Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 26 of 144
Found at i:6394742 original size:34 final size:34
Alignment explanation
Indices: 6394654--6394747 Score: 116
Period size: 34 Copynumber: 2.8 Consensus size: 34
6394644 TATTAATTAT
* * * * *
6394654 TTAATTAAATATTTAATTACTAAAAACAACCTAA
1 TTAATTAATTATTTAATTATTTAAATCAACCCAA
* *
6394688 ATACTTAATTATTTAATTATTTAAATCAACCCAA
1 TTAATTAATTATTTAATTATTTAAATCAACCCAA
*
6394722 TTAATTAATTATTTATTTATTTAAAT
1 TTAATTAATTATTTAATTATTTAAAT
6394748 ATTAAAAACA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.45
Consensus pattern (34 bp):
TTAATTAATTATTTAATTATTTAAATCAACCCAA
Found at i:6394769 original size:60 final size:60
Alignment explanation
Indices: 6394705--6394826 Score: 138
Period size: 60 Copynumber: 2.0 Consensus size: 60
6394695 ATTATTTAAT
** * *
6394705 TATTTAAATCAACCCAATTAATTAATT-ATTTATTTATTTAAATATTAAAAACAACCCAAA
1 TATTTAAATCAAAACAATTAATTAATTAATTGAATT-TTTAAATATTAAAAACAACCCAAA
* * * * * *
6394765 TATTTCATTCAAAATATTTAATTATTTAATTGAATTTTTAATTATTAAAAACAACCCAAA
1 TATTTAAATCAAAACAATTAATTAATTAATTGAATTTTTAAATATTAAAAACAACCCAAA
6394825 TA
1 TA
6394827 AATTTGATGA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 45 0.88
61 6 0.12
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (60 bp):
TATTTAAATCAAAACAATTAATTAATTAATTGAATTTTTAAATATTAAAAACAACCCAAA
Found at i:6404591 original size:29 final size:30
Alignment explanation
Indices: 6404559--6404615 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6404549 GTGTAATTGC
* *
6404559 ATATAT-AAATTTTAATTTTATGCAATTTT
1 ATATATGAAATTTTAATTTGATCCAATTTT
*
6404588 ATATATGAAATTTTGATTTGATCCAATT
1 ATATATGAAATTTTAATTTGATCCAATT
6404616 CTTGTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (30 bp):
ATATATGAAATTTTAATTTGATCCAATTTT
Found at i:6407221 original size:9 final size:9
Alignment explanation
Indices: 6407207--6407233 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6407197 AAAATATTTA
6407207 TTTTAATAT
1 TTTTAATAT
6407216 TTTTAATAT
1 TTTTAATAT
6407225 TTTTAATAT
1 TTTTAATAT
6407234 ATTATATATA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTAATAT
Found at i:6407242 original size:18 final size:18
Alignment explanation
Indices: 6407207--6407258 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
6407197 AAAATATTTA
*
6407207 TTTTAATAT-TTTTAATAT
1 TTTTAATATATTAT-ATAT
6407225 TTTTAATATATTATATAT
1 TTTTAATATATTATATAT
* *
6407243 ATTTAA-AAATTATATA
1 TTTTAATATATTATATA
6407259 AAAATATTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.30
18 18 0.60
19 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTAATATATTATATAT
Found at i:6407266 original size:21 final size:20
Alignment explanation
Indices: 6407241--6407290 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
6407231 TATATTATAT
*
6407241 ATATTTAAAAATTATATAAAA
1 ATATTTAAAAA-AATATAAAA
6407262 ATATTTCAAAAAAATATAAAA
1 ATATTT-AAAAAAATATAAAA
*
6407283 AAATTTAA
1 ATATTTAA
6407291 TACGGGCGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.73
22 5 0.19
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATATTTAAAAAAATATAAAA
Found at i:6416658 original size:21 final size:20
Alignment explanation
Indices: 6416634--6416681 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
6416624 TTTTTTAATC
6416634 ATTAAATATATTATTTTTATA
1 ATTAAATA-ATTATTTTTATA
*
6416655 ATTAAA-AATTATATTTATTA
1 ATTAAATAATTATTTTTA-TA
6416675 ATTAAAT
1 ATTAAAT
6416682 TAAAGTTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.38
20 9 0.38
21 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTAAATAATTATTTTTATA
Found at i:6418243 original size:13 final size:13
Alignment explanation
Indices: 6418206--6418251 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 13
6418196 AAACAATAGC
6418206 TAATTAATATAAT
1 TAATTAATATAAT
6418219 TATTCTATTAATATAAT
1 TA----ATTAATATAAT
6418236 TAATTAATATAAT
1 TAATTAATATAAT
6418249 TAA
1 TAA
6418252 GATGCTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 16 0.55
17 13 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTAATATAAT
Found at i:6431148 original size:214 final size:207
Alignment explanation
Indices: 6430730--6431160 Score: 729
Period size: 214 Copynumber: 2.0 Consensus size: 207
6430720 AATATGGGCG
* *
6430730 TGGAACTTCATAAATGCAGCATTTAGCTATATAAGTTCATATGCTTGGTCCCAGTTAATTGGTTG
1 TGGAACCTCATAAATGCAGCATTTAGCTATATAAGTTCATATGCTTGGTCCCACTTAATTGGTTG
6430795 ACATTTGCATTACAAGATCTTATAGACAACCGAGCAATGTTGTTGTATTACCCACGGTTCCACTT
66 ACATTTGCATTACAAGATCTTATAGACAACCGAGCAATGTTGTTGTATTACCCACGGTTCCACTT
*
6430860 AATTTCAAATTTATTGCAATCCATTTTCTTCTCCGACATTTGTACTTTATTAAATGCAACCAAGT
131 AAATTCAAATTTATTGCAATCCATTTTCTTCTCCGACATTTGTACTTTATTAAATGCAACCAAGT
6430925 GTTTTAGAGTAA
196 GTTTTAGAGTAA
6430937 TGGAACCTCATAAATGCAGCATTTAGCTATATAAGTTCATATGCTTGGTCCCACTTAATTGGTTG
1 TGGAACCTCATAAATGCAGCATTTAGCTATATAAGTTCATATGCTTGGTCCCACTTAATTGGTTG
**
6431002 ACATTTGCATTACGTGATCTTATAGACAACCGAGCAATGTTGTTTGTTGTTGTATTACCCACGGT
66 ACATTTGCATTACAAGATCTTATAGACAACCGAGCAA-------TGTTGTTGTATTACCCACGGT
*
6431067 TCCACTTAAATTCAAATTTATTGCGATCCATTTTCTTCTCCGATC-TTTGTACTTTATTAAATGC
124 TCCACTTAAATTCAAATTTATTGCAATCCATTTTCTTCTCCGA-CATTTGTACTTTATTAAATGC
6431131 AACCAAGTGTTTTAGAGTAA
188 AACCAAGTGTTTTAGAGTAA
6431151 TGGAACCTCA
1 TGGAACCTCA
6431161 ATCTGCAGCA
Statistics
Matches: 210, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
207 98 0.47
214 111 0.53
215 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (207 bp):
TGGAACCTCATAAATGCAGCATTTAGCTATATAAGTTCATATGCTTGGTCCCACTTAATTGGTTG
ACATTTGCATTACAAGATCTTATAGACAACCGAGCAATGTTGTTGTATTACCCACGGTTCCACTT
AAATTCAAATTTATTGCAATCCATTTTCTTCTCCGACATTTGTACTTTATTAAATGCAACCAAGT
GTTTTAGAGTAA
Found at i:6432992 original size:15 final size:16
Alignment explanation
Indices: 6432958--6432994 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6432948 TTTTTATTTA
6432958 AAAAATAAAAAATAAT
1 AAAAATAAAAAATAAT
*
6432974 -AAAATAAACAA-AAT
1 AAAAATAAAAAATAAT
6432988 AAAAATA
1 AAAAATA
6432995 TTTTAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATAAAAAATAAT
Found at i:6433010 original size:24 final size:23
Alignment explanation
Indices: 6432944--6433015 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 23
6432934 TAATAATACC
*
6432944 AATATTTTTATTTAAAAAATAAA
1 AATATTTTAATTTAAAAAATAAA
* * * *
6432967 AA-ATAATAAAATAAACAAAATAAA
1 AATAT-TTTAATTTAA-AAAATAAA
*
6432991 AATATTTTAATTTAATAAAACAAA
1 AATATTTTAATTTAA-AAAATAAA
6433015 A
1 A
6433016 TTTATGCAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 5
0.69 0.22 0.10
Matches are distributed among these distances:
22 2 0.06
23 7 0.20
24 24 0.69
25 2 0.06
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (23 bp):
AATATTTTAATTTAAAAAATAAA
Found at i:6441429 original size:82 final size:82
Alignment explanation
Indices: 6441292--6441450 Score: 291
Period size: 82 Copynumber: 1.9 Consensus size: 82
6441282 CGGATACCTC
*
6441292 CAGATAACTCTACCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
1 CAGATAACTCTACCATCACTTCATTTTGTTGAAGTCTGACACCTGACAATGCTTTTCTTTGTTGA
6441357 TAAGCATGAATTTTTAT
66 TAAGCATGAATTTTTAT
* *
6441374 CAGATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACCCCTGACAATGCTTTTCTTTGTTGA
1 CAGATAACTCTACCATCACTTCATTTTGTTGAAGTCTGACACCTGACAATGCTTTTCTTTGTTGA
6441439 TAAGCATGAATT
66 TAAGCATGAATT
6441451 CTTTCGGATT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (82 bp):
CAGATAACTCTACCATCACTTCATTTTGTTGAAGTCTGACACCTGACAATGCTTTTCTTTGTTGA
TAAGCATGAATTTTTAT
Found at i:6441483 original size:14 final size:14
Alignment explanation
Indices: 6441464--6441493 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6441454 TCGGATTTTG
*
6441464 TGAACAAATTGTTT
1 TGAACAAAATGTTT
6441478 TGAACAAAATGTTT
1 TGAACAAAATGTTT
6441492 TG
1 TG
6441494 TCGTTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (14 bp):
TGAACAAAATGTTT
Found at i:6446409 original size:82 final size:82
Alignment explanation
Indices: 6446272--6446427 Score: 294
Period size: 82 Copynumber: 1.9 Consensus size: 82
6446262 ATGCCTCCAA
* *
6446272 ATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGATAA
1 ATAACTCTGCCAGCACTTCATTTTGTTGAAGTCTGACACCTGACAATGCTTTTCTTTGTTGATAA
6446337 GCATGAATTTTTATCAG
66 GCATGAATTTTTATCAG
6446354 ATAACTCTGCCAGCACTTCATTTTGTTGAAGTCTGACACCTGACAATGCTTTTCTTTGTTGATAA
1 ATAACTCTGCCAGCACTTCATTTTGTTGAAGTCTGACACCTGACAATGCTTTTCTTTGTTGATAA
6446419 GCATGAATT
66 GCATGAATT
6446428 CTTTCGGATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (82 bp):
ATAACTCTGCCAGCACTTCATTTTGTTGAAGTCTGACACCTGACAATGCTTTTCTTTGTTGATAA
GCATGAATTTTTATCAG
Found at i:6450391 original size:14 final size:14
Alignment explanation
Indices: 6450372--6450401 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6450362 ATAATAACGA
*
6450372 CAAAACATTTTGTT
1 CAAAACAATTTGTT
6450386 CAAAACAATTTGTT
1 CAAAACAATTTGTT
6450400 CA
1 CA
6450402 CAAAATCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (14 bp):
CAAAACAATTTGTT
Found at i:6450552 original size:82 final size:82
Alignment explanation
Indices: 6450415--6450573 Score: 309
Period size: 82 Copynumber: 1.9 Consensus size: 82
6450405 AATCCGAAAG
6450415 AATTCATGCTTATCAACAAAGAAAAGCATTGCCAGGTGTCAGACTTCAACAAAATGAAGTGATGG
1 AATTCATGCTTATCAACAAAGAAAAGCATTGCCAGGTGTCAGACTTCAACAAAATGAAGTGATGG
6450480 CAGAGTTATCTGATAAA
66 CAGAGTTATCTGATAAA
6450497 AATTCATGCTTATCAACAAAGAAAAGCATTGCCAGGTGTCAGACTTCAACAAAATGAAGTGATGG
1 AATTCATGCTTATCAACAAAGAAAAGCATTGCCAGGTGTCAGACTTCAACAAAATGAAGTGATGG
*
6450562 TAGAGTTATCTG
66 CAGAGTTATCTG
6450574 GAGGCATCCG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (82 bp):
AATTCATGCTTATCAACAAAGAAAAGCATTGCCAGGTGTCAGACTTCAACAAAATGAAGTGATGG
CAGAGTTATCTGATAAA
Found at i:6465598 original size:16 final size:16
Alignment explanation
Indices: 6465577--6465611 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6465567 ATAACACAAA
*
6465577 GAATGAACAATTATAC
1 GAATGAACAAATATAC
*
6465593 GAATGAATAAATATAC
1 GAATGAACAAATATAC
6465609 GAA
1 GAA
6465612 AATAAGCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.09, G:0.14, T:0.23
Consensus pattern (16 bp):
GAATGAACAAATATAC
Found at i:6465918 original size:119 final size:118
Alignment explanation
Indices: 6465783--6466188 Score: 443
Period size: 119 Copynumber: 3.4 Consensus size: 118
6465773 GATAATTTTG
* * *
6465783 GGGTTAAAATGTAATTTTA-AGAAAGTTTAGGGTTAAAATATAATTTTGGGAAAGTTTA-AGGTC
1 GGGTTAAAATGCAATTTTAGA-AAAGTTTAGGGTTAAAATGTAATTTTGGGAAAGTTTAGAGGTT
* *
6465846 AAAATG-TGATTTTGAAAAAGTTT-GGTGATCAAAATGTAATTTTTGGAAGAGATTTA
65 AAAATGCT-ATTTTGAAAAAGTTTAGG-G-TTAAAATATAA-TTTTGGAAGAGATTTA
* * ** *
6465902 GGGTTAAAATGTAATTTTAGGAAAGTTTAAGGGTTAAAATGTAATTTT-AAAGAAGTTTAGGGGT
1 GGGTTAAAATGCAATTTTAGAAAAGTTT-AGGGTTAAAATGTAATTTTGGGA-AAGTTTAGAGGT
* *
6465966 TAAAATGCTATTTT-AGAAAAGTTTAGGGGTTAAAATACAATTTTGGAAGAGTTTTA
64 TAAAATGCTATTTTGA-AAAAGTTTA-GGGTTAAAATATAATTTTGGAAGAGATTTA
* * * *
6466022 GGGTTAAAATGCAATTTTGGTAAAGTATAGGGTCAAAATGTAATTTTGGAGAAA-TTTAGAGGTT
1 GGGTTAAAATGCAATTTTAGAAAAGTTTAGGGTTAAAATGTAATTTTGG-GAAAGTTTAGAGGTT
*
6466086 AAAATGCTATTTTGGAAAAGTTTAAGGGTTAAAATATAATTTTGG-AGA-AGTTTA
65 AAAATGCTATTTTGAAAAAGTTT-AGGGTTAAAATATAATTTTGGAAGAGA-TTTA
** *
6466140 GGGGTTAAAATGCAATTTTAGAAAAGTTTAGTAATCAAAATGTAATTTT
1 -GGGTTAAAATGCAATTTTAGAAAAGTTTAG-GGTTAAAATGTAATTTT
6466189 TAAATAAAAA
Statistics
Matches: 246, Mismatches: 26, Indels: 29
0.82 0.09 0.10
Matches are distributed among these distances:
118 7 0.03
119 121 0.49
120 83 0.34
121 31 0.13
122 2 0.01
123 2 0.01
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (118 bp):
GGGTTAAAATGCAATTTTAGAAAAGTTTAGGGTTAAAATGTAATTTTGGGAAAGTTTAGAGGTTA
AAATGCTATTTTGAAAAAGTTTAGGGTTAAAATATAATTTTGGAAGAGATTTA
Found at i:6466170 original size:30 final size:30
Alignment explanation
Indices: 6465782--6466188 Score: 370
Period size: 30 Copynumber: 13.6 Consensus size: 30
6465772 TGATAATTTT
*
6465782 GGGGTTAAAATGTAATTTT-AAGAAAGTTTA
1 GGGGTTAAAATGTAATTTTGGA-AAAGTTTA
* *
6465812 -GGGTTAAAATATAATTTTGGGAAAGTTTA
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTA
* * * *
6465841 -AGGTCAAAATGTGATTTTGAAAAAGTTT-
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTA
* * *
6465869 GGTGATCAAAATGTAATTTTTGGAAGAGATTTA
1 GG-GGTTAAAATGTAA-TTTTGGAAAAG-TTTA
6465902 -GGGTTAAAATGTAATTTTAGG-AAAGTTTA
1 GGGGTTAAAATGTAATTTT-GGAAAAGTTTA
* *
6465931 AGGGTTAAAATGTAATTTT-AAAGAAGTTTA
1 GGGGTTAAAATGTAATTTTGGAA-AAGTTTA
*
6465961 GGGGTTAAAATGCT-ATTTTAGAAAAGTTTA
1 GGGGTTAAAATG-TAATTTTGGAAAAGTTTA
** *
6465991 GGGGTTAAAATACAATTTTGGAAGAGTTTTA
1 GGGGTTAAAATGTAATTTTGGAAAAG-TTTA
* * *
6466022 -GGGTTAAAATGCAATTTTGGTAAAGTATA
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTA
*
6466051 -GGGTCAAAATGTAATTTTGGAGAAA-TTTA
1 GGGGTTAAAATGTAATTTTGGA-AAAGTTTA
*
6466080 GAGGTTAAAATGCT-ATTTTGGAAAAGTTTA
1 GGGGTTAAAATG-TAATTTTGGAAAAGTTTA
* * *
6466110 AGGGTTAAAATATAATTTTGGAGAAGTTTA
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTA
* *
6466140 GGGGTTAAAATGCAATTTTAGAAAAGTTTA
1 GGGGTTAAAATGTAATTTTGGAAAAGTTTA
*** *
6466170 GTAATCAAAATGTAATTTT
1 GGGGTTAAAATGTAATTTT
6466189 TAAATAAAAA
Statistics
Matches: 310, Mismatches: 48, Indels: 38
0.78 0.12 0.10
Matches are distributed among these distances:
29 80 0.26
30 196 0.63
31 30 0.10
32 4 0.01
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTGGAAAAGTTTA
Found at i:6468388 original size:85 final size:85
Alignment explanation
Indices: 6468243--6468413 Score: 227
Period size: 85 Copynumber: 2.0 Consensus size: 85
6468233 TGCTTCATTT
* ** *
6468243 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGATCGCTTCATTATTGTAATCCACTTCTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCGCTTCACGATTGTAACCCACTTCT-
6468308 T-GTATCTCATCAAGAAGATG
65 TAGTATCTCATCAAGAAGATG
* * * * *
6468328 GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTTACGGTTTTGACCCACTTCTT
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCGCTTCACGATTGTAACCCACTTCTT
* *
6468393 AGTATCTCATTAGGAAGATG
66 AGTATCTCATCAAGAAGATG
6468413 G
1 G
6468414 GGGTTCGAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 1 0.01
85 73 0.99
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCGCTTCACGATTGTAACCCACTTCTT
AGTATCTCATCAAGAAGATG
Found at i:6468518 original size:210 final size:209
Alignment explanation
Indices: 6468121--6468907 Score: 938
Period size: 210 Copynumber: 3.8 Consensus size: 209
6468111 GCTTCATCTC
*
6468121 TTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGT
* * ** * * * *
6468186 ATCTTATCAAGAAGATAAGCATTTGGAGTTTCACTCGCATTAAACTTTGCTTCATTTGATTTGGT
66 ATCTCATCAAGAAGATGAGGGTTCGAAGTTTCACTCACATTAAGCTTTGCTTCA-TTGATTTGGT
* * *
6468251 CTACTTCTCTGTATCTCATCAAGAAGATGA-TCGCTTCATTATTGTAATCCACTTCTCTGTATCT
130 CTACTTCTCTGTATCTCATCAGGAAGATGACT-GCTTCATTGTTTTAATCCACTTCTCTGTATCT
6468315 CATCAAGAAGATGGAT
194 CATCAAGAAGATGGAT
* * ** * *
6468331 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCGCTTTACGGTTTTGACCCACTTCT-TAG
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCT-G
* * *
6468395 TATCTCATTAGGAAGATGGGGGTTCGAAGTTTCACTCACATTAAGCTTTGCTTCATTGATTTGGT
65 TATCTCATCAAGAAGATGAGGGTTCGAAGTTTCACTCACATTAAGCTTTGCTTCATTGATTTGGT
* * * *
6468460 CTATTTCTCTGTATCTCATCAGGAAGATGACTGCATCACTTGTTTTAATCCGCTTCTCTGCATCT
130 CTACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCA-TTGTTTTAATCCACTTCTCTGTATCT
*
6468525 CATCAAGAAGACGGAT
194 CATCAAGAAGATGGAT
* * * * * *
6468541 TTGGACCACTTCTCTGTATCTCATCAGGAAGACGACCATTTTATTGCTTTGACTCACTTCTCAGT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGT
* * * *
6468606 ATCTCATCAAGAAGATGGGGGTTCGAAGTTTCACTCACATTGAGCTTCGCTTCATCGATTTGGTC
66 ATCTCATCAAGAAGATGAGGGTTCGAAGTTTCACTCACATTAAGCTTTGCTTCATTGATTTGGTC
* * * * *
6468671 TACTTCTCTGTATCTTATCAGGAAGATGGCT-TTTTATTGTTTTAATCCACTTTTCTGTATCTCA
131 TACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATTGTTTTAATCCACTTCTCTGTATCTCA
* *
6468735 TCAGGAAGATGAAT
196 TCAAGAAGATGGAT
* * * * *
6468749 TTGGTCCACTTCTTTGCATCTCGTCAGGAAGATAACCGC-TTATTGCTTCGACCCACTTCTCTGT
1 TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGT
* * *** ** * *
6468813 ATCTAATCAGGAAGATGAATTTTCGAAGTTTCACTCGTATTGAGC-TT-CTTATCATTGTTTTGG
66 ATCTCATCAAGAAGATGAGGGTTCGAAGTTTCACTCACATTAAGCTTTGC-T-TCATTGATTTGG
* * *
6468876 TCTGCTTCTTTGTATCTTATCAGGAAGATGAC
129 TCTACTTCTCTGTATCTCATCAGGAAGATGAC
6468908 CTTTTTAAGT
Statistics
Matches: 493, Mismatches: 78, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
205 1 0.00
206 2 0.00
207 98 0.20
208 67 0.14
209 46 0.09
210 279 0.57
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (209 bp):
TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTGT
ATCTCATCAAGAAGATGAGGGTTCGAAGTTTCACTCACATTAAGCTTTGCTTCATTGATTTGGTC
TACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATTGTTTTAATCCACTTCTCTGTATCTCA
TCAAGAAGATGGAT
Found at i:6470041 original size:15 final size:15
Alignment explanation
Indices: 6470021--6470056 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6470011 TGTTAGAATT
6470021 AAAGCTCCTTTTGAG
1 AAAGCTCCTTTTGAG
*
6470036 AAAGCTCTTTTTGAG
1 AAAGCTCCTTTTGAG
6470051 AAAGCT
1 AAAGCT
6470057 TTCTTTACCA
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:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (15 bp):
AAAGCTCCTTTTGAG
Found at i:6485398 original size:21 final size:21
Alignment explanation
Indices: 6485345--6485399 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
6485335 ACAGTGAGGT
*
6485345 ACACGGTCGTGTATCTCAATC
1 ACACAGTCGTGTATCTCAATC
* *
6485366 ACATAGGT-GTGTCTCTCAATC
1 ACACA-GTCGTGTATCTCAATC
6485387 ACACAGTCGTGTA
1 ACACAGTCGTGTA
6485400 CCCTGTCACA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (21 bp):
ACACAGTCGTGTATCTCAATC
Found at i:6491861 original size:21 final size:24
Alignment explanation
Indices: 6491825--6491872 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
6491815 TATATTGATG
6491825 TTTTTTGTTGTTTTTGG-TG-TAT
1 TTTTTTGTTGTTTTTGGTTGATAT
6491847 TTTTTTGTTG-TTTTGGTTGATAT
1 TTTTTTGTTGTTTTTGGTTGATAT
6491870 TTT
1 TTT
6491873 GGTGCTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 6 0.25
22 12 0.50
23 6 0.25
ACGTcount: A:0.06, C:0.00, G:0.21, T:0.73
Consensus pattern (24 bp):
TTTTTTGTTGTTTTTGGTTGATAT
Found at i:6491872 original size:22 final size:23
Alignment explanation
Indices: 6491819--6491872 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
6491809 AAAAATTATA
*
6491819 TTGATGTTTTTTGTTGTTTTTGG
1 TTGATATTTTTTGTTGTTTTTGG
6491842 -TG-TATTTTTTTGTTG-TTTTGG
1 TTGATA-TTTTTTGTTGTTTTTGG
6491863 TTGATATTTT
1 TTGATATTTT
6491873 GGTGCTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 7 0.26
22 18 0.67
23 2 0.07
ACGTcount: A:0.07, C:0.00, G:0.22, T:0.70
Consensus pattern (23 bp):
TTGATATTTTTTGTTGTTTTTGG
Found at i:6491911 original size:12 final size:12
Alignment explanation
Indices: 6491890--6491964 Score: 59
Period size: 12 Copynumber: 6.6 Consensus size: 12
6491880 TTTTTTACCG
*
6491890 TTTTGATGTTGC
1 TTTTGCTGTTGC
**
6491902 TTTTGCTGTTAT
1 TTTTGCTGTTGC
* *
6491914 TTTTGTTGTTGT
1 TTTTGCTGTTGC
*
6491926 TTTTGCTGTT-A
1 TTTTGCTGTTGC
6491937 TTTT--TGTTGC
1 TTTTGCTGTTGC
*
6491947 TTTTGTTGTTG-
1 TTTTGCTGTTGC
6491958 TTTTGCT
1 TTTTGCT
6491965 ATTTTGGTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
9 4 0.08
10 4 0.08
11 10 0.20
12 33 0.65
ACGTcount: A:0.04, C:0.07, G:0.21, T:0.68
Consensus pattern (12 bp):
TTTTGCTGTTGC
Found at i:6491943 original size:24 final size:24
Alignment explanation
Indices: 6491890--6491945 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
6491880 TTTTTTACCG
*
6491890 TTTTGATGTTGCTTTTGCTGTTAT
1 TTTTGTTGTTGCTTTTGCTGTTAT
*
6491914 TTTTGTTGTTGTTTTTGCTGTTAT
1 TTTTGTTGTTGCTTTTGCTGTTAT
6491938 TTTTGTTG
1 TTTTGTTG
6491946 CTTTTGTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.05, C:0.05, G:0.21, T:0.68
Consensus pattern (24 bp):
TTTTGTTGTTGCTTTTGCTGTTAT
Found at i:6491959 original size:24 final size:24
Alignment explanation
Indices: 6491890--6491959 Score: 81
Period size: 24 Copynumber: 2.9 Consensus size: 24
6491880 TTTTTTACCG
*
6491890 TTTTGATGTTGCTT-TTGCTGTTAT
1 TTTTGTTGTTG-TTGTTGCTGTTAT
*
6491914 TTTTGTTGTTGTTTTTGCTGTTAT
1 TTTTGTTGTTGTTGTTGCTGTTAT
*
6491938 TTTTGTTGCTT-TTGTTGTTGTT
1 TTTTGTTG-TTGTTGTTGCTGTT
6491960 TTGCTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
23 2 0.05
24 37 0.90
25 2 0.05
ACGTcount: A:0.04, C:0.06, G:0.21, T:0.69
Consensus pattern (24 bp):
TTTTGTTGTTGTTGTTGCTGTTAT
Found at i:6492180 original size:24 final size:22
Alignment explanation
Indices: 6492141--6492189 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
6492131 TAAATTTGTT
* *
6492141 TATTTTTTAATGTTTGTTTTAA
1 TATTTTTTAATGTTTGATATAA
*
6492163 TATTTTTTAGTGTATTTGATATAA
1 TATTTTTTAATG--TTTGATATAA
6492187 TAT
1 TAT
6492190 ATATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 11 0.50
24 11 0.50
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (22 bp):
TATTTTTTAATGTTTGATATAA
Found at i:6497068 original size:57 final size:57
Alignment explanation
Indices: 6497007--6497173 Score: 212
Period size: 57 Copynumber: 2.9 Consensus size: 57
6496997 AAGATTATCC
*
6497007 TTTAACAGAGATCACAACAAAGGCTTTTCTGTCTAGTGTTTTGCCATAAAGGCATCA
1 TTTAACAGAGATCGCAACAAAGGCTTTTCTGTCTAGTGTTTTGCCATAAAGGCATCA
* * * * *
6497064 TTTAACAGAGATCGCCACAAAGGC-TTTCTTGTCTAGAT-TTTTTCCATAAAGACGTCC
1 TTTAACAGAGATCGCAACAAAGGCTTTTC-TGTCTAG-TGTTTTGCCATAAAGGCATCA
* * * *
6497121 TTTAACAAAGATCGCAACAAAGGCTTTCCCGTCTAGAGTTTTGCCATAAAGGC
1 TTTAACAGAGATCGCAACAAAGGCTTTTCTGTCTAGTGTTTTGCCATAAAGGC
6497174 TTTCTTTTAA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
56 4 0.04
57 85 0.91
58 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (57 bp):
TTTAACAGAGATCGCAACAAAGGCTTTTCTGTCTAGTGTTTTGCCATAAAGGCATCA
Found at i:6498207 original size:51 final size:51
Alignment explanation
Indices: 6498131--6498233 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
6498121 ATTACTCCCT
6498131 TAGCTTTTAACCCTTCTAGTTCACGTTTGGTTGGTTCCCAATTAGCTTATG
1 TAGCTTTTAACCCTTCTAGTTCACGTTTGGTTGGTTCCCAATTAGCTTATG
6498182 TAGCTTTTAACCCTTCTAGTTCACGTTTGGTTGGTTCCCAATTAGCTTATG
1 TAGCTTTTAACCCTTCTAGTTCACGTTTGGTTGGTTCCCAATTAGCTTATG
6498233 T
1 T
6498234 CACAAATTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (51 bp):
TAGCTTTTAACCCTTCTAGTTCACGTTTGGTTGGTTCCCAATTAGCTTATG
Found at i:6508347 original size:52 final size:52
Alignment explanation
Indices: 6508262--6508509 Score: 372
Period size: 52 Copynumber: 4.8 Consensus size: 52
6508252 ATTTCACTTC
* * * * * *
6508262 ATTCATATACTCATGATGACACATAGACGTCGGACCT-TATAATCCGCAAGGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCT-TAATCCGTAAAGG
** *
6508314 ATTCATATACTCACGATGACACAGAGTCATCGGACCTCTTAATCCATAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCGTAAAGG
* *
6508366 ATTCATATACTCACGATGACACTTAGTCATCGGGCCTCTTAATCTGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCGTAAAGG
6508418 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCGTAAAGG
*
6508470 ATTCATATACTCACGATGACACTTAATCATCGGACCTCTT
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTT
6508510 CGTTTATGGC
Statistics
Matches: 180, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
52 179 0.99
53 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCGTAAAGG
Found at i:6512627 original size:90 final size:90
Alignment explanation
Indices: 6512405--6512640 Score: 214
Period size: 90 Copynumber: 2.6 Consensus size: 90
6512395 AAGGCCCCCT
* * * **
6512405 AACTT-TCCAAAAATCATATCTTG-ACCCTCGAACTTTCC-AAAAATCACATTTTGATCCCTAAA
1 AACTTCTCC-AAAATCACATTTTGAACCCT-AAACTTTCCTAAAAATCACATTTTGCCCCCTAAA
*
6512467 CTTTCCCAAAATCAATTTAAACCCTAA
64 CCTTCCCAAAATCAATTTAAACCCTAA
* * * * * *
6512494 AACTTTTCCAAAATTACATTTTGACCCCTATAC-TTCTTCAAAATCACATTTTAGCCCCCTAAAC
1 AACTTCTCCAAAATCACATTTTGAACCCTAAACTTTCCTAAAAATCACATTTT-GCCCCCTAAAC
* * * ** *
6512558 CTTCTCGAATTCACATTTTGA-CCTCA
65 CTTCCCAAAATCA-ATTTAAACCCTAA
*
6512584 AACTTCTCCAAAATCACATTTT-AACCCTAAACTTTCCTAAAAATTACATTTTTGCCC
1 AACTTCTCCAAAATCACATTTTGAACCCTAAACTTTCCTAAAAATCACA-TTTTGCCC
6512641 TTAAATTTTT
Statistics
Matches: 116, Mismatches: 24, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
88 3 0.03
89 39 0.34
90 65 0.56
91 9 0.08
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.33
Consensus pattern (90 bp):
AACTTCTCCAAAATCACATTTTGAACCCTAAACTTTCCTAAAAATCACATTTTGCCCCCTAAACC
TTCCCAAAATCAATTTAAACCCTAA
Found at i:6512633 original size:30 final size:28
Alignment explanation
Indices: 6512401--6512635 Score: 161
Period size: 30 Copynumber: 7.9 Consensus size: 28
6512391 TCAGAAGGCC
* * *
6512401 CCCT-AACTTTCCAAAAATCATATCTTGA
1 CCCTAAACTTTCC-AAAATCACATTTTAA
* *
6512429 CCCTCGAACTTTCCAAAAATCACATTTTGAT
1 CCCT-AAACTTTCC-AAAATCACATTTT-AA
*
6512460 CCCTAAACTTTCCCAAAATCA-ATTTAAA
1 CCCTAAACTTT-CCAAAATCACATTTTAA
* *
6512488 CCCTAAAACTTTTCCAAAATTACATTTTGAC
1 CCCT-AAAC-TTTCCAAAATCACATTTT-AA
* * *
6512519 CCCTATACTTCTTCAAAATCACATTTTAGCC
1 CCCTAAACTT-TCCAAAATCACATTTTA--A
* * * *
6512550 CCCTAAACCTTCTCGAATTCACATTTTGA
1 CCCTAAACTTTC-CAAAATCACATTTTAA
6512579 -CCTCAAACTTCTCCAAAATCACATTTTAA
1 CCCT-AAACTT-TCCAAAATCACATTTTAA
*
6512608 CCCTAAACTTTCCTAAAAATTACATTTT
1 CCCTAAACTTTCC--AAAATCACATTTT
6512636 TGCCCTTAAA
Statistics
Matches: 165, Mismatches: 25, Indels: 32
0.74 0.11 0.14
Matches are distributed among these distances:
28 15 0.09
29 43 0.26
30 75 0.45
31 32 0.19
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (28 bp):
CCCTAAACTTTCCAAAATCACATTTTAA
Found at i:6512657 original size:60 final size:58
Alignment explanation
Indices: 6512408--6512657 Score: 188
Period size: 60 Copynumber: 4.2 Consensus size: 58
6512398 GCCCCCTAAC
* * * * *
6512408 TTTCCAAAAATCATATCTTGACCCTCGAACTTTCCAAAAATCACATTTTGATCCC-TAAACT
1 TTTCC-AAAATCACATTTTAACCCT-AAACTTTCC-AAAATTACATTTTGA-CCCTTAAACT
* * * *
6512469 TTCCCAAAATCA-ATTTAAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCTATACT
1 TTTCCAAAATCACATTTTAACCCT-AAAC-TTTCCAAAATTACATTTTGACCCTTAAACT
* * * *
6512528 TCTT-CAAAATCACATTTTAGCCCCCTAAACCTTCTC-GAATTCACATTTTGA-CCTCAAACT
1 T-TTCCAAAATCACATTTTA--ACCCTAAACTTTC-CAAAATT-ACATTTTGACCCTTAAACT
* *
6512588 TCTCCAAAATCACATTTTAACCCTAAACTTTCCTAAAAATTACATTTTTG-CCCTTAAATT
1 TTTCCAAAATCACATTTTAACCCTAAACTTTCC--AAAATTACA-TTTTGACCCTTAAACT
*
6512648 TTTCTAAAAT
1 TTTCCAAAAT
6512658 TACGTTCAAA
Statistics
Matches: 151, Mismatches: 24, Indels: 29
0.74 0.12 0.14
Matches are distributed among these distances:
57 1 0.01
58 14 0.09
59 43 0.28
60 71 0.47
61 18 0.12
62 4 0.03
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.35
Consensus pattern (58 bp):
TTTCCAAAATCACATTTTAACCCTAAACTTTCCAAAATTACATTTTGACCCTTAAACT
Found at i:6522357 original size:3 final size:3
Alignment explanation
Indices: 6522349--6522378 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6522339 TTATGATATT
6522349 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
6522379 ATGGATGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6524742 original size:39 final size:39
Alignment explanation
Indices: 6524686--6525203 Score: 321
Period size: 39 Copynumber: 13.3 Consensus size: 39
6524676 GAAGATTCCG
*
6524686 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCTA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * *
6524725 ATCTCTTACCCCTAGCCTAGGGCAGATTGAAGCCAT---CCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCAGCCA
* *
6524764 ATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * **
6524803 ATCTCTTACCCCGAGCTTAGGGTAGATTGCAACCATTTG---
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-C-ACCATCAGCCA
* * *
6524842 ATCTTTTACCCCGAGCTTGGGGCAGATCACTATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * * *
6524881 ATCTCTTACCTCAAGCATAGGGTAGATTGTAGCCAT---CCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCAGCCA
* *
6524920 ATCTTTTACCCCGAGCCTGGGGCAGATTACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * ** *
6524959 ATCTCTTACCCCGAGCCTGGGGCAGATTA-CAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCA-TCAGCCA
* * **
6524998 ATCTTTTACCCCGAGCTTGGGGCAGATCACTTTCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * *
6525037 ATCTCTTACTCTGAGCCTGGGGCAGATTA-CAGCCATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCA-TCAGCCA
* * * ** * *
6525076 ATGTTTTATCTTGAGCTTGGAGCA-AGTCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGA-TCACCATCAGCCA
6525115 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTC-G---
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCA-TCAGCCA
* * * *
6525154 ATCTTTTACCCCGATCATGGGGCAGATCACCGTCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
*
6525193 ATCTTTTACCC
1 ATCTCTTACCC
6525204 TGCGACAGGG
Statistics
Matches: 361, Mismatches: 87, Indels: 62
0.71 0.17 0.12
Matches are distributed among these distances:
35 2 0.01
36 16 0.04
37 6 0.02
38 7 0.02
39 299 0.83
40 7 0.02
41 5 0.01
42 17 0.05
43 2 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
Found at i:6524774 original size:78 final size:78
Alignment explanation
Indices: 6524682--6525203 Score: 647
Period size: 78 Copynumber: 6.7 Consensus size: 78
6524672 GATTGAAGAT
* * *
6524682 TCCGATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCTAATCTCTTACCCCTAGCCTAGGG
1 TCCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGG
6524747 CAGATTGAAGCCA
66 CAGATTGAAGCCA
* *
6524760 TCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTAGGG
1 TCCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGG
*
6524825 TAGATTGCAA-CCA
66 CAGATTG-AAGCCA
** * * * * *
6524838 TTTGATCTTTTACCCCGAGCTTGGGGCAGATCACTATCAGCCAATCTCTTACCTCAAGCATAGGG
1 TCCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGG
* *
6524903 TAGATTGTAGCCA
66 CAGATTGAAGCCA
* *
6524916 TCCGATCTTTTACCCCGAGCCTGGGGCAGATTACCATCAGCCAATCTCTTACCCCGAGCCTGGGG
1 TCCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGG
6524981 CAGATT-ACAGCCA
66 CAGATTGA-AGCCA
* * ** * * *
6524994 TTCGATCTTTTACCCCGAGCTTGGGGCAGATCACTTTCAGCCAATCTCTTACTCTGAGCCTGGGG
1 TCCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGG
6525059 CAGATT-ACAGCCA
66 CAGATTGA-AGCCA
* * ** * * *
6525072 TCCGATGTTTTATCTTGAGCTTGGAGCA-AGTCACCATCAGCCAATCTCTTACCCCGAGCCTGGG
1 TCCGATCTTTTACCCCGAGCCTGGGGCAGA-TCACCATCAGCCAATCTCTTACCCCGAGCCTAGG
*
6525136 GCAGATTGCAGCCA
65 GCAGATTGAAGCCA
* * * * *
6525150 TTCGATCTTTTACCCCGATCATGGGGCAGATCACCGTCAGCCAATCTTTTACCC
1 TCCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
6525204 TGCGACAGGG
Statistics
Matches: 384, Mismatches: 54, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
77 2 0.01
78 379 0.99
79 3 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (78 bp):
TCCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGG
CAGATTGAAGCCA
Found at i:6524969 original size:156 final size:156
Alignment explanation
Indices: 6524684--6525202 Score: 720
Period size: 156 Copynumber: 3.3 Consensus size: 156
6524674 TTGAAGATTC
* * * * *
6524684 CGATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCTAATCTCTTACCCCTAGCCTAGGGCA
1 CGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTCAAGCCTAGGGCA
6524749 GATTGAAGCCATCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
66 GATTGAAGCCATCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
* * * *
6524814 CGAGCTTAGGGTAGATTGCAACCATT
131 CGAGCCTGGGGCAGATTGCAGCCATT
* * * *
6524840 TGATCTTTTACCCCGAGCTTGGGGCAGATCACTATCAGCCAATCTCTTACCTCAAGCATAGGGTA
1 CGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTCAAGCCTAGGGCA
* * *
6524905 GATTGTAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGATTACCATCAGCCAATCTCTTACCC
66 GATTGAAGCCATCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
*
6524970 CGAGCCTGGGGCAGATTACAGCCATT
131 CGAGCCTGGGGCAGATTGCAGCCATT
** * *
6524996 CGATCTTTTACCCCGAGCTTGGGGCAGATCACTTTCAGCCAATCTCTTA-CTCTGAGCCTGGGGC
1 CGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTC-AAGCCTAGGGC
* * * * *
6525060 AGATT-ACAGCCATCCGATGTTTTATCTTGAGCTTGGAGCA-AGTCACCATCAGCCAATCTCTTA
65 AGATTGA-AGCCATCCGATCTTTTACCCTGAGCCTGGGGCAGA-TCACCATCAGCCAATCTCTTA
6525123 CCCCGAGCCTGGGGCAGATTGCAGCCATT
128 CCCCGAGCCTGGGGCAGATTGCAGCCATT
* * * *
6525152 CGATCTTTTACCCCGATCATGGGGCAGATCACCGTCAGCCAATCTTTTACC
1 CGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACC
6525203 CTGCGACAGG
Statistics
Matches: 322, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
155 4 0.01
156 317 0.98
157 1 0.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (156 bp):
CGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTCAAGCCTAGGGCA
GATTGAAGCCATCCGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCC
CGAGCCTGGGGCAGATTGCAGCCATT
Found at i:6525813 original size:209 final size:206
Alignment explanation
Indices: 6525382--6525891 Score: 547
Period size: 209 Copynumber: 2.4 Consensus size: 206
6525372 AGTGGACTGG
* * * * *
6525382 AACTTCAAACCTCATTTTCCTGATTAGATACAGAGAAGTGGGTCAAAGTAATAAAGC-AGTCACC
1 AACTTCAAACCCCATCTT--TGATAAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGA-TCAAC
* * * * * * *
6525446 TTCCTGATGAGATACAGAGAAATGGACCAAAATCTATCTTCCTGATGAGATATAGAGAGGTGGAT
63 TTCCTGATGAGATACAGAGAAGTGGACC-AAATCCATCTTCCTGATGAAATACAGAGAAGCGAAT
* * * ** * * * *
6525511 TAAACCAATGATGCGGTCATCTTCCTGATGTGATATAGAGAAGAAGACCAATTCAATGAAGTAAG
127 TAAACCAACGAAGCGATCATCTTCCTGATAAGATACAGAGAAGAAGACCAATTCAATAAAGAAAA
6525576 GCTCAACGTAAGTGA
192 GCTCAACGTAAGTGA
* ***
6525591 AACTTCAAACCCCATCTTCCTGATGAGATTTTGAGAAGTGGGTCAAAGCAATAAAGCGATCAACT
1 AACTTCAAACCCCATCTT--TGATAAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGATCAACT
* * *
6525656 TCTTGATGAGATACTGAGAAGTGGACCAAATCCGTCTTCCTGATGAAATACAGAGAAGCGAATTA
64 TCCTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAAATACAGAGAAGCGAATTA
** * *
6525721 AATTAACGAAGCGATCATTTTTCTGATAAGATACAGAGAAGAAGACCAATTCAATAAAGCAAAAG
129 AACCAACGAAGCGATCATCTTCCTGATAAGATACAGAGAAGAAGACCAATTCAATAAAG-AAAAG
*
6525786 CTCAATGTGAA-TGA
193 CTCAACGT-AAGTGA
* * * * ** * * *
6525800 AATTTCCAACCCCATCTTTGATAAGATACAGAGGAGTGGGTCGAAGCAATAAAATGGTTATCTTC
1 AACTTCAAACCCCATCTTTGATAAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGATCAACTTC
*
6525865 CTGATGAGATACAGAGAAGTAGACCAA
66 CTGATGAGATACAGAGAAGTGGACCAA
6525892 GGAAAAGTCA
Statistics
Matches: 250, Mismatches: 48, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
207 60 0.24
208 79 0.32
209 108 0.43
210 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (206 bp):
AACTTCAAACCCCATCTTTGATAAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGATCAACTTC
CTGATGAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAAATACAGAGAAGCGAATTAAA
CCAACGAAGCGATCATCTTCCTGATAAGATACAGAGAAGAAGACCAATTCAATAAAGAAAAGCTC
AACGTAAGTGA
Found at i:6526362 original size:19 final size:20
Alignment explanation
Indices: 6526322--6526363 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6526312 TGAGTCTAAA
*
6526322 CAATTACAAGCCCAATGGCC
1 CAATTACAAGACCAATGGCC
*
6526342 CAATTACATGACCAA-GGCC
1 CAATTACAAGACCAATGGCC
6526361 CAA
1 CAA
6526364 AAAATACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.38, C:0.33, G:0.14, T:0.14
Consensus pattern (20 bp):
CAATTACAAGACCAATGGCC
Found at i:6527885 original size:29 final size:29
Alignment explanation
Indices: 6527848--6528123 Score: 243
Period size: 29 Copynumber: 9.3 Consensus size: 29
6527838 GCCCCTTTAC
* * *
6527848 TTTCTAAAAATCACATCTTGACCCTGAACT
1 TTTC-AAAAATCACATTTTAACCCTAAACT
6527878 TTTCAAAAATCACATTTTAACCCCTAAACT
1 TTTCAAAAATCACATTTTAA-CCCTAAACT
*
6527908 TTCCAAAAAT-ACATTTTAACCCTAACACT
1 TTTCAAAAATCACATTTTAACCCTAA-ACT
* *
6527937 TTTCCAAAATTACATTTTAACCCCTAAACT
1 TTTCAAAAATCACATTTTAA-CCCTAAACT
* * * *
6527967 TTCCCAAAATCATATTTAAACCCTAAAGCT
1 TTTCAAAAATCACATTTTAACCCTAAA-CT
* * *
6527997 TTTCCAAAATTACATTTTGACCCTAAACT
1 TTTCAAAAATCACATTTTAACCCTAAACT
* * *
6528026 TCTCCAAATTCACATTTTAACCCTAAACT
1 TTTCAAAAATCACATTTTAACCCTAAACT
* ** *
6528055 TTCCTAAAAAT-ACATTTTTGCCCTTAAATT
1 TTTC-AAAAATCACATTTTAACCC-TAAACT
* * * *
6528085 TTTCCAAAATTATATTTAAACCCTAAA-T
1 TTTCAAAAATCACATTTTAACCCTAAACT
6528113 TCTTCAAAAAT
1 T-TTCAAAAAT
6528124 TCATTTTCGA
Statistics
Matches: 204, Mismatches: 33, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
28 8 0.04
29 97 0.48
30 93 0.46
31 6 0.03
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.36
Consensus pattern (29 bp):
TTTCAAAAATCACATTTTAACCCTAAACT
Found at i:6527916 original size:59 final size:59
Alignment explanation
Indices: 6527846--6528130 Score: 287
Period size: 59 Copynumber: 4.8 Consensus size: 59
6527836 AGGCCCCTTT
* * * * *
6527846 ACTTTCTAAAAATCACATCTTGACCCTGAACTTTTCAAAAATCACATTTTAACCCCTAA
1 ACTTTCCAAAAATCACATTTTAACCCTAAACTTTTCAAAAATTACATTTTAACCCCTAA
*
6527905 ACTTTCCAAAAAT-ACATTTTAACCCTAACACTTTTCCAAAATTACATTTTAACCCCTAA
1 ACTTTCCAAAAATCACATTTTAACCCTAA-ACTTTTCAAAAATTACATTTTAACCCCTAA
* * * * *
6527964 ACTTTCCCAAAATCATATTTAAACCCTAAAGCTTTTCCAAAATTACATTTTGA-CCCTAA
1 ACTTTCCAAAAATCACATTTTAACCCTAAA-CTTTTCAAAAATTACATTTTAACCCCTAA
* * ** *
6528023 ACTTCTCC-AAATTCACATTTTAACCCTAAACTTTCCTAAAAA-TACATTTTTGCCCTTAA
1 ACTT-TCCAAAAATCACATTTTAACCCTAAACTTTTC-AAAAATTACATTTTAACCCCTAA
* * * *
6528082 ATTTTTCC-AAAATTATATTTAAACCCTAAA-TTCTTCAAAAATT-CATTTT
1 A-CTTTCCAAAAATCACATTTTAACCCTAAACTT-TTCAAAAATTACATTTT
6528131 CGATCCCGTT
Statistics
Matches: 193, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
58 38 0.20
59 116 0.60
60 39 0.20
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (59 bp):
ACTTTCCAAAAATCACATTTTAACCCTAAACTTTTCAAAAATTACATTTTAACCCCTAA
Found at i:6531882 original size:21 final size:20
Alignment explanation
Indices: 6531844--6531894 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
6531834 TATTTTTAAG
*
6531844 TTTTTTTTACATTATTTCTCTC
1 TTTTTTTTTCATTATTTC-C-C
*
6531866 TTTTTTTTTC-TTTTTTCCC
1 TTTTTTTTTCATTATTTCCC
*
6531885 TTTTTCTTTC
1 TTTTTTTTTC
6531895 GCAATACTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 10 0.38
20 1 0.04
21 6 0.23
22 9 0.35
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTTTTCATTATTTCCC
Found at i:6536032 original size:22 final size:21
Alignment explanation
Indices: 6536007--6536055 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
6535997 CACCCACACC
*
6536007 AAAATCAT-ATCAACAAAATCAG
1 AAAATAATAATCAAC-AAAT-AG
6536029 AAAA-AATAATCAACAAATAG
1 AAAATAATAATCAACAAATAG
6536049 AAAATAA
1 AAAATAA
6536056 GGAAGGCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.25
21 8 0.33
22 10 0.42
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAATAATAATCAACAAATAG
Found at i:6546169 original size:6 final size:6
Alignment explanation
Indices: 6546133--6546236 Score: 78
Period size: 6 Copynumber: 18.0 Consensus size: 6
6546123 GACTTTGATT
* * * *
6546133 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAGA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
6546177 TCTTAAA TTTAAA TTTATTTA TTTAAA TTT-AC TTTAAA TTTAAA TTT-AA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
6546226 -TTAAA TTTAAA
1 TTTAAA TTTAAA
6546237 AATAATATTA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
4 4 0.05
5 18 0.23
6 49 0.63
7 2 0.03
8 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:6546170 original size:17 final size:16
Alignment explanation
Indices: 6546145--6546236 Score: 116
Period size: 17 Copynumber: 5.7 Consensus size: 16
6546135 TAAGTTTAAA
*
6546145 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
*
6546162 TTAGATTTAAATTTAT
1 TTAAATTTAAATTTAT
6546178 CTTAAATTTAAATTTAT
1 -TTAAATTTAAATTTAT
6546195 TT--ATTTAAATTTACT
1 TTAAATTTAAATTTA-T
*
6546210 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
6546226 TTAAATTTAAA
1 TTAAATTTAAA
6546237 AATAATATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.16
15 3 0.04
16 18 0.27
17 35 0.52
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:6546227 original size:11 final size:11
Alignment explanation
Indices: 6546133--6546236 Score: 68
Period size: 11 Copynumber: 9.0 Consensus size: 11
6546123 GACTTTGATT
6546133 TTTAAGTTTAAA
1 TTTAA-TTTAAA
6546145 -TTAATTTTAAA
1 TTTAA-TTTAAA
* *
6546156 TTTTATTTAGA
1 TTTAATTTAAA
**
6546167 TTTAAATTTATC
1 TTT-AATTTAAA
*
6546179 TTAAATTTAAA
1 TTTAATTTAAA
6546190 TTTATTTATTTAAA
1 TTTA---ATTTAAA
*
6546204 TTTACTTTAAA
1 TTTAATTTAAA
6546215 TTTAAATTT-AA
1 TTT-AATTTAAA
*
6546226 TTAAATTTAAA
1 TTTAATTTAAA
6546237 AATAATATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
10 5 0.07
11 42 0.58
12 14 0.19
14 11 0.15
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:6548428 original size:30 final size:30
Alignment explanation
Indices: 6548084--6548430 Score: 304
Period size: 30 Copynumber: 11.5 Consensus size: 30
6548074 AAATTGTCCA
* ** *
6548084 AAAATTATATTTCGACCCCAAAAC-TTTCTA
1 AAAATTACATTTTAACCCCAAAACTTTTC-C
* * *
6548114 AAAATTACATTTTGACCCCTAAACTTTTCT
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* * * *
6548144 AAAATTATATTCTGACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* * *
6548174 AAAATTATATTTTTACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* * * *
6548204 AAAAAATTATATTTCAACCCCATAACTTATCC
1 --AAAATTACATTTTAACCCCAAAACTTTTCC
* * **
6548236 AAAATTATATTTTGACCCCAAAACTTTTTG
1 AAAATTACATTTTAACCCCAAAACTTTTCC
*
6548266 GAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* *
6548296 AAAATTACATCTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
*
6548326 AAAATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* * * **
6548356 AAAATCATATTTTGACCCCAAAA-TTTCTGAA
1 AAAATTACATTTTAACCCCAAAACTTT-T-CC
* * * *
6548387 AAAATTGCATTTTTACCCCGAAAC-TTTCA
1 AAAATTACATTTTAACCCCAAAACTTTTCC
6548416 AAAATTACCATTTTA
1 AAAATTA-CATTTTA
6548431 CCCTAAACTT
Statistics
Matches: 267, Mismatches: 43, Indels: 14
0.82 0.13 0.04
Matches are distributed among these distances:
29 10 0.04
30 208 0.78
31 24 0.09
32 25 0.09
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCAAAACTTTTCC
Found at i:6548448 original size:28 final size:27
Alignment explanation
Indices: 6548421--6548514 Score: 82
Period size: 28 Copynumber: 3.3 Consensus size: 27
6548411 TTTCAAAAAT
6548421 TACCATTTTACCCTAAACTTCCCTAAA
1 TACCATTTTACCCTAAACTTCCCTAAA
* ** * *
6548448 TCCCATTTTAAACCC-CGATTTCACTAAAA
1 TACCATTTT--ACCCTAAACTTCCCT-AAA
6548477 TTACCATTTTACCCATAAACTTCCCTAAA
1 -TACCATTTTACCC-TAAACTTCCCTAAA
*
6548506 TCCCATTTT
1 TACCATTTT
6548515 TAACCCCGAT
Statistics
Matches: 50, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
27 8 0.16
28 18 0.36
29 10 0.20
30 14 0.28
ACGTcount: A:0.32, C:0.32, G:0.01, T:0.35
Consensus pattern (27 bp):
TACCATTTTACCCTAAACTTCCCTAAA
Found at i:6548502 original size:58 final size:57
Alignment explanation
Indices: 6548416--6548550 Score: 216
Period size: 58 Copynumber: 2.3 Consensus size: 57
6548406 GAAACTTTCA
*
6548416 AAAATTACCATTTTACCCTAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACT
1 AAAATTACCATTTTACCCTAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
* *
6548473 AAAATTACCATTTTACCCATAAACTTCCCTAAATCCCATTTTTAACCCCGATTTTACC
1 AAAATTACCATTTTACCC-TAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
*
6548531 AAAATCTACCATTTTGCCCT
1 AAAAT-TACCATTTTACCCT
6548551 CGGGTATCCA
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
57 18 0.25
58 42 0.58
59 12 0.17
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.34
Consensus pattern (57 bp):
AAAATTACCATTTTACCCTAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
Found at i:6556499 original size:10 final size:11
Alignment explanation
Indices: 6556477--6556505 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
6556467 TTCTGACTTT
6556477 GAAAAATTGTA
1 GAAAAATTGTA
6556488 GAAAAATT-TA
1 GAAAAATTGTA
6556498 GAAAAATT
1 GAAAAATT
6556506 ATTAAAGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (11 bp):
GAAAAATTGTA
Found at i:6556973 original size:23 final size:23
Alignment explanation
Indices: 6556947--6557060 Score: 160
Period size: 23 Copynumber: 5.0 Consensus size: 23
6556937 TTACCGTTCA
6556947 GCACTGTGTGTGCTTACTGTTTC
1 GCACTGTGTGTGCTTACTGTTTC
*
6556970 GCACTTTGTGTGCTTACTGTTTC
1 GCACTGTGTGTGCTTACTGTTTC
* *
6556993 GCACTTTGTGTGCCTACTGTTTC
1 GCACTGTGTGTGCTTACTGTTTC
* *
6557016 GCACT-TCGTGTGCCTACTGATT-
1 GCACTGT-GTGTGCTTACTGTTTC
6557038 GCACTGTGTGTGCTTACTGTTTC
1 GCACTGTGTGTGCTTACTGTTTC
6557061 CCCAGCACTT
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
22 19 0.23
23 64 0.77
ACGTcount: A:0.10, C:0.24, G:0.24, T:0.43
Consensus pattern (23 bp):
GCACTGTGTGTGCTTACTGTTTC
Found at i:6563078 original size:68 final size:68
Alignment explanation
Indices: 6562964--6563443 Score: 665
Period size: 68 Copynumber: 6.9 Consensus size: 68
6562954 ATCATTTCCA
* * *
6562964 ATCCGCTTGAAATTAAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
6563029 GTC
66 GTC
* *
6563032 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAAATGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
6563097 GTC
66 GTC
6563100 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
6563165 GTC
66 GTC
* *
6563168 ATCCGCTTGAAATTGAAGTAGAGTTAGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
6563233 TGTC
65 CGTC
* * * * *
6563237 ATCCTCTTGAAATTGAAGTGGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAACAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
6563302 GTC
66 GTC
* * *
6563305 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAATTTGAAGTAAGAGCAA-
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
6563369 GATC
66 G-TC
* * * *
6563373 ATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGACATCAAGTCTTTGTCCCTCTGAAATTGAAG
1 A--T-C---CC-CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTAT--CTCTGAAATTGAAG
6563438 TAAGAG
56 TAAGAG
6563444 TAAGATGAAG
Statistics
Matches: 373, Mismatches: 27, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
67 1 0.00
68 255 0.68
69 64 0.17
70 1 0.00
71 1 0.00
74 1 0.00
75 18 0.05
76 13 0.03
78 19 0.05
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (68 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:6563252 original size:205 final size:208
Alignment explanation
Indices: 6562888--6563443 Score: 742
Period size: 205 Copynumber: 2.6 Consensus size: 208
6562878 ATCATTTTCA
* * * *
6562888 ATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGAGCAAA
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC--A
* *
6562953 GATCATTTCCAATCCGCTTGAAATTAAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAA
64 -ATCA-GTCCAATCCGCTTGAAATTAAAGTAGAGTAGATAACAAGTCTTTATCTCTGAAATTGAA
6563018 GTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAAAT
127 GTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAAAT
*
6563083 GAAGTAAGAGCAACGTC
192 GAAGTAAGAACAACGTC
6563100 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA-
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
* *
6563164 C-GT-C-ATCCGCTTGAAATTGAAGTAGAGTTAGATAACACGTCTTTATCTCTGAAATTGAAGTA
66 CAGTCCAATCCGCTTGAAATTAAAGTAGAG-TAGATAACAAGTCTTTATCTCTGAAATTGAAGTA
* * * * * *
6563226 AGAGCAATGTCATCCTCTTGAAATTGAAGTGGAGTGGATAACATGTCTTTATCTCTGAAATTGAA
130 AGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAAATGAA
*
6563291 GTAAGAACAATGTC
195 GTAAGAACAACGTC
* * *
6563305 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAATTTGAAGTAAGAGCAAG
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A-
* * * * * * * *
6563370 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGACATCAAGTCTTTGTCCCTCTGAAATTG
64 ATCA-GTCCAATCCGCTTGAAATTAAAGTAGAG-TAGATAACAAGTCTTTAT--CTCTGAAATTG
6563435 AAGTAAGAG
125 AAGTAAGAG
6563444 TAAGATGAAG
Statistics
Matches: 307, Mismatches: 27, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
204 22 0.07
205 163 0.53
206 2 0.01
207 1 0.00
208 2 0.01
209 1 0.00
210 2 0.01
211 1 0.00
212 93 0.30
214 20 0.07
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (208 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
CAGTCCAATCCGCTTGAAATTAAAGTAGAGTAGATAACAAGTCTTTATCTCTGAAATTGAAGTAA
GAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAAATGAAG
TAAGAACAACGTC
Found at i:6563267 original size:137 final size:136
Alignment explanation
Indices: 6562888--6563443 Score: 734
Period size: 137 Copynumber: 3.9 Consensus size: 136
6562878 ATCATTTTCA
* * * *
6562888 ATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGAGCAAA
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
*
6562953 GATCATTTCCAATCCGCTTGAAATTAAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAA
66 G-TCA--TCC--T---CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAA
6563018 GTAAGAGCAACGTC
123 GTAAGAGCAACGTC
* * * *
6563032 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAAATGAAGTAAGAGCAAC
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
* *
6563097 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC
66 GTCATCCTCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGC
6563162 AACGTC
131 AACGTC
*
6563168 ATCCGCTTGAAATTGAAGTAGAGTTAGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* * *
6563233 TGTCATCCTCTTGAAATTGAAGTGGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAA
65 TGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAG
*
6563298 CAATGTC
130 CAACGTC
* * *
6563305 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAATTTGAAGTAAGAGCAAG
1 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC---
* * * *
6563370 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGACATCAAGTCTTTGTCCCTCTGAAATTG
63 A--ATGT-C-ATCCTCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTTAT--CTCTGAAATTG
6563435 AAGTAAGAG
121 AAGTAAGAG
6563444 TAAGATGAAG
Statistics
Matches: 370, Mismatches: 31, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
136 119 0.32
137 126 0.34
139 1 0.00
141 6 0.02
142 1 0.00
143 25 0.07
144 73 0.20
146 19 0.05
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (136 bp):
ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
GTCATCCTCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGC
AACGTC
Found at i:6563319 original size:31 final size:31
Alignment explanation
Indices: 6563213--6563324 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 31
6563203 TCTTTATCTC
*
6563213 TGAAATTGAAGTAAGAGCAATGTCATCCTCT
1 TGAAATTGAAGTAAGAACAATGTCATCCTCT
* * **
6563244 TGAAATTGAAGTGGAGTGGATA-ACATGTCTTTATCT
1 TGAAATTGAAGT--A--AGA-ACA-ATGTCATCCTCT
6563280 CTGAAATTGAAGTAAGAACAATGTCATCCTCT
1 -TGAAATTGAAGTAAGAACAATGTCATCCTCT
6563312 TGAAATTGAAGTA
1 TGAAATTGAAGTA
6563325 GAGTGGATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
31 25 0.39
32 10 0.16
33 4 0.06
35 4 0.06
36 9 0.14
37 12 0.19
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (31 bp):
TGAAATTGAAGTAAGAACAATGTCATCCTCT
Found at i:6563449 original size:78 final size:75
Alignment explanation
Indices: 6562874--6563449 Score: 470
Period size: 68 Copynumber: 8.1 Consensus size: 75
6562864 TCAGACCAAA
* * * * * *
6562874 CAAGATCATTTTCAATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGACAACAAGCCTTTATCTCTGAAATT
*
6562939 GAAGTAGGAG
66 GAAGTAAGAG
* * * * *
6562949 CAAAGATCATTTCCAATCCGCTTGAAATTAAAGTAGAGTGGATAACAAGTCTTTATCTCTGAAAT
1 C-AAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGACAACAAGCCTTTATCTCTGAAAT
6563014 TGAAGTAAGAG
65 TGAAGTAAGAG
* * ** *
6563025 CAACG-TCA--T-C---CC-CTTGAAATTGAAGTAGAGTGGATAACACGTATTTATCTCTGAAAA
1 CAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGACAACAAGCCTTTATCTCTGAAAT
6563082 TGAAGTAAGAG
65 TGAAGTAAGAG
* * *
6563093 CAACG-TCA--T-C---CC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAAT
1 CAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGACAACAAGCCTTTATCTCTGAAAT
6563150 TGAAGTAAGAG
65 TGAAGTAAGAG
* * * * * *
6563161 C-A-A-C--GT-C-ATCCGCTTGAAATTGAAGTAGAGTTAGATAACACGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGACAACAAGCCTTTATCTCTGAAAT
6563219 TGAAGTAAGAG
65 TGAAGTAAGAG
* * * * *
6563230 C---A--ATGT-C-ATCCTCTTGAAATTGAAGTGGAGTGGATAACATGTCTTTATCTCTGAAATT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGACAACAAGCCTTTATCTCTGAAATT
6563288 GAAGT-A-AG
66 GAAGTAAGAG
* * * * *
6563296 -AACA--ATGT-C-ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAATTT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGACAACAAGCCTTTATCTCTGAAATT
6563356 GAAGTAAGAG
66 GAAGTAAGAG
* * *
6563366 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGACATCAAGTCTTTGTCCCTCTGAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGACAACAAGCCTTTAT--CTCTGAA
6563431 ATTGAAGTAAGAG
63 ATTGAAGTAAGAG
*
6563444 TAAGAT
1 CAAGAT
6563450 GAAGCACCAA
Statistics
Matches: 450, Mismatches: 28, Indels: 43
0.86 0.05 0.08
Matches are distributed among these distances:
65 3 0.01
66 2 0.00
67 4 0.01
68 227 0.50
69 65 0.14
70 2 0.00
71 3 0.01
72 1 0.00
73 4 0.01
74 1 0.00
75 29 0.06
76 85 0.19
78 24 0.05
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (75 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGACAACAAGCCTTTATCTCTGAAATT
GAAGTAAGAG
Found at i:6563797 original size:6 final size:6
Alignment explanation
Indices: 6563761--6563864 Score: 78
Period size: 6 Copynumber: 18.0 Consensus size: 6
6563751 GACTTTGATT
* * * *
6563761 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAGA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
6563805 TCTTAAA TTTAAA TTTATTTA TTTAAA TTT-AC TTTAAA TTTAAA TTT-AA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
6563854 -TTAAA TTTAAA
1 TTTAAA TTTAAA
6563865 AATAATATTA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
4 4 0.05
5 18 0.23
6 49 0.63
7 2 0.03
8 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:6563798 original size:17 final size:16
Alignment explanation
Indices: 6563773--6563864 Score: 116
Period size: 17 Copynumber: 5.7 Consensus size: 16
6563763 TAAGTTTAAA
*
6563773 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
*
6563790 TTAGATTTAAATTTAT
1 TTAAATTTAAATTTAT
6563806 CTTAAATTTAAATTTAT
1 -TTAAATTTAAATTTAT
6563823 TT--ATTTAAATTTACT
1 TTAAATTTAAATTTA-T
*
6563838 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
6563854 TTAAATTTAAA
1 TTAAATTTAAA
6563865 AATAATATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.16
15 3 0.04
16 18 0.27
17 35 0.52
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:6563855 original size:11 final size:11
Alignment explanation
Indices: 6563761--6563864 Score: 68
Period size: 11 Copynumber: 9.0 Consensus size: 11
6563751 GACTTTGATT
6563761 TTTAAGTTTAAA
1 TTTAA-TTTAAA
6563773 -TTAATTTTAAA
1 TTTAA-TTTAAA
* *
6563784 TTTTATTTAGA
1 TTTAATTTAAA
**
6563795 TTTAAATTTATC
1 TTT-AATTTAAA
*
6563807 TTAAATTTAAA
1 TTTAATTTAAA
6563818 TTTATTTATTTAAA
1 TTTA---ATTTAAA
*
6563832 TTTACTTTAAA
1 TTTAATTTAAA
6563843 TTTAAATTT-AA
1 TTT-AATTTAAA
*
6563854 TTAAATTTAAA
1 TTTAATTTAAA
6563865 AATAATATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
10 5 0.07
11 42 0.58
12 14 0.19
14 11 0.15
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:6565746 original size:30 final size:30
Alignment explanation
Indices: 6565710--6566053 Score: 365
Period size: 30 Copynumber: 11.4 Consensus size: 30
6565700 AATTGTCGAG
*
6565710 AAATTACATTTTAACCCCAAAAC-TTTCTAA
1 AAATTACATTTTAACCCCAAAACTTTTC-CA
*
6565740 AAATTACATTTTAACCCCTAAACTTTTCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
* * *
6565770 AAATTATATTTTGACCCCTAAACTTTTCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
* * *
6565800 AAATTATATTTTTACCCCTAAACTTTTCCAA
1 AAATTACATTTTAACCCCAAAACTTTTCC-A
* * *
6565831 AACATTATATTTCAA-CCCATAACTTTTCCA
1 AA-ATTACATTTTAACCCCAAAACTTTTCCA
* * *
6565861 AAATTATATTTTGACCCCAAAAC-TTTCTAA
1 AAATTACATTTTAACCCCAAAACTTTTC-CA
*
6565891 AAATTATATTTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
* *
6565921 AAATTACATCTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
6565951 AAATTACATTTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
* * * **
6565981 AAATCATATTTTGACCCCAAAA-TTTCTGAA
1 AAATTACATTTTAACCCCAAAACTTT-TCCA
* * * *
6566011 AAATTGCATTTTTACCCCGAAAC-TTTCAA
1 AAATTACATTTTAACCCCAAAACTTTTCCA
6566040 AAATTACCATTTTA
1 AAATTA-CATTTTA
6566054 CCCTAAACTT
Statistics
Matches: 272, Mismatches: 33, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
29 25 0.09
30 214 0.79
31 23 0.08
32 10 0.04
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (30 bp):
AAATTACATTTTAACCCCAAAACTTTTCCA
Found at i:6565917 original size:151 final size:151
Alignment explanation
Indices: 6565710--6566053 Score: 455
Period size: 151 Copynumber: 2.3 Consensus size: 151
6565700 AATTGTCGAG
*
6565710 AAATTACATTTTAACCCCAAAACTTTCTAAAAATTACATTTTAACCCCTAAACTTTTCCAAAATT
1 AAATTACATTTTAACCCCAAAACTTTCTAAAAATTACATTTTAACCCCAAAACTTTTCCAAAATT
* * * * * *
6565775 ATATTTTGACCCCT-AAACTTTTCCAAAATTATATTTTTACCCCTAAACTTTTCCAAAACATTAT
66 ACATCTT-AACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCCAAAACATTAT
6565839 ATTTCAACCCATAACTTTTCCA
130 ATTTCAACCCATAACTTTTCCA
* * *
6565861 AAATTATATTTTGACCCCAAAACTTTCTAAAAATTATATTTTAACCCCAAAACTTTTCCAAAATT
1 AAATTACATTTTAACCCCAAAACTTTCTAAAAATTACATTTTAACCCCAAAACTTTTCCAAAATT
6565926 ACATCTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCCAAAATCA-TAT
66 ACATCTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCCAAAA-CATTAT
* * * **
6565990 -TTTGACCCCA-AAATTTCTGAA
130 ATTTCAACCCATAACTTT-TCCA
* * *
6566011 AAATTGCATTTTTACCCCGAAACTTTC-AAAAATTACCATTTTA
1 AAATTACATTTTAACCCCAAAACTTTCTAAAAATTA-CATTTTA
6566054 CCCTAAACTT
Statistics
Matches: 169, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
149 13 0.08
150 44 0.26
151 110 0.65
152 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (151 bp):
AAATTACATTTTAACCCCAAAACTTTCTAAAAATTACATTTTAACCCCAAAACTTTTCCAAAATT
ACATCTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCCAAAACTTTTCCAAAACATTATA
TTTCAACCCATAACTTTTCCA
Found at i:6566071 original size:28 final size:26
Alignment explanation
Indices: 6566044--6566137 Score: 62
Period size: 29 Copynumber: 3.3 Consensus size: 26
6566034 TTTCAAAAAT
6566044 TACCATTTTACCCTAAACTTCCTTAAA
1 TACCATTTTACCC-AAACTTCCTTAAA
* ** * *
6566071 TCCCATTTTAAACCCCGATTTCACTAAAA
1 TACCATTTT--ACCCAAACTTC-CTTAAA
*
6566100 TTACCATTTTACCCACAAACTTCCCTAAA
1 -TACCATTTTA-CC-CAAACTTCCTTAAA
*
6566129 TCCCATTTT
1 TACCATTTT
6566138 TAACCTCGAT
Statistics
Matches: 49, Mismatches: 12, Indels: 11
0.68 0.17 0.15
Matches are distributed among these distances:
27 8 0.16
28 13 0.27
29 15 0.31
30 13 0.27
ACGTcount: A:0.32, C:0.32, G:0.01, T:0.35
Consensus pattern (26 bp):
TACCATTTTACCCAAACTTCCTTAAA
Found at i:6566078 original size:57 final size:56
Alignment explanation
Indices: 6566017--6566168 Score: 182
Period size: 58 Copynumber: 2.6 Consensus size: 56
6566007 TGAAAAATTG
* *
6566017 CATTTTTACCCCGAAACTTTCA-AAAATTACCATTTTACCC-TAAACTTCCTTAAATCC
1 CATTTTTACCCCG--A-TTTCACAAAATTACCATTTTACCCACAAACTTCCCTAAATCC
*
6566074 CATTTTAAACCCCGATTTCACTAAAATTACCATTTTACCCACAAACTTCCCTAAATCC
1 CATTTT-TACCCCGATTTCAC-AAAATTACCATTTTACCCACAAACTTCCCTAAATCC
*
6566132 CATTTTTAACCTCGATTTCACCAAAATCTACCATTTT
1 CATTTTT-ACCCCGATTTCA-CAAAAT-TACCATTTT
6566169 GCCCCCGGGT
Statistics
Matches: 83, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
55 5 0.06
56 1 0.01
57 24 0.29
58 43 0.52
59 10 0.12
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (56 bp):
CATTTTTACCCCGATTTCACAAAATTACCATTTTACCCACAAACTTCCCTAAATCC
Found at i:6566086 original size:58 final size:57
Alignment explanation
Indices: 6566034--6566168 Score: 193
Period size: 58 Copynumber: 2.4 Consensus size: 57
6566024 ACCCCGAAAC
* *
6566034 TTTCA-AAAATTACCATTTTACCC-TAAACTTCCTTAAATCCCATTTTAAACCCCGA
1 TTTCACAAAATTACCATTTTACCCACAAACTTCCCTAAATCCCATTTTAAACCCCGA
* *
6566089 TTTCACTAAAATTACCATTTTACCCACAAACTTCCCTAAATCCCATTTTTAACCTCGA
1 TTTCAC-AAAATTACCATTTTACCCACAAACTTCCCTAAATCCCATTTTAAACCCCGA
6566147 TTTCACCAAAATCTACCATTTT
1 TTTCA-CAAAAT-TACCATTTT
6566169 GCCCCCGGGT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 5 0.07
57 18 0.25
58 38 0.54
59 10 0.14
ACGTcount: A:0.33, C:0.30, G:0.01, T:0.36
Consensus pattern (57 bp):
TTTCACAAAATTACCATTTTACCCACAAACTTCCCTAAATCCCATTTTAAACCCCGA
Found at i:6581133 original size:437 final size:437
Alignment explanation
Indices: 6580319--6583259 Score: 4133
Period size: 437 Copynumber: 6.8 Consensus size: 437
6580309 TGCAACTTGC
* * *
6580319 AAAAGGCTTTAGTTTATTGGCCTTCACAATAACTTTTTCAAGTTTCACAGCTGCTTTTATACATA
1 AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACATCTGCTTTTATACATA
* * * * * *
6580384 CTGGTGGTCCTTTAGGGCTACATATACATCATAAATTTAGTTTCCTACTTGGTTGGAACCATGCC
66 CTGATGGTCCTTTCGAGCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCC
* * * * *
6580449 TAATTAAACTACTAATAACAGTGAC-GGAGTCAGAAAATTTGTTTTGAG-GG-CGGAATTAAATT
131 TAATTAAACTGCTAATAACAGTGGCGGGA-TTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATT
* * * * * **
6580511 GTAAATTTTTATAATAGTAAAATTACAATTTCATCATTTTAATAGTTTATATCAGTATAATTTTT
195 ATATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTT
* * *
6580576 AAAGGGTTAAATCAAATTTTTATCATTTTTAAAGGATCAAAATGCAATTTTACTATTAGTATTTT
260 AAAGGGTTAAATCAAATTTTTATCATTTTTTAAGGATCAAAGTGCAATTTTACTATTACTATTTT
*
6580641 AAAATTTTATAAATTATAAAGAGTTTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCC
325 AAAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCC
** *
6580706 CGGATCTCCACTACGCTTTGTCACTGACTACTAAGTCTAACTTTTTGG
390 CGGATCTCCACTACGCTCCGTCACTGACTACTAAATCTAACTTTTTGG
*
6580754 AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACATCTGCATTTATACATA
1 AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACATCTGCTTTTATACATA
* * *
6580819 CGGATGGTCCTTTCGAGCTACACATACATAATAAATTTAGTTTCCTATTTGGTTAGAACCATTCC
66 CTGATGGTCCTTTCGAGCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCC
* * *
6580884 TAATTAAACCGCTAATAACAGTGGCGGGATTAAAAAATTTGTTTTGAGAGATCGAAACTAAATTA
131 TAATTAAACTGCTAATAACAGTGGCGGGATTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTA
*
6580949 TATATTTTTATAATAGTAAAAATGTAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTTA
196 TATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTTA
* *
6581014 AAGGGTTAAATCAAATTTTTATCATTTTTGAAGGATTAAAGTGCAATTTTACTATTACTATTTTA
261 AAGGGTTAAATCAAATTTTTATCATTTTTTAAGGATCAAAGTGCAATTTTACTATTACTATTTTA
* *
6581079 AAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAAAATGGACCATGACTCCT
326 AAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCCC
*
6581144 GGATCTGCACTACG---C-T--C-G--------ATC--AC----T-G
391 GGATCTCCACTACGCTCCGTCACTGACTACTAAATCTAACTTTTTGG
* * * *
6581169 ---AGGTTTTAGTTTATTGGCCTTCACAGTAACTTTTTCAAATTTCACAACTGCTTTTATACATA
1 AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACATCTGCTTTTATACATA
* *
6581231 CTGATGGTCCTTTC-AGGCTACATATACATAATAAATTTAGTTTCCTACTTGGTTAGAACTATGC
66 CTGATGGTCCTTTCGA-GCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGC
* * * * * * *
6581295 TTAATTAAACTGATAATAACAGTGACGGGGTTAAAAAATTTGTTTTGGGAGGCCGAAACTAAATT
130 CTAATTAAACTGCTAATAACAGTGGCGGGATTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATT
*
6581360 GTATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAG-CATATATCTTTATAATTTT
195 ATATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGTC-TATATCTTTATAATTTT
* * *
6581424 TAAAGGGCT---T----TTTTTATCATTTTTTAAGGATCAGAGTGTAATTTTACTATTACTATTT
259 TAAAGGGTTAAATCAAATTTTTATCATTTTTTAAGGATCAAAGTGCAATTTTACTATTACTATTT
* * * *
6581482 TAAAATTTTATAAATTAAAAAGAGTTTAAATTAAAATTGTACCGTTTTAGAATGGACCATGACTC
324 TAAAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTC
** *
6581547 CCGGATCTCCACTACGCTCTATCACTGACTACTAAATCTAACTTTTTGA
389 CCGGATCTCCACTACGCTCCGTCACTGACTACTAAATCTAACTTTTTGG
* * * * *
6581596 AAAAGACTTTAATTTATTTGCTTTCACAGTAACTTTTTCAAATTTTACAGT-TGCTTTTATACAT
1 AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACA-TCTGCTTTTATACAT
* * * * *
6581660 ACTGGTGGTCTTTTCCAACTACACATA-ATAATAAATTTAGTTTCCTACTTGGTTGGAACCATGC
65 ACTGATGGTCCTTTCGAGCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGC
* * * *
6581724 CTAATTAAATTGCTAATAATAGTGGCGGGGTTAAAAATTTTGTTTTGAGAGGTCGGAACTAAATT
130 CTAATTAAACTGCTAATAACAGTGGCGGGATTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATT
*
6581789 ATATATTTTTATAATAGTAAAAATGTAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTT
195 ATATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTT
* * * * *
6581854 AAAGGGCTAAATCAATTTTTTTTTATTTTTTAAGGATCAAAGTACAATTTTACTATTACTATTTT
260 AAAGGGTTAAATCAAATTTTTATCATTTTTTAAGGATCAAAGTGCAATTTTACTATTACTATTTT
*
6581919 AAAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGAACCATGACTCC
325 AAAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCC
** * * *
6581984 CAAATCTCCACCACGCTCCGTCACTAACTACTAAATCTAACTTTTGGG
390 CGGATCTCCACTACGCTCCGTCACTGACTACTAAATCTAACTTTTTGG
* *
6582032 AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTTCAAGTTTCACAACTACTTTTATACAT
1 AAAAGGCTTTAATTTATTGGCCTTCACAGTAAC-TTTTTCAAGTTTCACATCTGCTTTTATACAT
* * * * *
6582097 ATTGATGGTTCTTTTGGGCTACACATATATAATAAATTTAGTTTCCTA-TGTGGTTAGAACCATG
65 ACTGATGGTCCTTTCGAGCTACACATACATAATAAATTTAGTTTCCTACT-TGGTTAGAACCATG
*
6582161 CCTAATTAAACTGCTAATAACAGTGGCGGGGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAAT
129 CCTAATTAAACTGCTAATAACAGTGGCGGGATTAAAAAATTTGTTTTGAGAGGTCGGAACTAAAT
* *
6582226 TATATATTTTTTATAATAGTTAAAATGCAATTTCATCATTTTAATAGTTTATATCTTTATAATTT
194 TATATA-TTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGTCTATATCTTTATAATTT
*
6582291 TTAAAGGGCTAAATCAAATTTTTATCATTTTTTAAGGATCAAAGTGCAATTTTACTATTACTATT
258 TTAAAGGGTTAAATCAAATTTTTATCATTTTTTAAGGATCAAAGTGCAATTTTACTATTACTATT
*
6582356 TTAAAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGAACCATGACT
323 TTAAAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACT
** * *
6582421 CCCAAATCTCCACCATGCTCCGTCACTGACTACTAAATCTAACTTTTTGG
388 CCCGGATCTCCACTACGCTCCGTCACTGACTACTAAATCTAACTTTTTGG
*
6582471 AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACATCTACTTTTATACATA
1 AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACATCTGCTTTTATACATA
* * * * *
6582536 TTGATGGTCCTTTCGGGCTACACATATATAATAAATTTAGTTTCCTACGTGATTAGAACCATGCC
66 CTGATGGTCCTTTCGAGCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCC
* * *
6582601 TAATTAAACTGTTAAAAACAGTGGC-AGAGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATT
131 TAATTAAACTGCTAATAACAGTGGCGGGA-TTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATT
* *
6582665 ATATATTTTTATAATAGTTAAAATGCAATTTCATCATTTTAATAGTTTATATCTTTATAATTTTT
195 ATATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTT
* * * * *
6582730 AAAGTGTTAAATCAAATTTTTATCATTTTTGAATGATCAAAATGCAATTTTACTATTAGTATTTT
260 AAAGGGTTAAATCAAATTTTTATCATTTTTTAAGGATCAAAGTGCAATTTTACTATTACTATTTT
*
6582795 AAAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGGCTCC
325 AAAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCC
*
6582860 CGGATCTCCACTACGCTCCGTCACTGACTACTAAGTCTAACTTTTTGG
390 CGGATCTCCACTACGCTCCGTCACTGACTACTAAATCTAACTTTTTGG
* * * *
6582908 AAAAGGCTTTAGTCTATTGGCCTTAACAGTAACTTTTTCAAGTTTCACAGT-TGTTTTTATACAT
1 AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACA-TCTGCTTTTATACAT
* *
6582972 ACTGATGGTCCTTTCGAGCTACACATACATAATAAATTTAGTTTCCTATTTGGTTGGAACCATGC
65 ACTGATGGTCCTTTCGAGCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGC
* * *
6583037 CTAATTAAACTTCTAATAAAAGTGGCAAGG-TT-AAAAATTTGTTTTGAGAGGTCGGAACTAAAT
130 CTAATTAAACTGCTAATAACAGTGGC-GGGATTAAAAAATTTGTTTTGAGAGGTCGGAACTAAAT
* * *
6583100 TATATATTTTTACAATAGTAAAAATGTAATTTAATCATTTTAATAG-CTTATATCTTTATAATTT
194 TATATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGTC-TATATCTTTATAATTT
* * * * * *
6583164 TTAAAGGGTTAAATCAAATTTTTAT-A-TTTTTAGGGACCAAAATGTAATTTTA-TCATTATTAA
258 TTAAAGGGTTAAATCAAATTTTTATCATTTTTTAAGGATCAAAGTGCAATTTTACT-ATTACTAT
* *
6583226 TTTAAAATTTTATAAATTACAAAAAGTCTAAATT
322 TTTAAAATTTTATAAATTATAAAGAGTCTAAATT
6583260 TTTTTTTTCA
Statistics
Matches: 2256, Mismatches: 198, Indels: 105
0.88 0.08 0.04
Matches are distributed among these distances:
405 118 0.05
409 2 0.00
411 3 0.00
412 240 0.11
415 1 0.00
416 1 0.00
420 5 0.00
422 4 0.00
426 1 0.00
429 160 0.07
430 76 0.03
431 2 0.00
432 1 0.00
433 2 0.00
434 59 0.03
435 157 0.07
436 291 0.13
437 615 0.27
438 256 0.11
439 262 0.12
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (437 bp):
AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACATCTGCTTTTATACATA
CTGATGGTCCTTTCGAGCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCC
TAATTAAACTGCTAATAACAGTGGCGGGATTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTA
TATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTTA
AAGGGTTAAATCAAATTTTTATCATTTTTTAAGGATCAAAGTGCAATTTTACTATTACTATTTTA
AAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCCC
GGATCTCCACTACGCTCCGTCACTGACTACTAAATCTAACTTTTTGG
Found at i:6582881 original size:876 final size:870
Alignment explanation
Indices: 6580319--6583259 Score: 4257
Period size: 876 Copynumber: 3.4 Consensus size: 870
6580309 TGCAACTTGC
* *
6580319 AAAAGGCTTTAGTTTATTGGCCTTCACAATAACTTTTTCAAGTTTCACAGCTGCTTTTATACATA
1 AAAAGGCTTTAGTTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACAACTGCTTTTATACATA
* * * * *
6580384 CTGGTGGTCCTTTAGGGCTACATATACATCATAAATTTAGTTTCCTACTTGGTTGGAACCATGCC
66 CTGATGGTCCTTTCGGGCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCC
* * * * * *
6580449 TAATTAAACTACTAATAACAGTGACGGAGTCAGAAAATTTGTTTTGAG-GG-CGGAATTAAATTG
131 TAATTAAACTGCTAATAACAGTGACGGGGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTA
* * * * **
6580512 TAAATTTTTATAATAGTAAAATTACAATTTCATCATTTTAATAGTTTATATCAGTATAATTTTTA
196 TATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGCTTATATCTTTATAATTTTTA
* * *
6580577 AAGGGTTAAATCAAATTTTTATCATTTTTAAAGGATCAAAATGCAATTTTACTATTAGTATTTTA
261 AAGGGCTAAATCAAATTTTTATCATTTTTTAAGGATCAAAATGCAATTTTACTATTACTATTTTA
*
6580642 AAATTTTATAAATTATAAAGAGTTTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCCC
326 AAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCCC
* *
6580707 GGATCTCCACTACGCTTTGTCACTGACTACTAAGTCTAACTTTTTGGAAAAGGCTTTAATTTATT
391 GGATCTCCACTACGCTCTGTCACTGACTACTAAATCTAACTTTTTGGAAAAGGCTTTAATTTATT
* *
6580772 GGCCTTCACAGTAACTTTTTCAAGTTTCACATCTGCATTTATACATACGGATGGTCCTTTCGAGC
456 GGCCTTCACAGTAACTTTTTCAAGTTTCACATCTGCTTTTATACATACTGATGGTCCTTTCGAGC
* * *
6580837 TACACATACATAATAAATTTAGTTTCCTATTTGGTTAGAACCATTCCTAATTAAACCGCTAATAA
521 TACACATA-ATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCCTAATTAAACTGCTAATAA
* *
6580902 CAGTGGCGGGATTAAAAAATTTGTTTTGAGAGATCGAAACTAAATTATATATTTTTATAATAGTA
585 CAGTGGCGGG-TTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTATATATTTTTATAATAGTA
6580967 AAAATGTAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTTAAAGGGTTAAATCAAATTT
649 AAAATGTAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTTAAAGGGTTAAATCAAATTT
*
6581032 TTATCATTTTTGAAGGATTAAAGTGCAATTTTACTATTACTATTTTAAAATTTTATAAATTATAA
714 TTATCATTTTTGAAGGATCAAAGTGCAATTTTACTATTACTATTTTAAAATTTTATAAATTATAA
* * *
6581097 AGAGTCTAAATTAAAATTTTACCATTTTAAAATGGACCATGACTCCTGGATCTGCACTACGCT-C
779 AGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCCCGGATCTCCACTACGCTCC
6581161 G-------------ATC--AC---T-G
844 GTCACTACTACTAAATCTAACTTTTGG
* *
6581169 ---AGGTTTTAGTTTATTGGCCTTCACAGTAACTTTTTCAAATTTCACAACTGCTTTTATACATA
1 AAAAGGCTTTAGTTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACAACTGCTTTTATACATA
* * * *
6581231 CTGATGGTCCTTTCAGGCTACATATACATAATAAATTTAGTTTCCTACTTGGTTAGAACTATGCT
66 CTGATGGTCCTTTCGGGCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCC
* * * * *
6581296 TAATTAAACTGATAATAACAGTGACGGGGTTAAAAAATTTGTTTTGGGAGGCCGAAACTAAATTG
131 TAATTAAACTGCTAATAACAGTGACGGGGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTA
*
6581361 TATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGCATATATCTTTATAATTTTTA
196 TATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGCTTATATCTTTATAATTTTTA
* * *
6581426 AAGGGCT---T----TTTTTATCATTTTTTAAGGATCAGAGTGTAATTTTACTATTACTATTTTA
261 AAGGGCTAAATCAAATTTTTATCATTTTTTAAGGATCAAAATGCAATTTTACTATTACTATTTTA
* * * *
6581484 AAATTTTATAAATTAAAAAGAGTTTAAATTAAAATTGTACCGTTTTAGAATGGACCATGACTCCC
326 AAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCCC
* * *
6581549 GGATCTCCACTACGCTCTATCACTGACTACTAAATCTAACTTTTTGAAAAAGACTTTAATTTATT
391 GGATCTCCACTACGCTCTGTCACTGACTACTAAATCTAACTTTTTGGAAAAGGCTTTAATTTATT
* * * * * * * *
6581614 TGCTTTCACAGTAACTTTTTCAAATTTTACAGT-TGCTTTTATACATACTGGTGGTCTTTTCCAA
456 GGCCTTCACAGTAACTTTTTCAAGTTTCACA-TCTGCTTTTATACATACTGATGGTCCTTTCGAG
* *
6581678 CTACACATAATAATAAATTTAGTTTCCTACTTGGTTGGAACCATGCCTAATTAAATTGCTAATAA
520 CTACACATAATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCCTAATTAAACTGCTAATAA
* *
6581743 TAGTGGCGGGGTTAAAAATTTTGTTTTGAGAGGTCGGAACTAAATTATATATTTTTATAATAGTA
585 CAGTGGC-GGGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTATATATTTTTATAATAGTA
* *
6581808 AAAATGTAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTTAAAGGGCTAAATCAATTTT
649 AAAATGTAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTTAAAGGGTTAAATCAAATTT
* * * *
6581873 TTTTTATTTTTTAAGGATCAAAGTACAATTTTACTATTACTATTTTAAAATTTTATAAATTATAA
714 TTATCATTTTTGAAGGATCAAAGTGCAATTTTACTATTACTATTTTAAAATTTTATAAATTATAA
* ** *
6581938 AGAGTCTAAATTAAAATTTTACCATTTTAGAATGAACCATGACTCCCAAATCTCCACCACGCTCC
779 AGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCCCGGATCTCCACTACGCTCC
6582003 GTCACTAACTACTAAATCTAACTTTTGGG
844 GTCACT-ACTACTAAATCTAACTTTT-GG
* *
6582032 AAAAGGCTTTAATTTATTGGCCTTCACAGTAACTTTTTTCAAGTTTCACAACTACTTTTATACAT
1 AAAAGGCTTTAGTTTATTGGCCTTCACAGTAAC-TTTTTCAAGTTTCACAACTGCTTTTATACAT
* * * *
6582097 ATTGATGGTTCTTTTGGGCTACACATATATAATAAATTTAGTTTCCTA-TGTGGTTAGAACCATG
65 ACTGATGGTCCTTTCGGGCTACACATACATAATAAATTTAGTTTCCTACT-TGGTTAGAACCATG
*
6582161 CCTAATTAAACTGCTAATAACAGTGGCGGGGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAAT
129 CCTAATTAAACTGCTAATAACAGTGACGGGGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAAT
* *
6582226 TATATATTTTTTATAATAGTTAAAATGCAATTTCATCATTTTAATAGTTTATATCTTTATAATTT
194 TATATA-TTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGCTTATATCTTTATAATTT
*
6582291 TTAAAGGGCTAAATCAAATTTTTATCATTTTTTAAGGATCAAAGTGCAATTTTACTATTACTATT
258 TTAAAGGGCTAAATCAAATTTTTATCATTTTTTAAGGATCAAAATGCAATTTTACTATTACTATT
*
6582356 TTAAAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGAACCATGACT
323 TTAAAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACT
** * * *
6582421 CCCAAATCTCCACCATGCTCCGTCACTGACTACTAAATCTAACTTTTTGGAAAAGGCTTTAATTT
388 CCCGGATCTCCACTACGCTCTGTCACTGACTACTAAATCTAACTTTTTGGAAAAGGCTTTAATTT
* *
6582486 ATTGGCCTTCACAGTAACTTTTTCAAGTTTCACATCTACTTTTATACATATTGATGGTCCTTTCG
453 ATTGGCCTTCACAGTAACTTTTTCAAGTTTCACATCTGCTTTTATACATACTGATGGTCCTTTCG
* * * *
6582551 GGCTACACATATATAATAAATTTAGTTTCCTACGTGATTAGAACCATGCCTAATTAAACTGTTAA
518 AGCTACACATA-ATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCCTAATTAAACTGCTAA
* *
6582616 AAACAGTGGCAGAGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTATATATTTTTATAATA
582 TAACAGTGGC-GGGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTATATATTTTTATAATA
* * * *
6582681 GTTAAAATGCAATTTCATCATTTTAATAGTTTATATCTTTATAATTTTTAAAGTGTTAAATCAAA
646 GTAAAAATGTAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTTAAAGGGTTAAATCAAA
* * *
6582746 TTTTTATCATTTTTGAATGATCAAAATGCAATTTTACTATTAGTATTTTAAAATTTTATAAATTA
711 TTTTTATCATTTTTGAAGGATCAAAGTGCAATTTTACTATTACTATTTTAAAATTTTATAAATTA
*
6582811 TAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGGCTCCCGGATCTCCACTACGC
776 TAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCCCGGATCTCCACTACGC
*
6582876 TCCGTCACTGACTACTAAGTCTAACTTTTTGG
841 TCCGTCACT-ACTACTAAATCTAAC-TTTTGG
* * ** *
6582908 AAAAGGCTTTAGTCTATTGGCCTTAACAGTAACTTTTTCAAGTTTCACAGTTGTTTTTATACATA
1 AAAAGGCTTTAGTTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACAACTGCTTTTATACATA
* * *
6582973 CTGATGGTCCTTTCGAGCTACACATACATAATAAATTTAGTTTCCTATTTGGTTGGAACCATGCC
66 CTGATGGTCCTTTCGGGCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCC
* * * **
6583038 TAATTAAACTTCTAATAAAAGTGGCAAGGTT-AAAAATTTGTTTTGAGAGGTCGGAACTAAATTA
131 TAATTAAACTGCTAATAACAGTGACGGGGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTA
* * *
6583102 TATATTTTTACAATAGTAAAAATGTAATTTAATCATTTTAATAGCTTATATCTTTATAATTTTTA
196 TATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGCTTATATCTTTATAATTTTTA
* * * * * *
6583167 AAGGGTTAAATCAAATTTTTAT-A-TTTTTAGGGACCAAAATGTAATTTTA-TCATTATTAATTT
261 AAGGGCTAAATCAAATTTTTATCATTTTTTAAGGATCAAAATGCAATTTTACT-ATTACTATTTT
* *
6583229 AAAATTTTATAAATTACAAAAAGTCTAAATT
325 AAAATTTTATAAATTATAAAGAGTCTAAATT
6583260 TTTTTTTTCA
Statistics
Matches: 1866, Mismatches: 181, Indels: 67
0.88 0.09 0.03
Matches are distributed among these distances:
841 287 0.15
842 233 0.12
843 1 0.00
846 1 0.00
847 158 0.08
848 2 0.00
849 75 0.04
856 3 0.00
858 2 0.00
861 1 0.00
863 1 0.00
866 29 0.02
867 148 0.08
868 65 0.03
870 1 0.00
871 61 0.03
872 1 0.00
873 77 0.04
874 38 0.02
875 337 0.18
876 341 0.18
877 4 0.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (870 bp):
AAAAGGCTTTAGTTTATTGGCCTTCACAGTAACTTTTTCAAGTTTCACAACTGCTTTTATACATA
CTGATGGTCCTTTCGGGCTACACATACATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCC
TAATTAAACTGCTAATAACAGTGACGGGGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTA
TATATTTTTATAATAGTAAAAATGCAATTTCATCATTTTAATAGCTTATATCTTTATAATTTTTA
AAGGGCTAAATCAAATTTTTATCATTTTTTAAGGATCAAAATGCAATTTTACTATTACTATTTTA
AAATTTTATAAATTATAAAGAGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCCC
GGATCTCCACTACGCTCTGTCACTGACTACTAAATCTAACTTTTTGGAAAAGGCTTTAATTTATT
GGCCTTCACAGTAACTTTTTCAAGTTTCACATCTGCTTTTATACATACTGATGGTCCTTTCGAGC
TACACATAATAATAAATTTAGTTTCCTACTTGGTTAGAACCATGCCTAATTAAACTGCTAATAAC
AGTGGCGGGTTAAAAAATTTGTTTTGAGAGGTCGGAACTAAATTATATATTTTTATAATAGTAAA
AATGTAATTTCATCATTTTAATAGTCTATATCTTTATAATTTTTAAAGGGTTAAATCAAATTTTT
ATCATTTTTGAAGGATCAAAGTGCAATTTTACTATTACTATTTTAAAATTTTATAAATTATAAAG
AGTCTAAATTAAAATTTTACCATTTTAGAATGGACCATGACTCCCGGATCTCCACTACGCTCCGT
CACTACTACTAAATCTAACTTTTGG
Found at i:6583909 original size:31 final size:31
Alignment explanation
Indices: 6583871--6583934 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
6583861 AGTAAAATTT
*
6583871 TAGAAAATTTTAAAAAAATAAAAAATATATA
1 TAGAAAATTTCAAAAAAATAAAAAATATATA
* * * *
6583902 TAGAAAATTTCCAAAAACTTAAATATATATA
1 TAGAAAATTTCAAAAAAATAAAAAATATATA
6583933 TA
1 TA
6583935 TTCTTTCCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (31 bp):
TAGAAAATTTCAAAAAAATAAAAAATATATA
Found at i:6587687 original size:3 final size:3
Alignment explanation
Indices: 6587679--6587728 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
6587669 TAATTGTTTT
6587679 ATA ATA ATA ATA ATA ATA ATA ATA 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
6587727 AT
1 AT
6587729 TTCAATTTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6589862 original size:5 final size:5
Alignment explanation
Indices: 6589852--6589883 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
6589842 AATAATCCTA
*
6589852 ATTAT ATTAT ATTAT ATTAT ATCAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
6589884 ATTCTGAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:6595515 original size:2 final size:2
Alignment explanation
Indices: 6595508--6595532 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6595498 TTTAATGGTT
6595508 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6595533 TCAAGACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6596632 original size:6 final size:6
Alignment explanation
Indices: 6596621--6596646 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6596611 CCCTTAACAC
6596621 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
6596647 CTGAAGGTGA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:6601680 original size:8 final size:8
Alignment explanation
Indices: 6601659--6601688 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
6601649 AAAATTTTCA
6601659 TTTAAATCT
1 TTTAAAT-T
6601668 TTTAAATT
1 TTTAAATT
6601676 TTTAAATT
1 TTTAAATT
6601684 TTTAA
1 TTTAA
6601689 TTGTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (8 bp):
TTTAAATT
Found at i:6603011 original size:15 final size:15
Alignment explanation
Indices: 6602991--6603022 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6602981 ATAACTTAAA
6602991 TTCAATATCTAATTT
1 TTCAATATCTAATTT
*
6603006 TTCAATATTTAATTT
1 TTCAATATCTAATTT
6603021 TT
1 TT
6603023 TTATTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTCAATATCTAATTT
Found at i:6603042 original size:13 final size:13
Alignment explanation
Indices: 6603011--6603036 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6603001 AATTTTTCAA
6603011 TATTTAATTTTTT
1 TATTTAATTTTTT
6603024 TATTTAATTTTTT
1 TATTTAATTTTTT
6603037 AGTTTATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTAATTTTTT
Found at i:6606307 original size:49 final size:49
Alignment explanation
Indices: 6606241--6606339 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
6606231 TAAAAAAAAA
6606241 TATATATATATATATATTTCTTTTTAAATGGAAAGGAAAAATTCTATTC
1 TATATATATATATATATTTCTTTTTAAATGGAAAGGAAAAATTCTATTC
6606290 TATATATATATATATATTTCTTTTTAAATGGAAAGGAAAAATTCTATTC
1 TATATATATATATATATTTCTTTTTAAATGGAAAGGAAAAATTCTATTC
6606339 T
1 T
6606340 CCCCTTTTCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.45
Consensus pattern (49 bp):
TATATATATATATATATTTCTTTTTAAATGGAAAGGAAAAATTCTATTC
Found at i:6606867 original size:25 final size:25
Alignment explanation
Indices: 6606839--6606888 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
6606829 TATCAGAACT
6606839 AAATATAATATTT-TTATTATAATAA
1 AAATATAAT-TTTATTATTATAATAA
*
6606864 AAATATAATTTTATTATTTTAATAA
1 AAATATAATTTTATTATTATAATAA
6606889 TTTATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
AAATATAATTTTATTATTATAATAA
Found at i:6606898 original size:15 final size:16
Alignment explanation
Indices: 6606868--6606906 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
6606858 TAATAAAAAT
6606868 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
6606885 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
6606900 ATAATTT
1 ATAATTT
6606907 TTAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:6607001 original size:83 final size:83
Alignment explanation
Indices: 6606863--6607025 Score: 181
Period size: 83 Copynumber: 2.0 Consensus size: 83
6606853 TATTATAATA
* * * * *
6606863 AAAATATAATTTTATTATTTTAATAATTTATATTTTTATAATTTTTAAAAATTAAAT-TA-AATT
1 AAAATATAATTTTATCATTTTAAT-ATTAAAATTTTTATAAATTATAAAAATTAAATATAGAA-T
* *
6606926 TTTTTATTTTTAGAGGGATC
64 TTTGTATTTTAAGAGGGATC
*
6606946 AAAATTTAATTTTATCATTATTAAT-TTAAAATTTTT-TAAATTATAAAATATTTAAATATAGAA
1 AAAATATAATTTTATCATT-TTAATATTAAAATTTTTATAAATTATAAAA-A-TTAAATATAGAA
6607009 TTTTGTATTTTAAGAGG
63 TTTTGTATTTTAAGAGG
6607026 ATTATGTCCC
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
81 10 0.15
82 10 0.15
83 23 0.34
84 22 0.33
85 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.52
Consensus pattern (83 bp):
AAAATATAATTTTATCATTTTAATATTAAAATTTTTATAAATTATAAAAATTAAATATAGAATTT
TGTATTTTAAGAGGGATC
Found at i:6610131 original size:25 final size:25
Alignment explanation
Indices: 6610097--6610146 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6610087 TACCCGATTC
*
6610097 GATCCGAAGGTCCATCTGAAAAATA
1 GATCCGAAGGTCCATCTAAAAAATA
*
6610122 GATCCGAAGGTCCGTCTAAAAAATA
1 GATCCGAAGGTCCATCTAAAAAATA
6610147 AATTTGAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (25 bp):
GATCCGAAGGTCCATCTAAAAAATA
Found at i:6610354 original size:51 final size:54
Alignment explanation
Indices: 6610273--6610392 Score: 140
Period size: 51 Copynumber: 2.3 Consensus size: 54
6610263 TATATTATTG
* * **
6610273 TTTT-TATTTTTTTTACTGTTTTAGTTGTTTTGTTTGTTGTTTTGGTG-T-TGT
1 TTTTCTATTTTTTTGACTGTTTTAGTTGTTTTGGTTACTGTTTTGGTGCTATGT
* * *
6610324 TTTTCTATTTTTTTGATTTTTTTA-TTGTTTTGGTTACTGTTTTGGTGCTATTT
1 TTTTCTATTTTTTTGACTGTTTTAGTTGTTTTGGTTACTGTTTTGGTGCTATGT
6610377 TTTTCTATTATTTTTG
1 TTTTCTATT-TTTTTG
6610393 TTGCTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
51 24 0.41
52 17 0.29
53 11 0.19
54 6 0.10
ACGTcount: A:0.08, C:0.04, G:0.16, T:0.72
Consensus pattern (54 bp):
TTTTCTATTTTTTTGACTGTTTTAGTTGTTTTGGTTACTGTTTTGGTGCTATGT
Found at i:6610405 original size:15 final size:15
Alignment explanation
Indices: 6610372--6610409 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
6610362 GTTTTGGTGC
6610372 TATTTTT-TT-CTAT
1 TATTTTTGTTGCTAT
6610385 TATTTTTGTTGCTAT
1 TATTTTTGTTGCTAT
*
6610400 TTTTTTTGTT
1 TATTTTTGTT
6610410 TTTGTTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.32
14 2 0.09
15 13 0.59
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (15 bp):
TATTTTTGTTGCTAT
Found at i:6610424 original size:57 final size:52
Alignment explanation
Indices: 6610268--6610436 Score: 137
Period size: 57 Copynumber: 3.2 Consensus size: 52
6610258 AAAATTATAT
* * * *
6610268 TATTGTTTT-TATTTTTTTTACTGTTTTAGTTG-TTTTGTTTGTTGTTTTGGTG
1 TATTTTTTTCTATTTTTTTGATTTTTTTA-TTGTTTTTG-TTGTTGTTTTGGTG
* * **
6610320 T-TGTTTTTCTATTTTTTTGATTTTTTTATTGTTTTGGTTACTGTTTTGGTG
1 TATTTTTTTCTATTTTTTTGATTTTTTTATTGTTTTTGTTGTTGTTTTGGTG
* * * *
6610371 CTATTTTTTTCTATTATTTTTGTTGCTATTTTTTTTGTTTTTGTTGTTATTTTGCTG
1 -TATTTTTTTCTATT-TTTTTGAT--T-TTTTTATTGTTTTTGTTGTTGTTTTGGTG
6610428 TTATTTTTT
1 -TATTTTTT
6610437 GCTGCTGTTT
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
51 20 0.22
52 22 0.24
53 11 0.12
54 7 0.08
56 1 0.01
57 31 0.34
ACGTcount: A:0.08, C:0.04, G:0.15, T:0.72
Consensus pattern (52 bp):
TATTTTTTTCTATTTTTTTGATTTTTTTATTGTTTTTGTTGTTGTTTTGGTG
Found at i:6616769 original size:29 final size:30
Alignment explanation
Indices: 6616684--6616772 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 30
6616674 GATTAAATCA
* *
6616684 AAATTAAAGTTTTAAGTATACATTTGAACC
1 AAATTAAAGTTTTAAGTATACAATTGCACC
* * * *
6616714 ACAATTAGAGTTTTACGTGTATAATTGCACC
1 A-AATTAAAGTTTTAAGTATACAATTGCACC
*
6616745 AAATTAAAG-TTCAAGTATACAATTGCAC
1 AAATTAAAGTTTTAAGTATACAATTGCAC
6616773 ATTAAATCAA
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 15 0.32
30 8 0.17
31 24 0.51
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (30 bp):
AAATTAAAGTTTTAAGTATACAATTGCACC
Found at i:6617735 original size:10 final size:10
Alignment explanation
Indices: 6617722--6617865 Score: 82
Period size: 10 Copynumber: 14.5 Consensus size: 10
6617712 TTTTTAATGC
6617722 TTTTTATAA-
1 TTTTTATAAT
*
6617731 TTTTTATAAAA
1 TTTTTAT-AAT
* * *
6617742 GTTTAAAAAT
1 TTTTTATAAT
*
6617752 TTTTTGTAAT
1 TTTTTATAAT
*
6617762 TTTTT-TACT
1 TTTTTATAAT
6617771 ATTTTTATAAT
1 -TTTTTATAAT
*
6617782 TTTTTTTAAT
1 TTTTTATAAT
*
6617792 TTTTAATAA-
1 TTTTTATAAT
* *
6617801 ATTTTCTAAT
1 TTTTTATAAT
*
6617811 TTTTAATAA-
1 TTTTTATAAT
* *
6617820 ATTTTCTAA-
1 TTTTTATAAT
*
6617829 TTTTTATTAAA
1 TTTTTA-TAAT
*
6617840 ATTTTATAATT
1 TTTTTATAA-T
6617851 TTTTTATAAT
1 TTTTTATAAT
6617861 TTTTT
1 TTTTT
6617866 GTCACATGTC
Statistics
Matches: 100, Mismatches: 27, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
9 26 0.26
10 54 0.54
11 20 0.20
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:6617805 original size:30 final size:28
Alignment explanation
Indices: 6617722--6617863 Score: 95
Period size: 30 Copynumber: 4.8 Consensus size: 28
6617712 TTTTTAATGC
* *
6617722 TTTTTATAATTTTTATAAAAGTTTAAAAAT
1 TTTTTATAATTTTTAT-AAA-TTTTATAAT
* * *
6617752 TTTTTGTAATTTTTTTACTATTTTTATAAT
1 TTTTTATAATTTTTATA--AATTTTATAAT
* *
6617782 TTTTTTTAATTTTTAATAAATTTTCTAAT
1 TTTTTATAATTTTT-ATAAATTTTATAAT
* * * * *
6617811 TTTTAATAAATTTTCTAATTTTTATTAAA
1 TTTTTATAATTTTTATAAATTTTA-TAAT
* *
6617840 ATTTTATAATTTTTTTATAATTTT
1 TTTTTATAATTTTTATA-AATTTT
6617864 TTGTCACATG
Statistics
Matches: 86, Mismatches: 21, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
28 7 0.08
29 37 0.43
30 39 0.45
31 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTTATAATTTTTATAAATTTTATAAT
Found at i:6617855 original size:11 final size:11
Alignment explanation
Indices: 6617841--6617865 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6617831 TTTATTAAAA
6617841 TTTTATAATTT
1 TTTTATAATTT
6617852 TTTTATAATTT
1 TTTTATAATTT
6617863 TTT
1 TTT
6617866 GTCACATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:6617862 original size:39 final size:37
Alignment explanation
Indices: 6617772--6617863 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 37
6617762 TTTTTTACTA
* *
6617772 TTTTTATAATTTTTTTTAATTTTTAATAAATTTTCTAAT
1 TTTTTATAA--TTTTCTAATTTTTAATAAATTTTATAAT
* *
6617811 TTTTAATAAATTTTCTAATTTTTATTAAAATTTTATAATT
1 TTTTTAT-AATTTTCTAATTTTTAAT-AAATTTTATAA-T
6617851 TTTTTATAATTTT
1 TTTTTATAATTTT
6617864 TTGTCACATG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
38 14 0.31
39 22 0.49
40 9 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (37 bp):
TTTTTATAATTTTCTAATTTTTAATAAATTTTATAAT
Found at i:6617864 original size:20 final size:20
Alignment explanation
Indices: 6617723--6617863 Score: 94
Period size: 19 Copynumber: 7.2 Consensus size: 20
6617713 TTTTAATGCT
*
6617723 TTTTATAATTTTTATA-AAA
1 TTTTATAATTTTTTTATAAA
* * * * *
6617742 GTTTAAAAATTTTTTGTAAT
1 TTTTATAATTTTTTTATAAA
* * * *
6617762 TTTTTTACTATTTTTATAATT
1 TTTTATAATTTTTTTATAA-A
* *
6617783 TTTTTTAA-TTTTTAATAAA
1 TTTTATAATTTTTTTATAAA
* *
6617802 TTTTCTAA-TTTTTAATAAA
1 TTTTATAATTTTTTTATAAA
*
6617821 TTTTCTAATTTTTATTA-AAA
1 TTTTATAATTTTT-TTATAAA
6617841 TTTTATAATTTTTTTAT-AA
1 TTTTATAATTTTTTTATAAA
6617860 TTTT
1 TTTT
6617864 TTGTCACATG
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
19 46 0.47
20 41 0.42
21 10 0.10
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTTTATAAA
Found at i:6618482 original size:4 final size:4
Alignment explanation
Indices: 6618473--6618497 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6618463 AATTTAATAC
6618473 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
6618498 GTTAACTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:6628778 original size:15 final size:15
Alignment explanation
Indices: 6628758--6628787 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6628748 AAAATACTCT
6628758 CTCGTACAAGATACA
1 CTCGTACAAGATACA
6628773 CTCGTACAAGATACA
1 CTCGTACAAGATACA
6628788 ACACACCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (15 bp):
CTCGTACAAGATACA
Found at i:6632740 original size:2 final size:2
Alignment explanation
Indices: 6632733--6632758 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6632723 GCATTCCTTT
6632733 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6632759 AGAATAACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6634995 original size:97 final size:97
Alignment explanation
Indices: 6634725--6635013 Score: 401
Period size: 97 Copynumber: 3.0 Consensus size: 97
6634715 AACCTTGGAA
* * * * *
6634725 AAGGGTATTCAATTATCTCGATTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATTTCTA
1 AAGGGTATTCGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTC-A
6634790 AAACT-AGAGAT-AA-AAACATTGCCTCGATTT
65 AAACTCAGAGATAAAGAAACATTGCCTCGATTT
* * *
6634820 AAGGGTATTCGATTATCCCGGTTTGAAAAAAAATCACGCTTAGTAAGTTAAGGCACAAATTTTAA
1 AAGGGTATTCGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAA-TTTCA
*
6634885 AAAC-CAGAGATAAAGAAACATTGCATCGATTT
65 AAACTCAGAGATAAAGAAACATTGCCTCGATTT
6634917 AAGGGTATTCGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAAGTTTCA
1 AAGGGTATTCGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAA-TTTCA
* *
6634982 AAACTCA-AAATAAATG-AATATTGCCTCGATTT
65 AAACTCAGAGATAAA-GAAACATTGCCTCGATTT
6635014 TAAATATTTT
Statistics
Matches: 172, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
95 63 0.37
96 5 0.03
97 101 0.59
98 3 0.02
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGGTTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTCAA
AACTCAGAGATAAAGAAACATTGCCTCGATTT
Found at i:6635389 original size:29 final size:28
Alignment explanation
Indices: 6635356--6635752 Score: 249
Period size: 29 Copynumber: 13.6 Consensus size: 28
6635346 GAAGTCGAAC
*
6635356 TTTTGGAAAATTGAGGGTAAAATGGTAAT
1 TTTTGGAAAGTTGAGGGTAAAAT-GTAAT
* * * *
6635385 TTTTGGATACTCGAGGGTAAAATGGTGA-
1 TTTTGGAAAGTTGAGGGTAAAAT-GTAAT
* *
6635413 TTTTGGAAAAGTTCG-GGATCAAAATGGTAAG
1 TTTTGG-AAAGTT-GAGGGT-AAAAT-GTAAT
* ** *
6635444 TTTTGG-ATGTTCGAGAGCAAAAATGTGAT
1 TTTTGGAAAGTT-GAG-GGTAAAATGTAAT
* *
6635473 TTTTGG-AAGTACGAGGGTAAAAATGTGAT
1 TTTTGGAAAGT-TGAGGGT-AAAATGTAAT
*
6635502 TTTTGG-AAGTTCGGGGGGTAAAAATGT-AT
1 TTTTGGAAAGTT--GAGGGT-AAAATGTAAT
* *
6635531 CTTATGG-AAGTTTG-GGGGAAAATGTAAT
1 -TTTTGGAAAG-TTGAGGGTAAAATGTAAT
6635559 TTTT-GAGAAGTTTGAGGGTTAAAATGTAAT
1 TTTTGGA-AAG-TTGAGGG-TAAAATGTAAT
6635589 TTTTGGAAAGTTTG-GGGTTAAAATGTAAT
1 TTTTGGAAAG-TTGAGGG-TAAAATGTAAT
*
6635618 TTTTGGAAAGTTTG-GGGTTAAAATATAAT
1 TTTTGGAAAG-TTGAGGG-TAAAATGTAAT
*
6635647 TTTTGGAAAGTTTAGGGGTACAAATGTAAT
1 TTTTGGAAAGTTGA-GGGTA-AAATGTAAT
* *
6635677 TTTTGGAAAGTTTAGGGGTCTAAATGTAAT
1 TTTTGGAAAGTTGA-GGGT-AAAATGTAAT
* ** *
6635707 TTTTGGAAAGTTTAGGGTCAAAACATGAT
1 TTTTGGAAAGTTGAGGGT-AAAATGTAAT
*
6635736 TTTTGGAAAGTTTAGGG
1 TTTTGGAAAGTTGAGGG
6635753 ACCTTTTGGG
Statistics
Matches: 314, Mismatches: 32, Indels: 44
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.00
27 10 0.03
28 21 0.07
29 160 0.51
30 111 0.35
31 11 0.04
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.36
Consensus pattern (28 bp):
TTTTGGAAAGTTGAGGGTAAAATGTAAT
Found at i:6635496 original size:59 final size:58
Alignment explanation
Indices: 6635368--6635514 Score: 140
Period size: 59 Copynumber: 2.5 Consensus size: 58
6635358 TTGGAAAATT
** ** *
6635368 GAGGGTAAAATGGTAATTTTTGGATACTCGAGGGTAAAATGGTGATTTTGGAAAAGTTC
1 GAGGGTAAAATGGTAATTTTTGGATGTTCGAGGCAAAAATGGTGATTTTGG-AAAGTAC
* *
6635427 G-GGATCAAAATGGTAAGTTTTGGATGTTCGAGAGCAAAAAT-GTGATTTTTGG-AAGTAC
1 GAGGGT-AAAATGGTAATTTTTGGATGTTCGAG-GCAAAAATGGTGA-TTTTGGAAAGTAC
* *
6635485 GAGGGTAAAAAT-GTGATTTTTGGAAGTTCG
1 GAGGGT-AAAATGGTAATTTTTGGATGTTCG
6635515 GGGGGTAAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
58 24 0.33
59 36 0.50
60 12 0.17
ACGTcount: A:0.32, C:0.05, G:0.31, T:0.32
Consensus pattern (58 bp):
GAGGGTAAAATGGTAATTTTTGGATGTTCGAGGCAAAAATGGTGATTTTGGAAAGTAC
Found at i:6635523 original size:30 final size:28
Alignment explanation
Indices: 6635462--6635714 Score: 215
Period size: 30 Copynumber: 8.7 Consensus size: 28
6635452 GTTCGAGAGC
* * *
6635462 AAAAATGTGATTTTTGGAAGTACGAGGGT
1 AAAAATGTAATTTTTGGAAGT-TGGGGGT
*
6635491 AAAAATGTGATTTTTGGAAGTTCGGGGGGT
1 AAAAATGTAATTTTTGGAAGTT--GGGGGT
*
6635521 AAAAATGT-ATCTTATGGAAGTTTGGGGG-
1 AAAAATGTAAT-TTTTGGAAG-TTGGGGGT
*
6635549 -AAAATGTAATTTTTGAGAAGTTTGAGGGT
1 AAAAATGTAATTTTTG-GAAG-TTGGGGGT
* *
6635578 TAAAATGTAATTTTTGGAAAGTTTGGGGT
1 AAAAATGTAATTTTTGG-AAGTTGGGGGT
* *
6635607 TAAAATGTAATTTTTGGAAAGTTTGGGGT
1 AAAAATGTAATTTTTGG-AAGTTGGGGGT
* * *
6635636 TAAAATATAATTTTTGGAAAGTTTAGGGGT
1 AAAAATGTAATTTTTGG-AAG-TTGGGGGT
* *
6635666 ACAAATGTAATTTTTGGAAAGTTTAGGGGT
1 AAAAATGTAATTTTTGG-AAG-TTGGGGGT
**
6635696 CTAAATGTAATTTTTGGAA
1 AAAAATGTAATTTTTGGAA
6635715 AGTTTAGGGT
Statistics
Matches: 200, Mismatches: 14, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
27 11 0.05
28 13 0.06
29 86 0.43
30 88 0.44
31 2 0.01
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.37
Consensus pattern (28 bp):
AAAAATGTAATTTTTGGAAGTTGGGGGT
Found at i:6635715 original size:30 final size:30
Alignment explanation
Indices: 6635463--6635752 Score: 286
Period size: 29 Copynumber: 9.9 Consensus size: 30
6635453 TTCGAGAGCA
* *
6635463 AAAATGTGATTTTTGG-AAG--TACGAGGGTA
1 AAAATGTAATTTTTGGAAAGTTTA-G-GGGTT
* ** *
6635492 AAAATGTGATTTTTGG-AAGTTCGGGGGGTA
1 AAAATGTAATTTTTGGAAAGTT-TAGGGGTT
* *
6635522 AAAATGT-ATCTTATGG-AAGTTT-GGGG-G
1 AAAATGTAAT-TTTTGGAAAGTTTAGGGGTT
6635549 AAAATGTAATTTTT-GAGAAGTTT-GAGGGTT
1 AAAATGTAATTTTTGGA-AAGTTTAG-GGGTT
6635579 AAAATGTAATTTTTGGAAAGTTT-GGGGTT
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTT
6635608 AAAATGTAATTTTTGGAAAGTTT-GGGGTT
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTT
*
6635637 AAAATATAATTTTTGGAAAGTTTAGGGG-T
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTT
6635666 ACAAATGTAATTTTTGGAAAGTTTAGGGGTCT
1 A-AAATGTAATTTTTGGAAAGTTTAGGGGT-T
*
6635698 -AAATGTAATTTTTGGAAAGTTTA-GGGTC
1 AAAATGTAATTTTTGGAAAGTTTAGGGGTT
** *
6635726 AAAACATGATTTTTGGAAAGTTTAGGG
1 AAAATGTAATTTTTGGAAAGTTTAGGG
6635753 ACCTTTTGGG
Statistics
Matches: 232, Mismatches: 13, Indels: 31
0.84 0.05 0.11
Matches are distributed among these distances:
26 1 0.00
27 10 0.04
28 13 0.06
29 106 0.46
30 98 0.42
31 3 0.01
32 1 0.00
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.37
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAAGTTTAGGGGTT
Found at i:6635744 original size:59 final size:57
Alignment explanation
Indices: 6635463--6635752 Score: 247
Period size: 59 Copynumber: 4.9 Consensus size: 57
6635453 TTCGAGAGCA
* ** ** *
6635463 AAAATGTGATTTTTGG-AAGTACGAGGGTAAAAATGTGATTTTTGG-AAGTTCGGGGGGTA
1 AAAATGTAATTTTTGGAAAGT-TTAGGGTAAAAA--TGATTTTTGGAAAGTT-TAGGGGTT
* **
6635522 AAAATGT-ATCTTATGG-AAGTTT-GGGGGAAAATGTAATTTTT-GAGAAGTTT-GAGGGTT
1 AAAATGTAAT-TTTTGGAAAGTTTAGGGTAAAAATG--ATTTTTGGA-AAGTTTAG-GGGTT
* *
6635579 AAAATGTAATTTTTGGAAAGTTTGGGGTTAAAATGTAATTTTTGGAAAGTTT-GGGGTT
1 AAAATGTAATTTTTGGAAAGTTTAGGGTAAAAATG--ATTTTTGGAAAGTTTAGGGGTT
* *
6635637 AAAATATAATTTTTGGAAAGTTTAGGGGTACAAATGTAATTTTTGGAAAGTTTAGGGGTCT
1 AAAATGTAATTTTTGGAAAGTTTA-GGGTAAAAATG--ATTTTTGGAAAGTTTAGGGGT-T
6635698 -AAATGTAATTTTTGGAAAGTTTAGGGTCAAAACATGATTTTTGGAAAGTTTAGGG
1 AAAATGTAATTTTTGGAAAGTTTAGGGT-AAAA-ATGATTTTTGGAAAGTTTAGGG
6635753 ACCTTTTGGG
Statistics
Matches: 200, Mismatches: 16, Indels: 30
0.81 0.07 0.12
Matches are distributed among these distances:
55 2 0.01
56 2 0.01
57 29 0.14
58 42 0.21
59 89 0.44
60 32 0.16
61 4 0.02
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.37
Consensus pattern (57 bp):
AAAATGTAATTTTTGGAAAGTTTAGGGTAAAAATGATTTTTGGAAAGTTTAGGGGTT
Found at i:6637465 original size:17 final size:17
Alignment explanation
Indices: 6637458--6637548 Score: 110
Period size: 17 Copynumber: 5.4 Consensus size: 17
6637448 AATTTTTAAT
6637458 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
6637475 TAAATTCAAATTTAAAA
1 TAAATTTAAATTTAAAA
* * *
6637492 TGAACTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
* *
6637509 TAAATTTAAATTTATAC
1 TAAATTTAAATTTAAAA
* *
6637526 TAAATTCAAACTTAAAA
1 TAAATTTAAATTTAAAA
6637543 TAAATT
1 TAAATT
6637549 AAAAATGGGT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 60 1.00
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:6638426 original size:20 final size:20
Alignment explanation
Indices: 6638401--6638440 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6638391 AGGGTTTTTC
6638401 AAAAAAGTCAACAGTCAACG
1 AAAAAAGTCAACAGTCAACG
* *
6638421 AAAAAATTCAACGGTCAACG
1 AAAAAAGTCAACAGTCAACG
6638441 GTCAATAGGT
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:0.53, C:0.20, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAAAAGTCAACAGTCAACG
Found at i:6638482 original size:15 final size:14
Alignment explanation
Indices: 6638462--6638505 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
6638452 GGTCAAAGTT
6638462 TATATGGCATGACAA
1 TATAT-GCATGACAA
*
6638477 TATATGAATGATCAA
1 TATATGCATGA-CAA
6638492 TATATGCATGACAA
1 TATATGCATGACAA
6638506 GTACACGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (14 bp):
TATATGCATGACAA
Found at i:6640721 original size:7 final size:7
Alignment explanation
Indices: 6640709--6640733 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6640699 TTATTTAACA
6640709 AATTTAT
1 AATTTAT
6640716 AATTTAT
1 AATTTAT
6640723 AATTTAT
1 AATTTAT
6640730 AATT
1 AATT
6640734 ATTTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTAT
Found at i:6640963 original size:17 final size:17
Alignment explanation
Indices: 6640930--6640961 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6640920 TTATCACGTC
6640930 TTTTTTTAAAATATTTA
1 TTTTTTTAAAATATTTA
6640947 TTTTTTT-AAATATTT
1 TTTTTTTAAAATATTT
6640962 TACTATACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTTAAAATATTTA
Found at i:6641942 original size:18 final size:17
Alignment explanation
Indices: 6641901--6641938 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6641891 TATTTTAAAC
6641901 AAAAA-AATAATTTTTT
1 AAAAATAATAATTTTTT
* *
6641917 GAAAATAATTATTTTTT
1 AAAAATAATAATTTTTT
6641934 AAAAA
1 AAAAA
6641939 ATAAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAAATAATAATTTTTT
Found at i:6641963 original size:24 final size:24
Alignment explanation
Indices: 6641936--6641985 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
6641926 TATTTTTTAA
*
6641936 AAAATA-AAAAAAATCTTTAAAAAT
1 AAAATATAAAAAAAT-TTAAAAAAT
6641960 AAAATATTAAAAAAATTTAAAAAAT
1 AAAATA-TAAAAAAATTTAAAAAAT
6641985 A
1 A
6641986 TTTTGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 9 0.39
26 8 0.35
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAATATAAAAAAATTTAAAAAAT
Found at i:6641963 original size:25 final size:25
Alignment explanation
Indices: 6641933--6641985 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
6641923 AATTATTTTT
* *
6641933 TAAAAAATAAAAAAAATCTTTAAAAA
1 TAAAATATAAAAAAAAT-TTAAAAAA
*
6641959 TAAAATATTAAAAAAATTTAAAAAA
1 TAAAATATAAAAAAAATTTAAAAAA
6641984 TA
1 TA
6641986 TTTTGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (25 bp):
TAAAATATAAAAAAAATTTAAAAAA
Found at i:6641985 original size:20 final size:20
Alignment explanation
Indices: 6641960--6642010 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
6641950 CTTTAAAAAT
*
6641960 AAAATATTAAAAAAATTTAA
1 AAAATATTAAAAAAATATAA
***
6641980 AAAATATTTTGAAAATATAA
1 AAAATATTAAAAAAATATAA
6642000 AAAATA-TAAAA
1 AAAATATTAAAA
6642011 TTCAATATTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATATTAAAAAAATATAA
Found at i:6649940 original size:26 final size:26
Alignment explanation
Indices: 6649891--6649940 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6649881 ACTACCAAAT
* **
6649891 GACTTATATAAAAACTTTTGAATAGG
1 GACTTAAATAAAAACTTTCAAATAGG
6649917 GACTTAAATAAAAACTTTCAAATA
1 GACTTAAATAAAAACTTTCAAATA
6649941 TTTAAGTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (26 bp):
GACTTAAATAAAAACTTTCAAATAGG
Found at i:6649996 original size:28 final size:28
Alignment explanation
Indices: 6649942--6649996 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
6649932 TTTCAAATAT
*** *
6649942 TTAAGTGATCAAATTGTAAATTTTTTAG
1 TTAAGTGATCAAAACATAAATTATTTAG
*
6649970 TTAAGTGATCAAAACATAACTTATTTA
1 TTAAGTGATCAAAACATAAATTATTTA
6649997 TAATTTAATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (28 bp):
TTAAGTGATCAAAACATAAATTATTTAG
Found at i:6650034 original size:24 final size:24
Alignment explanation
Indices: 6649999--6650050 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
6649989 CTTATTTATA
*
6649999 ATTTAATGATTATGTCTTTTATTT
1 ATTTAATGATTATGTATTTTATTT
*
6650023 ATTT-ATGTATTATTTATTTTATTT
1 ATTTAATG-ATTATGTATTTTATTT
6650047 ATTT
1 ATTT
6650051 TTACATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (24 bp):
ATTTAATGATTATGTATTTTATTT
Found at i:6655436 original size:11 final size:12
Alignment explanation
Indices: 6655422--6655470 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
6655412 GGTATCTCCA
6655422 TTTCTTC-TCTT
1 TTTCTTCTTCTT
6655433 TTTCTTCTTCTT
1 TTTCTTCTTCTT
*
6655445 TTTCTCCTTCTCT
1 TTTCTTCTTCT-T
*
6655458 TCTACTTCTTCTT
1 T-TTCTTCTTCTT
6655471 CCAGAAGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 7 0.22
12 14 0.44
13 3 0.09
14 8 0.25
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTCTTCTTCTT
Found at i:6655469 original size:20 final size:20
Alignment explanation
Indices: 6655423--6655469 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6655413 GTATCTCCAT
* * *
6655423 TTCTTCTCTTTTTCTTCTTC
1 TTCTTCTCCTTCTCTTCTAC
*
6655443 TTTTTCTCCTTCTCTTCTAC
1 TTCTTCTCCTTCTCTTCTAC
6655463 TTCTTCT
1 TTCTTCT
6655470 TCCAGAAGCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (20 bp):
TTCTTCTCCTTCTCTTCTAC
Found at i:6656645 original size:88 final size:88
Alignment explanation
Indices: 6656465--6656646 Score: 269
Period size: 87 Copynumber: 2.1 Consensus size: 88
6656455 CCTGCATCAT
* * * *
6656465 CTCATTCTCTTTTGTCGATCGAATAACAGAAAATGATGCACTGCTGCAAATCTTTTTCTGCATTT
1 CTCATTCTCTTTTGTCGATCGAATAACAGAAAAAGATGCACCGCTGCAAATCTTTTTCTACATTG
* *
6656530 TAACCTCCCACTTAATAAGAGTT
66 AAACCTCCCACTTAATAAGAGTA
*
6656553 CTCATTCTC-TTTGTTGATCGAATAACAGAAAAAGATGCACCGCTGCAAATCTTTTTCTACATAT
1 CTCATTCTCTTTTGTCGATCGAATAACAGAAAAAGATGCACCGCTGCAAATCTTTTTCTACAT-T
6656617 GAAACCTCCCACTTAATAAGA-TAA
65 GAAACCTCCCACTTAATAAGAGT-A
6656641 CTCATT
1 CTCATT
6656647 ACCTCGAAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
87 50 0.59
88 35 0.41
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (88 bp):
CTCATTCTCTTTTGTCGATCGAATAACAGAAAAAGATGCACCGCTGCAAATCTTTTTCTACATTG
AAACCTCCCACTTAATAAGAGTA
Found at i:6660538 original size:23 final size:23
Alignment explanation
Indices: 6660512--6660557 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6660502 GACAAAAAAA
* *
6660512 CATAAAACTTATACTTAAAAGCC
1 CATAAAACATACACTTAAAAGCC
6660535 CATAAAACATACACTTAAAAGCC
1 CATAAAACATACACTTAAAAGCC
6660558 TTTATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.24, G:0.04, T:0.22
Consensus pattern (23 bp):
CATAAAACATACACTTAAAAGCC
Found at i:6679828 original size:26 final size:26
Alignment explanation
Indices: 6679798--6679850 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
6679788 GGGAAATACA
6679798 AATTGAGATTGAATCCAATAAAATGT
1 AATTGAGATTGAATCCAATAAAATGT
6679824 AATTGAGATTGAATCCAATAAAATGT
1 AATTGAGATTGAATCCAATAAAATGT
6679850 A
1 A
6679851 CTTTCAGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.30
Consensus pattern (26 bp):
AATTGAGATTGAATCCAATAAAATGT
Found at i:6681529 original size:25 final size:23
Alignment explanation
Indices: 6681417--6681541 Score: 137
Period size: 23 Copynumber: 5.3 Consensus size: 23
6681407 TGTTGGGCAA
6681417 CAGAGAGCACACACAGTGCTAAAT
1 CAGAGAGCACACACAGTGCT-AAT
* * * *
6681441 -AGAGAGTACACAAAGTACAAAT
1 CAGAGAGCACACACAGTGCTAAT
*
6681463 CAGAGAGCACACAAAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAT
6681486 CAGAGAGCACACACAGTGCTAAT
1 CAGAGAGCACACACAGTGCTAAT
* *
6681509 AACAGAGAGCACGAGAC-GTGCTAAG
1 --CAGAGAGCAC-ACACAGTGCTAAT
6681534 CAGAGAGC
1 CAGAGAGC
6681542 GCGCTAGTGT
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
22 3 0.03
23 64 0.74
25 17 0.20
26 3 0.03
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (23 bp):
CAGAGAGCACACACAGTGCTAAT
Found at i:6685315 original size:10 final size:9
Alignment explanation
Indices: 6685291--6685347 Score: 64
Period size: 10 Copynumber: 6.2 Consensus size: 9
6685281 TTAAATCAAG
*
6685291 AAAAAAATA
1 AAAAAAAGA
6685300 CAAAAAAAGA
1 -AAAAAAAGA
6685310 AGAAAAAAG-
1 A-AAAAAAGA
6685319 -AAAAAAGA
1 AAAAAAAGA
6685327 AAAAAAAGA
1 AAAAAAAGA
6685336 AAAAAATAGA
1 AAAAAA-AGA
6685346 AA
1 AA
6685348 GAGAGGGCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
7 7 0.17
9 15 0.36
10 20 0.48
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.04
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:6685324 original size:17 final size:16
Alignment explanation
Indices: 6685288--6685340 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 16
6685278 TGTTTAAATC
*
6685288 AAGAAAAAAATACAAAAA
1 AAGAAAAAAA-A-GAAAA
6685306 AAGAAGAAAAAAGAAAA
1 AAGAA-AAAAAAGAAAA
6685323 AAGAAAAAAAAGAAAA
1 AAGAAAAAAAAGAAAA
6685339 AA
1 AA
6685341 ATAGAAAGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 13 0.39
17 9 0.27
18 6 0.18
19 5 0.15
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (16 bp):
AAGAAAAAAAAGAAAA
Found at i:6685330 original size:26 final size:27
Alignment explanation
Indices: 6685292--6685347 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
6685282 TAAATCAAGA
*
6685292 AAAAAATACAAAAAAAGAAGAAAAA-AG
1 AAAAAAGACAAAAAAAGAA-AAAAATAG
6685319 AAAAAAGA-AAAAAAAGAAAAAAATAG
1 AAAAAAGACAAAAAAAGAAAAAAATAG
6685345 AAA
1 AAA
6685348 GAGAGGGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.19
26 15 0.56
27 7 0.26
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.04
Consensus pattern (27 bp):
AAAAAAGACAAAAAAAGAAAAAAATAG
Done.