGTAAGACCATATCTGGGACAGAGGCATCGATA
* * * *
9237572 TGTGATAACATGTAAGACAATATCTGGGA
1 TATGAT-TCGTGTAAGACCATATCTGGGA
9237601 TATGGCATTG
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 29 0.50
42 12 0.21
43 17 0.29
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (42 bp):
TATGATTCGTGTAAGACCATATCTGGGACAGAGGCATCGATA
Found at i:9240139 original size:13 final size:13
Alignment explanation
Indices: 9240121--9240148 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9240111 TGTCATTTTG
9240121 CTTGAAATGTTAC
1 CTTGAAATGTTAC
9240134 CTTGAAATGTTAC
1 CTTGAAATGTTAC
9240147 CT
1 CT
9240149 AAATTTATTT
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:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (13 bp):
CTTGAAATGTTAC
Found at i:9244979 original size:26 final size:26
Alignment explanation
Indices: 9244950--9244999 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
9244940 TTTAAATTAA
*
9244950 ACTTTTCAAAAA-TACTTTTTCACAGC
1 ACTTTT-AAAAAGTACTTTTCCACAGC
9244976 ACTTTTAAAAAGTACTTTTCCACA
1 ACTTTTAAAAAGTACTTTTCCACA
9245000 ACTTGCGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (26 bp):
ACTTTTAAAAAGTACTTTTCCACAGC
Found at i:9246168 original size:29 final size:29
Alignment explanation
Indices: 9246126--9246186 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
9246116 GTCATCTAAT
*
9246126 TATGAAAAGTTACAAAATGATCACTTAAC
1 TATGAAAAGTTACAAAATGATCACTCAAC
9246155 TATGAAACA-TTACAAAATGATCACTCAAC
1 TATGAAA-AGTTACAAAATGATCACTCAAC
9246184 TAT
1 TAT
9246187 TTAATTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (29 bp):
TATGAAAAGTTACAAAATGATCACTCAAC
Found at i:9257884 original size:2 final size:2
Alignment explanation
Indices: 9257877--9257927 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
9257867 TAGTTATAAG
9257877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9257919 AT AT AT AT A
1 AT AT AT AT A
9257928 GATAGATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9257932 original size:4 final size:4
Alignment explanation
Indices: 9257925--9257951 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9257915 ATATATATAT
9257925 ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATA
9257952 ACATGATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:9264425 original size:30 final size:31
Alignment explanation
Indices: 9264326--9264427 Score: 77
Period size: 34 Copynumber: 3.2 Consensus size: 31
9264316 AGTGATTATC
*
9264326 TTAATATTAAATTTAAT-TCAATATTTATCTT
1 TTAATATTAAATTTAATCT-AATATTTATATT
* * *
9264357 TTAGATA--AATATTATATTCTATTAATTTAATAGAT
1 TTA-ATATTAA-ATT-TAATCTAAT-ATTT-ATA-TT
9264392 TTAATATTAAATTTAATCTAATATTTAT-TT
1 TTAATATTAAATTTAATCTAATATTTATATT
9264422 TTAATA
1 TTAATA
9264428 GGTATTATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 19
0.68 0.09 0.23
Matches are distributed among these distances:
30 9 0.16
31 6 0.11
32 10 0.18
33 9 0.16
34 12 0.22
35 7 0.13
36 2 0.04
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (31 bp):
TTAATATTAAATTTAATCTAATATTTATATT
Found at i:9267378 original size:20 final size:20
Alignment explanation
Indices: 9267353--9267394 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
9267343 CCCTCAAGAA
9267353 AAACCCTTATTGATTGACAT
1 AAACCCTTATTGATTGACAT
9267373 AAACCCTTATTGATTGACAT
1 AAACCCTTATTGATTGACAT
9267393 AA
1 AA
9267395 CTTAATTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (20 bp):
AAACCCTTATTGATTGACAT
Found at i:9273176 original size:22 final size:21
Alignment explanation
Indices: 9273141--9273274 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 21
9273131 AAAGGGTATC
* *
9273141 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
9273162 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
9273185 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* **
9273204 TATATGTCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
9273223 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
9273242 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
9273261 TGCATATCATATCT
1 TACAAATCATATCT
9273275 AAGATTGCAT
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.02
19 58 0.63
21 7 0.08
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:9273184 original size:23 final size:22
Alignment explanation
Indices: 9273141--9273198 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
9273131 AAAGGGTATC
* *
9273141 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
9273162 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
9273185 TGCATATCATATCT
1 TACAAATCATATCT
9273199 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9273201 original size:19 final size:19
Alignment explanation
Indices: 9273177--9273339 Score: 210
Period size: 19 Copynumber: 8.8 Consensus size: 19
9273167 AATCATATCT
9273177 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
9273196 TCTAAGATTATATGTCATA
1 TCTAAGATTGCATATCATA
9273215 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
9273234 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
9273253 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
9273272 TCTAAGATTG-----CATA
1 TCTAAGATTGCATATCATA
** *
9273286 TCTAAGATTATATGTCATA
1 TCTAAGATTGCATATCATA
9273305 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
9273324 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
9273340 CCTGAAGATT
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
14 13 0.11
19 110 0.89
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:9273291 original size:52 final size:52
Alignment explanation
Indices: 9273177--9273339 Score: 218
Period size: 52 Copynumber: 3.0 Consensus size: 52
9273167 AATCATATCT
** ** *
9273177 TCTAAGATTGCATATCATATCTAAGATTATATGTCATATCTAAGATTGCATATCATA
1 TCTAAGATTATATATCATATCTAAGATTGCATATCATATCTAAGATTG-----CATA
*
9273234 TCTAAGATTATATATTATATCTAAGATTGCATATCATATCTAAGATTGCATA
1 TCTAAGATTATATATCATATCTAAGATTGCATATCATATCTAAGATTGCATA
*
9273286 TCTAAGATTATATGTCATATCTAAGATTGCATATCATATCTAAGATTGCATA
1 TCTAAGATTATATATCATATCTAAGATTGCATATCATATCTAAGATTGCATA
9273338 TC
1 TC
9273340 CCTGAAGATT
Statistics
Matches: 98, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
52 56 0.57
57 42 0.43
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (52 bp):
TCTAAGATTATATATCATATCTAAGATTGCATATCATATCTAAGATTGCATA
Found at i:9273339 original size:14 final size:14
Alignment explanation
Indices: 9273268--9273320 Score: 61
Period size: 14 Copynumber: 3.4 Consensus size: 14
9273258 GATTGCATAT
9273268 CATATCTAAGATTG
1 CATATCTAAGATTG
9273282 CATATCTAAGATTATATG
1 CATATCTAAG---AT-TG
9273300 TCATATCTAAGATTG
1 -CATATCTAAGATTG
9273315 CATATC
1 CATATC
9273321 ATATCTAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 16 0.47
15 2 0.06
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.29
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (14 bp):
CATATCTAAGATTG
Found at i:9279702 original size:19 final size:19
Alignment explanation
Indices: 9279678--9279731 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
9279668 AATCATATCT
9279678 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
9279697 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
9279716 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
9279732 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:9279727 original size:38 final size:40
Alignment explanation
Indices: 9279655--9279731 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
9279645 AAATTAAATC
9279655 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
9279697 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
9279732 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:9280325 original size:45 final size:45
Alignment explanation
Indices: 9280268--9280736 Score: 210
Period size: 45 Copynumber: 10.7 Consensus size: 45
9280258 TTGTTTATTT
* * * *
9280268 AGTCTGCCCCACTACAATTTCAGGGGGATAAGACTTGATTTCTTG
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGATTTCTTG
* * *
9280313 AGTCTGCTCCACTGCAGCTTCAGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGATTTCTTG
* * *
9280358 GGTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGA-TGC--G
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGATTTCTTG
* * * *
9280400 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGA-CT-CGATTTCTTG
* ** * * * * * *
9280442 AATCCACTCCACTGCAAATTCAGGGAGATAGGA-T-TATTGGCTTT
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGATT-TCTTG
* * * * *** *
9280486 AATCTGCTCCACTGCAACTTCAGGTAGATAAGATTCGCCATCTTC
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGATTTCTTG
* * * * *
9280531 AGTCTGC-CTCACTACAACTTTA-GGAGGATAAGGCTTGCTTACTT-
1 AGTCTGCTC-CACTACAACTTCAGGGA-GATAAGACTCGATTTCTTG
* * * *
9280575 AGTCTGCTCCACTGCAAATTCAGGGAGATAAGACTAGA--T-GTG
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGATTTCTTG
* * * *
9280617 A-TCTGCTCTA-TGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGA-CT-CGATTTCTTG
* * * * * * * *
9280659 AATCCGCTCCACATGCGACTTCAGGGAGATAGGA-T-TATTGGCTTT
1 AGTCTGCTCCAC-TACAACTTCAGGGAGATAAGACTCGATT-TCTTG
* *
9280704 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 AGTCTGCTCCACTACAACTTCAGGGAGATAAGA
9280737 TTTGTCATCT
Statistics
Matches: 325, Mismatches: 72, Indels: 55
0.72 0.16 0.12
Matches are distributed among these distances:
40 41 0.13
41 20 0.06
42 11 0.03
43 16 0.05
44 100 0.31
45 137 0.42
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (45 bp):
AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTCGATTTCTTG
Found at i:9280464 original size:44 final size:43
Alignment explanation
Indices: 9280409--9280738 Score: 140
Period size: 44 Copynumber: 7.5 Consensus size: 43
9280399 GATCTGCTCT
*
9280409 CTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAATCCACTCCA
1 CTGCAACTTCAG-GAGATAAGAT-TAGTGACTTTAATCCACTCCA
* * * * **
9280453 CTGCAAATTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCA
1 CTGCAACTTCA-GGAGATAAGATTAGTGACTTTAATCCACTCCA
* ** * *
9280497 CTGCAACTTCAGGTAGATAAGATTCGCCATCTTCAGTCTGC-CT-CA
1 CTGCAACTTCAGG-AGATAAGATTAGTGA-CTTTAATC--CACTCCA
* * * * * **
9280542 CTACAACTTTAGGAGGATAAGGCTT-GCTTAC-TTAGTCTGCTCCA
1 CTGCAACTTCAGGA-GATAA-GATTAG-TGACTTTAATCCACTCCA
* * * * ** *
9280586 CTGCAAATTCAGGGAGATAAGACTA--GA-TGTGATCTGCTCTA
1 CTGCAACTTCA-GGAGATAAGATTAGTGACTTTAATCCACTCCA
* *
9280627 -TGCAACTTCAGAGAGATAAGATCT-GTGATTTTAATCCGCTCCA
1 CTGCAACTTCAG-GAGATAAGAT-TAGTGACTTTAATCCACTCCA
* * * * **
9280670 CATGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCA
1 C-TGCAACTTCA-GGAGATAAGATTAGTGACTTTAATCCACTCCA
9280715 CTGCAACTTCAGGGAGATAAGATT
1 CTGCAACTTCA-GGAGATAAGATT
9280739 TGTCATCTTA
Statistics
Matches: 215, Mismatches: 48, Indels: 46
0.70 0.16 0.15
Matches are distributed among these distances:
39 1 0.00
40 18 0.08
41 11 0.05
42 2 0.01
43 17 0.08
44 95 0.44
45 64 0.30
46 7 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
CTGCAACTTCAGGAGATAAGATTAGTGACTTTAATCCACTCCA
Found at i:9280633 original size:217 final size:218
Alignment explanation
Indices: 9280359--9280753 Score: 666
Period size: 217 Copynumber: 1.8 Consensus size: 218
9280349 GCTTTCTTGG
* * *
9280359 GTCTGCTCCACTACAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCTGCAACTTCAGAGA
1 GTCTGCTCCACTACAAATTCAGGGAGATAAGACCAGATGCGATCTGCTCTATGCAACTTCAGAGA
9280424 GATAAGATCTGTGATTTTAATCCACTCCAC-TGCAAATTCAGGGAGATAGGATTATTGGCTTTAA
66 GATAAGATCTGTGATTTTAATCCACTCCACATGCAAATTCAGGGAGATAGGATTATTGGCTTTAA
* *
9280488 TCTGCTCCACTGCAACTTCAGGTAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTTA
131 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTAAGTCTGCCTCACTACAACTTTA
9280553 GGAGGATAAGGCTTGCTTACTTA
196 GGAGGATAAGGCTTGCTTACTTA
* * *
9280576 GTCTGCTCCACTGCAAATTCAGGGAGATAAGACTAGATGTGATCTGCTCTATGCAACTTCAGAGA
1 GTCTGCTCCACTACAAATTCAGGGAGATAAGACCAGATGCGATCTGCTCTATGCAACTTCAGAGA
* * *
9280641 GATAAGATCTGTGATTTTAATCCGCTCCACATGCGACTTCAGGGAGATAGGATTATTGGCTTTAA
66 GATAAGATCTGTGATTTTAATCCACTCCACATGCAAATTCAGGGAGATAGGATTATTGGCTTTAA
* *
9280706 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTAAGTCT
131 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTAAGTCT
9280754 TTTAAATTGC
Statistics
Matches: 164, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
217 88 0.54
218 76 0.46
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (218 bp):
GTCTGCTCCACTACAAATTCAGGGAGATAAGACCAGATGCGATCTGCTCTATGCAACTTCAGAGA
GATAAGATCTGTGATTTTAATCCACTCCACATGCAAATTCAGGGAGATAGGATTATTGGCTTTAA
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTAAGTCTGCCTCACTACAACTTTA
GGAGGATAAGGCTTGCTTACTTA
Found at i:9281172 original size:44 final size:44
Alignment explanation
Indices: 9281124--9281223 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
9281114 CGCTGTTGCT
* *
9281124 CAGGGAGATAGGA-TTCACTATCTTCAACCTATTCCACTATTGAC
1 CAGGGAGATAGGACTT-ACAATCTTCAACCTATTCCACTACTGAC
* *
9281168 CAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGTC
1 CAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGAC
9281212 CAGGGAGATAGG
1 CAGGGAGATAGG
9281224 GCTGGGGTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 49 0.96
45 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (44 bp):
CAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTACTGAC
Found at i:9281377 original size:88 final size:88
Alignment explanation
Indices: 9281234--9281624 Score: 611
Period size: 88 Copynumber: 4.4 Consensus size: 88
9281224 GCTGGGGTCA
* * *
9281234 TCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACTTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* *
9281299 CCAGAGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGTTGGTGTCT
* * *
9281322 TCGATCTACTTCACTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
9281387 CCAGGGAGGCAAGGTTAGTGTCT
66 CCAGGGAGGCAAGGTTGGTGTCT
* * *
9281410 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTGAACCTGCTCCACTATAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
**
9281475 CCAGGGATACAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGTTGGTGTCT
* * * *
9281498 TCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTACTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
9281563 CCAGGGAAGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGTTGGTGTCT
9281586 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
9281625 TTATCTTCAC
Statistics
Matches: 274, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 274 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAGGGAGGCAAGGTTGGTGTCT
Found at i:9281614 original size:43 final size:44
Alignment explanation
Indices: 9281305--9281619 Score: 127
Period size: 44 Copynumber: 7.2 Consensus size: 44
9281295 CAACCCAGAG
* * *
9281305 AGGCAAGGCTGGTGTCTTCGATCTACTTCACTGTCGGTGCAGGA
1 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* * * * ** * * * **** *
9281349 AGGCAAGATTTGCTATTTTTAACCTGCTCCGCT-ACAACCCAGGG
1 AGGCAAG-GTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
*
9281393 AGGCAAGGTTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* * * * * * * * **** *
9281437 AGGCAAGATCTGCTAT-TTTGAACCTGCTCCACTAT-AACCCAGGG
1 AGGCAAGGT-TGGTGTCTTCG-ATCTGCTTCGCTGTCGGTGCAGGA
** *
9281481 ATACAAGGTTGGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGA
1 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* * * * ** * * * ****
9281525 AGGCAAGATTTGCTATTTTTAACCTACTCCGCTG-CAACCCAGGGA
1 AGGCAAG-GTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCA-GGA
9281570 A-GCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
9281613 AGGCAAG
1 AGGCAAG
9281620 ATCTGTTATC
Statistics
Matches: 170, Mismatches: 91, Indels: 20
0.60 0.32 0.07
Matches are distributed among these distances:
43 50 0.29
44 73 0.43
45 47 0.28
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (44 bp):
AGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
Found at i:9282980 original size:14 final size:15
Alignment explanation
Indices: 9282957--9282989 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9282947 ATCGACGCTT
9282957 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
9282971 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
9282986 TTCC
1 TTCC
9282990 TAGCTTGGGA
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:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:9283867 original size:25 final size:26
Alignment explanation
Indices: 9283816--9283876 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
9283806 AAGAAAATCC
* **
9283816 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
9283842 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
9283867 AAAATGAATG
1 AAAA-GAATG
9283877 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:9288182 original size:23 final size:22
Alignment explanation
Indices: 9288139--9288253 Score: 70
Period size: 19 Copynumber: 5.6 Consensus size: 22
9288129 AAATGGTATC
* *
9288139 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
9288160 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
9288183 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
9288202 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
9288221 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
9288240 TACATATCATATCT
1 TACAAATCATATCT
9288254 AAGATTGCAT
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
19 56 0.67
21 3 0.04
22 15 0.18
23 10 0.12
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9288199 original size:19 final size:19
Alignment explanation
Indices: 9288175--9288266 Score: 175
Period size: 19 Copynumber: 4.8 Consensus size: 19
9288165 AATCATATCT
9288175 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
9288194 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
9288213 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
9288232 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
9288251 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
9288267 CTTGAAGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 71 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:9288221 original size:38 final size:38
Alignment explanation
Indices: 9288152--9288266 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
9288142 AAATTAAATC
*
9288152 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
*
9288194 TCTAAGATTGCATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
9288232 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
9288267 CTTGAAGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 53 0.76
41 7 0.10
42 10 0.14
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:9288399 original size:15 final size:14
Alignment explanation
Indices: 9288368--9288398 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9288358 AATTTTGGAC
*
9288368 TTTGTTTTATTATT
1 TTTGGTTTATTATT
9288382 TTTGGTTTATTATT
1 TTTGGTTTATTATT
9288396 TTT
1 TTT
9288399 TTATGAGCCC
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:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTGGTTTATTATT
Found at i:9288514 original size:51 final size:52
Alignment explanation
Indices: 9288446--9288642 Score: 206
Period size: 51 Copynumber: 3.9 Consensus size: 52
9288436 TTTCATGATA
* * * * *
9288446 CCGGTTCACATAGTAGCCTGCACACAGTACTACACATGTGGCCATCA-CTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
** *
9288497 CCAATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCAGCTAT
* * * * * *
9288548 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-T-ATCTTT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
**
9288598 TTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
9288643 AACTTTCACT
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
50 43 0.36
51 74 0.62
52 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (52 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
Found at i:9288661 original size:101 final size:101
Alignment explanation
Indices: 9288446--9288676 Score: 261
Period size: 101 Copynumber: 2.3 Consensus size: 101
9288436 TTTCATGATA
* *
9288446 CCGGTTCACATAGTAGCCTGCACACAGTACTACACATGTGGCCATCACTATCCAATACACGTAGT
1 CCGGTTCACATAGTAGCCTGCACACAGTACTACACATGCGACCAT-ACTATCCAATACACGTAGT
* *
9288511 AGCCTGCACATAGTACTACACACGTGATCGAAGCTAT
65 AGCCTGCACATAGTACTACACACGTGATCCAAACTAT
* * * * ****
9288548 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCTTTTTGGTACACGTAGT
1 CCGGTTCACATAGTAGCCTGCACACAGTACTACACATGCGACCATA-CTATCCAATACACGTAGT
*
9288612 AGCCTGCACATAGTACTACACACGTGA-CCATAACTTT
65 AGCCTGCACATAGTACTACACACGTGATCCA-AACTAT
* * *
9288649 CAC-TTTCACATAGTGGCCTACACACAGT
1 C-CGGTTCACATAGTAGCCTGCACACAGT
9288677 CCATGCCACA
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
100 3 0.03
101 65 0.61
102 39 0.36
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (101 bp):
CCGGTTCACATAGTAGCCTGCACACAGTACTACACATGCGACCATACTATCCAATACACGTAGTA
GCCTGCACATAGTACTACACACGTGATCCAAACTAT
Found at i:9294295 original size:16 final size:16
Alignment explanation
Indices: 9294274--9294305 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9294264 GTTTTGTTGC
9294274 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
9294290 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
9294306 CTTTCAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTACTTTTTCA
Found at i:9294592 original size:51 final size:51
Alignment explanation
Indices: 9294534--9294724 Score: 219
Period size: 51 Copynumber: 3.8 Consensus size: 51
9294524 CTAATTCACA
*
9294534 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * * * *
9294585 TAGTAGCCTGCACATAGTACTAAACACGTGA--TTGAAGCTATCCGATACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT-CA-CTATCCGATACACG
* * * * *
9294636 TAGTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGATACACG
*
9294686 TAATAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
9294725 TTCAATTTCA
Statistics
Matches: 114, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
49 5 0.04
50 38 0.33
51 69 0.61
53 1 0.01
54 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:9294701 original size:101 final size:102
Alignment explanation
Indices: 9294532--9294716 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
9294522 TACTAATTCA
* *
9294532 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAATAGCCTGCA
9294597 CATAGTACTAAACACGTGATTGAAGCTATCCGATACG
66 CATAGTACTAAACACGTGATTGAAGCTATCCGATACG
* * *
9294634 CATAGTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAATAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAATAGCCTGC
*
9294697 ACATAGTACTACACACGTGA
65 ACATAGTACTAAACACGTGA
9294717 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 38 0.50
102 34 0.45
103 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAATAGCCTGCA
CATAGTACTAAACACGTGATTGAAGCTATCCGATACG
Found at i:9299688 original size:35 final size:35
Alignment explanation
Indices: 9299649--9299725 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
9299639 TATCACCTAA
* *
9299649 AAGGACCCGATAACCTTTTCCAT-AGTGTTGCCCCG
1 AAGGACCCGATAACCGTTTCC-TCAGTGTCGCCCCG
* * *
9299684 AAGGACCTGATAATCGTTTCCTCGGTGTCGCCCCG
1 AAGGACCCGATAACCGTTTCCTCAGTGTCGCCCCG
9299719 AAGGACC
1 AAGGACC
9299726 TGTCGAATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 1 0.03
35 35 0.97
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.23
Consensus pattern (35 bp):
AAGGACCCGATAACCGTTTCCTCAGTGTCGCCCCG
Found at i:9303317 original size:12 final size:12
Alignment explanation
Indices: 9303302--9303339 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
9303292 AAATTACAGT
9303302 AAAAATATTTTA
1 AAAAATATTTTA
*
9303314 AAAATTA-TTTA
1 AAAAATATTTTA
9303325 AAAAAT-TTTTA
1 AAAAATATTTTA
9303336 AAAA
1 AAAA
9303340 TAAATCTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAAATATTTTA
Found at i:9304339 original size:32 final size:34
Alignment explanation
Indices: 9304273--9304345 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 34
9304263 GAAGGTGAGT
*
9304273 AATCAAAACTTTTAGTTGATTTATTTTTTTGCTTC
1 AATC-AAACTTTTAGTTGATTTATTTTTTAGCTTC
* *
9304308 AATCAAATTTTTA-TTTATTTA-TTTTTAGCTTC
1 AATCAAACTTTTAGTTGATTTATTTTTTAGCTTC
9304340 AATCAA
1 AATCAA
9304346 GCATGGAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 16 0.46
33 7 0.20
34 8 0.23
35 4 0.11
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.53
Consensus pattern (34 bp):
AATCAAACTTTTAGTTGATTTATTTTTTAGCTTC
Found at i:9310550 original size:74 final size:74
Alignment explanation
Indices: 9310457--9310602 Score: 184
Period size: 74 Copynumber: 2.0 Consensus size: 74
9310447 TTTAACATTG
* * ** * *
9310457 TTTTCTTACCAAATTAATATTTAAATACTATTTTGTATTTGTTTTTCAAATTAAAATAAAAATGT
1 TTTTCTTACCAAATCAATATTTAAATACTACTTTGTATTAATTTATCAAATTAAAATAAAAATAT
9310522 TACCAAACA
66 TACCAAACA
* * ** *
9310531 TTTTTTTATCAAATCAATATTTAGCTACTACTTTGTATTAATTTATCAAATTAAACTAAAAATAT
1 TTTTCTTACCAAATCAATATTTAAATACTACTTTGTATTAATTTATCAAATTAAAATAAAAATAT
*
9310596 TTCCAAA
66 TACCAAA
9310603 TTTATAAACT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (74 bp):
TTTTCTTACCAAATCAATATTTAAATACTACTTTGTATTAATTTATCAAATTAAAATAAAAATAT
TACCAAACA
Found at i:9311825 original size:264 final size:264
Alignment explanation
Indices: 9311355--9311886 Score: 1037
Period size: 264 Copynumber: 2.0 Consensus size: 264
9311345 TGCCTTTTTC
9311355 TATCACCAGAATGTTTGAAAATACAAAGAAGAAAAGGAAGAGTTTTGAGAGAAACAGAGTTTCGT
1 TATCACCAGAATGTTTGAAAATACAAAGAAGAAAAGGAAGAGTTTTGAGAGAAACAGAGTTTCGT
9311420 TAAGAGAAAAATATCAAAGAGTATTTTCTTGTGTAAAACCCTTCAGAAATCATGGTCTTTTATAG
66 TAAGAGAAAAATATCAAAGAGTATTTTCTTGTGTAAAACCCTTCAGAAATCATGGTCTTTTATAG
9311485 GCATGGAGAATGTTGAAATTTTGAAAAAAGTATCCACAAAATCTGCCATAATTTTAATCAAATCA
131 GCATGGAGAATGTTGAAATTTTGAAAAAAGTATCCACAAAATCTGCCATAATTTTAATCAAATCA
9311550 ATAAGGTAAGTATCCTTATATAAGCAGATTATGTTTGCTGAGGAAAATAAAAATCATGTTAGACT
196 ATAAGGTAAGTATCCTTATATAAGCAGATTATGTTTGCTGAGGAAAATAAAAATCATGTTAGACT
9311615 AAAA
261 AAAA
9311619 TATCACCAGAATGTTTGAAAATACAAAGAAGAAAAGGAAGAGTTTTGAGAGAAACAGAGTTTCGT
1 TATCACCAGAATGTTTGAAAATACAAAGAAGAAAAGGAAGAGTTTTGAGAGAAACAGAGTTTCGT
9311684 TAAGAGAAAAATATCAAAGAGTATTTTCTTGTGTAAAACCCTTCAGAAATCATGGTCTTTTATAG
66 TAAGAGAAAAATATCAAAGAGTATTTTCTTGTGTAAAACCCTTCAGAAATCATGGTCTTTTATAG
*
9311749 GCATGGAGAATGTTGAAATTTTGAAAAAAGTATCCACAAAATCTGCCATAATTTTAATCAATTCA
131 GCATGGAGAATGTTGAAATTTTGAAAAAAGTATCCACAAAATCTGCCATAATTTTAATCAAATCA
* *
9311814 ATAAGGTAAGTATCCTTATATAAGTAGATTATGTTTGCTGAGGAAAATAAAAATTATGTTAGACT
196 ATAAGGTAAGTATCCTTATATAAGCAGATTATGTTTGCTGAGGAAAATAAAAATCATGTTAGACT
9311879 AAAA
261 AAAA
9311883 TATC
1 TATC
9311887 CACAAGTCCT
Statistics
Matches: 265, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
264 265 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (264 bp):
TATCACCAGAATGTTTGAAAATACAAAGAAGAAAAGGAAGAGTTTTGAGAGAAACAGAGTTTCGT
TAAGAGAAAAATATCAAAGAGTATTTTCTTGTGTAAAACCCTTCAGAAATCATGGTCTTTTATAG
GCATGGAGAATGTTGAAATTTTGAAAAAAGTATCCACAAAATCTGCCATAATTTTAATCAAATCA
ATAAGGTAAGTATCCTTATATAAGCAGATTATGTTTGCTGAGGAAAATAAAAATCATGTTAGACT
AAAA
Found at i:9321351 original size:29 final size:29
Alignment explanation
Indices: 9321309--9321385 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
9321299 AATGTTCTTA
9321309 CGAGCACATA-AACGGGAAGCTCTCTTTAT
1 CGAGC-CATATAACGGGAAGCTCTCTTTAT
9321338 CGAGCCATATAACGGGAAGCTCTCTTTAT
1 CGAGCCATATAACGGGAAGCTCTCTTTAT
9321367 CGAGCCATATAACGGGAAG
1 CGAGCCATATAACGGGAAG
9321386 GTCATGTGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 4 0.09
29 43 0.91
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (29 bp):
CGAGCCATATAACGGGAAGCTCTCTTTAT
Found at i:9321421 original size:25 final size:26
Alignment explanation
Indices: 9321337--9321440 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 26
9321327 GCTCTCTTTA
* * *
9321337 TCGAGCCATATAACGGGAAGCTCTCTTTA
1 TCGAGTCATATAACGGGAAG--CTC-ATG
* *
9321366 TCGAGCCATATAACGGGAAGGTCATG
1 TCGAGTCATATAACGGGAAGCTCATG
*
9321392 T-GAGTCATATAATGGGAAGCTCAT-
1 TCGAGTCATATAACGGGAAGCTCATG
** *
9321416 TCGAGTTGTATAACGAGAAGCTCAT
1 TCGAGTCATATAACGGGAAGCTCAT
9321441 AAAAGCCGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
24 1 0.02
25 39 0.61
26 2 0.03
27 2 0.03
29 20 0.31
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (26 bp):
TCGAGTCATATAACGGGAAGCTCATG
Found at i:9321512 original size:25 final size:25
Alignment explanation
Indices: 9321449--9321522 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 25
9321439 ATAAAAGCCG
* ** * *
9321449 TAATCGGGAAGCTCAGGTGAGCTAA
1 TAATCGGGAAGCTCCGGAAAGCCAT
9321474 TAAT-GGGTAA-CTCCGGAAAGCCAT
1 TAATCGGG-AAGCTCCGGAAAGCCAT
9321498 TAATCGGGAAGCTCC-GAAGAGCCAT
1 TAATCGGGAAGCTCCGGAA-AGCCAT
9321523 ATATCAAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
24 21 0.52
25 19 0.47
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.19
Consensus pattern (25 bp):
TAATCGGGAAGCTCCGGAAAGCCAT
Found at i:9321573 original size:24 final size:25
Alignment explanation
Indices: 9321500--9321604 Score: 83
Period size: 24 Copynumber: 4.3 Consensus size: 25
9321490 AAAGCCATTA
*
9321500 ATCGGGAAGCTC-CGAAGAGCC-ATAT
1 ATCGGGAAGCTCATG-AGAGCCTA-AT
** * *
9321525 ATCAAGAAGCTCAAGAAAGCC-AAT
1 ATCGGGAAGCTCATGAGAGCCTAAT
*
9321549 ATCGGGATGCTCATGAGAG-CTAAT
1 ATCGGGAAGCTCATGAGAGCCTAAT
* * *
9321573 AACGGGAAGCTCGTGAGAGCCTATT
1 ATCGGGAAGCTCATGAGAGCCTAAT
9321598 ATCGGGA
1 ATCGGGA
9321605 CACTCATAAG
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
23 1 0.02
24 35 0.56
25 26 0.41
26 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (25 bp):
ATCGGGAAGCTCATGAGAGCCTAAT
Found at i:9332664 original size:17 final size:17
Alignment explanation
Indices: 9332642--9332680 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9332632 GGTTTCGTGG
*
9332642 CCACACAGGCGTCTGCC
1 CCACACAGGCATCTGCC
* *
9332659 CCACACGGGCATTTGCC
1 CCACACAGGCATCTGCC
9332676 CCACA
1 CCACA
9332681 TGGGCTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.46, G:0.21, T:0.13
Consensus pattern (17 bp):
CCACACAGGCATCTGCC
Found at i:9332685 original size:17 final size:17
Alignment explanation
Indices: 9332655--9332714 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
9332645 CACAGGCGTC
*
9332655 TGCCCCACACGGGCATT
1 TGCCCCACACGGGCATG
*
9332672 TGCCCCACATGGGC-TGG
1 TGCCCCACACGGGCAT-G
*
9332689 AGCCCCACACGGGCATG
1 TGCCCCACACGGGCATG
9332706 TGCCCCACA
1 TGCCCCACA
9332715 TGGGTGGCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 1 0.03
17 34 0.94
18 1 0.03
ACGTcount: A:0.18, C:0.42, G:0.27, T:0.13
Consensus pattern (17 bp):
TGCCCCACACGGGCATG
Found at i:9334465 original size:30 final size:30
Alignment explanation
Indices: 9334429--9334491 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
9334419 TTTTCAGAAA
9334429 ACATGCCCGTGTGATCAGGCCGAGTGGTTC
1 ACATGCCCGTGTGATCAGGCCGAGTGGTTC
*
9334459 ACATGCCCGTGTGATCAGGCCGTGTGGTTC
1 ACATGCCCGTGTGATCAGGCCGAGTGGTTC
9334489 ACA
1 ACA
9334492 CGATCAAGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (30 bp):
ACATGCCCGTGTGATCAGGCCGAGTGGTTC
Found at i:9338714 original size:25 final size:25
Alignment explanation
Indices: 9338683--9338825 Score: 102
Period size: 25 Copynumber: 5.8 Consensus size: 25
9338673 GCTCTCTCTC
9338683 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGT
* *
9338708 GAGCCATGTAGCGGGAAGCTCAT-T
1 GAGCCATATAACGGGAAGCTCATGT
** * *
9338732 CGAGCTGTATAATGGAAAGCTCATAG-
1 -GAGCCATATAACGGGAAGCTCAT-GT
* * *
9338758 GAGCCATA-ATCGAGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATGT
*
9338782 GAGCCA-ATAACGGGTAA-CTC-TGGA
1 GAGCCATATAACGGG-AAGCTCAT-GT
9338806 GAGCCAT-TAATCGGGAAGCT
1 GAGCCATATAA-CGGGAAGCT
9338826 TCGAATAGCC
Statistics
Matches: 91, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
23 3 0.03
24 36 0.40
25 52 0.57
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGT
Found at i:9342969 original size:20 final size:20
Alignment explanation
Indices: 9342944--9343009 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
9342934 CACATATGTG
9342944 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCAGTA
** * * *
9342964 CCCCTGAATGCACAT-ATGTG
1 CCCCTGTTTGTACTTCA-GTA
* *
9342984 TCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCAGTA
9343004 CCCCTG
1 CCCCTG
9343010 AATGCATATA
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCAGTA
Found at i:9342983 original size:40 final size:40
Alignment explanation
Indices: 9342928--9343015 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
9342918 AATTATTGTA
9342928 TGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCC
* *
9342968 TGAATGCACATATGTGTCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCC
9343008 TGAATGCA
1 TGAATGCA
9343016 TATACATGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.33
Consensus pattern (40 bp):
TGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCC
Found at i:9354958 original size:12 final size:13
Alignment explanation
Indices: 9354938--9354973 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
9354928 AAAATTCTCT
9354938 TTTCTTTTCTTTA
1 TTTCTTTTCTTTA
9354951 TTTC-TTTCTTTA
1 TTTCTTTTCTTTA
*
9354963 TTTTTTTTCTT
1 TTTCTTTTCTT
9354974 CAATTCAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTCTTTA
Found at i:9356594 original size:11 final size:11
Alignment explanation
Indices: 9356578--9356607 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9356568 TAAAAGATAA
9356578 GAATTTATTTT
1 GAATTTATTTT
9356589 GAATTTATTTT
1 GAATTTATTTT
*
9356600 GAAATTAT
1 GAATTTAT
9356608 AAAAAGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (11 bp):
GAATTTATTTT
Found at i:9358410 original size:3 final size:3
Alignment explanation
Indices: 9358402--9358437 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
9358392 GACCATGAAT
*
9358402 ATA ATA ATA ATA ACA ATA ATAA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA AT
9358438 GATACAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Done.