Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 65
Found at i:7573461 original size:2 final size:2
Alignment explanation
Indices: 7573454--7573485 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7573444 CAAGAGTATG
7573454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7573486 GAAGTCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7574273 original size:37 final size:37
Alignment explanation
Indices: 7574232--7574308 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
7574222 GATTAGTCGA
7574232 GTAAACTATTGTTGAAATAATTCCGACTGCAAAGAAT
1 GTAAACTATTGTTGAAATAATTCCGACTGCAAAGAAT
7574269 GTAAACTATTGTTGAAATAATTCCGACTGCAAAGAAT
1 GTAAACTATTGTTGAAATAATTCCGACTGCAAAGAAT
7574306 GTA
1 GTA
7574309 TATGAATGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (37 bp):
GTAAACTATTGTTGAAATAATTCCGACTGCAAAGAAT
Found at i:7577431 original size:103 final size:102
Alignment explanation
Indices: 7577252--7577458 Score: 342
Period size: 103 Copynumber: 2.0 Consensus size: 102
7577242 TACGCTGTCT
* ** * *
7577252 TTCGGGACATATATGTATTCTTTGGAACAGGTGTGAGGTCTTTTGAGACACATACTTGATCCTTG
1 TTCGGGACATATATGTATTCTTTGGAACAGGTGTGAAGTCTGGTGAGACACATACTTGATCCCTA
7577317 GCATATGTATATGATTCTTAAGGAATGATATGTGGTCC
66 GCATATGTATATGA-TCTTAAGGAATGATATGTGGTCC
*
7577355 TTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTA
1 TTCGGGACATATATGTATTCTTTGGAACAGGTGTGAAGTCTGGTGAGACACATACTTGATCCCTA
*
7577420 GTATATGTATATGATCTTAAGGAATGATATGTGGTCC
66 GCATATGTATATGATCTTAAGGAATGATATGTGGTCC
7577457 TT
1 TT
7577459 ATGGGCATTA
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 25 0.26
103 72 0.74
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (102 bp):
TTCGGGACATATATGTATTCTTTGGAACAGGTGTGAAGTCTGGTGAGACACATACTTGATCCCTA
GCATATGTATATGATCTTAAGGAATGATATGTGGTCC
Found at i:7577931 original size:194 final size:194
Alignment explanation
Indices: 7577602--7578182 Score: 1099
Period size: 194 Copynumber: 3.0 Consensus size: 194
7577592 TGAAGATGAT
7577602 ATTATAGTTGCCTGGGTGTACGTGTTTTATGATAGTATATATGGTATATGTTATATGATATACAT
1 ATTATAGTTGCCTGGGTGTACGTGTTTTATGATAGTATATATGGTATATGTTATATGATATACAT
*
7577667 GAGTACATGTTAAGGTATATGTGAATAAGTATAATTGATTGAAATGATGATATAATAATAAGTCT
66 GAGTACAGGTTAAGGTATATGTGAATAAGTATAATTGATTGAAATGATGATATAATAATAAGTCT
7577732 ATAAGATATATGATATGGACATAAGAGATCATAGGAACATGAGATAAGAGATATGAATGATAAC
131 ATAAGATATATGATATGGACATAAGAGATCATAGGAACATGAGATAAGAGATATGAATGATAAC
* *
7577796 ATTATAGTTGCCTGGGTGTACGTGTTTTAGGATAGTATATATGGTATATGTTATGTGATATACAT
1 ATTATAGTTGCCTGGGTGTACGTGTTTTATGATAGTATATATGGTATATGTTATATGATATACAT
* *
7577861 GAGTATAGGTTAAGGTATATGTGAATTAGTATAATTGATTGAAATGATGATATAATAATAAGTCT
66 GAGTACAGGTTAAGGTATATGTGAATAAGTATAATTGATTGAAATGATGATATAATAATAAGTCT
7577926 ATAAGATATATGATATGGACATAAGAGATCATAGGAACATGAGATAAGAGATATGAATGATAAC
131 ATAAGATATATGATATGGACATAAGAGATCATAGGAACATGAGATAAGAGATATGAATGATAAC
*
7577990 ATTATAGTTGCCTGGGTGTACGTTTTTTATGATAGTATATATGGTATATGTTATATGATATACAT
1 ATTATAGTTGCCTGGGTGTACGTGTTTTATGATAGTATATATGGTATATGTTATATGATATACAT
*
7578055 GAGTACAGGTTAAGGTATATGTGAATGAGTATAATTGATTGAAATGATGATATAATAATAAGTCT
66 GAGTACAGGTTAAGGTATATGTGAATAAGTATAATTGATTGAAATGATGATATAATAATAAGTCT
7578120 ATAAGATATATGATATGGACATAAGAGATCATAGGAACATGAGATAAGAGATATGAATGATAA
131 ATAAGATATATGATATGGACATAAGAGATCATAGGAACATGAGATAAGAGATATGAATGATAA
7578183 TGACATATAT
Statistics
Matches: 377, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
194 377 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.35
Consensus pattern (194 bp):
ATTATAGTTGCCTGGGTGTACGTGTTTTATGATAGTATATATGGTATATGTTATATGATATACAT
GAGTACAGGTTAAGGTATATGTGAATAAGTATAATTGATTGAAATGATGATATAATAATAAGTCT
ATAAGATATATGATATGGACATAAGAGATCATAGGAACATGAGATAAGAGATATGAATGATAAC
Found at i:7587188 original size:21 final size:21
Alignment explanation
Indices: 7587164--7587240 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
7587154 GTCTTTCGGG
* *
7587164 ACATATATGTGATCCTTTGGA
1 ACATATATCTGGTCCTTTGGA
* *
7587185 ACATATATCCGGTCCTTTGGG
1 ACATATATCTGGTCCTTTGGA
* *
7587206 ACA-AGTATTTGGTCCTCTGGA
1 ACATA-TATCTGGTCCTTTGGA
*
7587227 ACATATATATGGTC
1 ACATATATCTGGTC
7587241 TTTCAGAACA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (21 bp):
ACATATATCTGGTCCTTTGGA
Found at i:7587288 original size:21 final size:21
Alignment explanation
Indices: 7587158--7587310 Score: 55
Period size: 21 Copynumber: 7.1 Consensus size: 21
7587148 TATTTAGTCT
* *
7587158 TTCGGGACATATATGTGATCC
1 TTCGGGAAATATATGTGGTCC
* **
7587179 TT-TGGAACATATATCCGGTCC
1 TTCGGGAA-ATATATGTGGTCC
*
7587200 TTTGGGACAAGTAT-T-TGGTCC
1 TTCGGGA-AA-TATATGTGGTCC
* * *
7587221 -TCTGGAACATATATATGGTCT
1 TTCGGGAA-ATATATGTGGTCC
* * * * *
7587242 TTCAGAACAATTCTATATGATCC
1 TTCGGGA-AA-TATATGTGGTCC
7587265 TTCGGGAAATATATGTGGTCC
1 TTCGGGAAATATATGTGGTCC
*
7587286 TTCAGGACAA-ACCTATGTGGTCC
1 TTCGGGA-AATA--TATGTGGTCC
7587309 TT
1 TT
7587311 TAGGACAATT
Statistics
Matches: 98, Mismatches: 21, Indels: 24
0.69 0.15 0.17
Matches are distributed among these distances:
19 4 0.04
20 9 0.09
21 40 0.41
22 14 0.14
23 31 0.32
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (21 bp):
TTCGGGAAATATATGTGGTCC
Found at i:7587310 original size:44 final size:45
Alignment explanation
Indices: 7587215--7587310 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 45
7587205 GACAAGTATT
* * **
7587215 TGGTCC-TCTGGAACATATATATGGTCTTTCAGAACAATTCTATA
1 TGGTCCTTCGGGAACATATATATGGTCCTTCAGAACAAACCTATA
* * * *
7587259 TGATCCTTCGGGAA-ATATATGTGGTCCTTCAGGACAAACCTATG
1 TGGTCCTTCGGGAACATATATATGGTCCTTCAGAACAAACCTATA
7587303 TGGTCCTT
1 TGGTCCTT
7587311 TAGGACAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
44 36 0.86
45 6 0.14
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (45 bp):
TGGTCCTTCGGGAACATATATATGGTCCTTCAGAACAAACCTATA
Found at i:7588010 original size:2 final size:2
Alignment explanation
Indices: 7588003--7588067 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
7587993 GACACATCGG
7588003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7588045 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
7588068 GGTGTTTCAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7593449 original size:20 final size:21
Alignment explanation
Indices: 7593397--7593456 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
7593387 TTCCCCTGTG
7593397 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCCTT-AAA
*
7593420 GGGGGAATCGGTTCCCTT-AT
1 GGGGGAATCGGTTCCCTTAAA
* *
7593440 GGGGGTATCGATTCCCT
1 GGGGGAATCGGTTCCCT
7593457 CTGCACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.47
22 5 0.15
23 13 0.38
ACGTcount: A:0.17, C:0.23, G:0.33, T:0.27
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTTAAA
Found at i:7599874 original size:17 final size:19
Alignment explanation
Indices: 7599845--7599888 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
7599835 AATTGAATTG
7599845 TGAAACATG-CAA-GCAG-A
1 TGAAA-ATGTCAAGGCAGAA
7599862 TGAAAATGTCAAGGCAGAA
1 TGAAAATGTCAAGGCAGAA
7599881 T-AAAATGT
1 TGAAAATGT
7599889 AAATATTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 8 0.33
18 11 0.46
19 2 0.08
ACGTcount: A:0.48, C:0.11, G:0.23, T:0.18
Consensus pattern (19 bp):
TGAAAATGTCAAGGCAGAA
Found at i:7609630 original size:35 final size:34
Alignment explanation
Indices: 7609591--7609657 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
7609581 TTCTTCCTGG
* *
7609591 GTATCGATACCAAAGTGGTAGTATTGGTACCATGA
1 GTATCGATACCAAAGTGGAAGTA-TCGTACCATGA
*
7609626 GTATCGATACCAATGTGGAAGTATCGTACCAT
1 GTATCGATACCAAAGTGGAAGTATCGTACCAT
7609658 TTTTACAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 8 0.28
35 21 0.72
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (34 bp):
GTATCGATACCAAAGTGGAAGTATCGTACCATGA
Found at i:7627616 original size:42 final size:42
Alignment explanation
Indices: 7627569--7627650 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
7627559 AATTTAATGC
*
7627569 TCATTTAATAAATGATCGAACATGAATATAGGTATTTGGTGT
1 TCATTTAATAAATGAACGAACATGAATATAGGTATTTGGTGT
7627611 TCATTTAATAAATGAACGAACATGAATATAGGTATTTGGT
1 TCATTTAATAAATGAACGAACATGAATATAGGTATTTGGT
7627651 TTGTTTATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (42 bp):
TCATTTAATAAATGAACGAACATGAATATAGGTATTTGGTGT
Found at i:7631425 original size:25 final size:25
Alignment explanation
Indices: 7631397--7631444 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7631387 TAAATATGTT
7631397 TTATTATTAACTTAATTTAAAAATA
1 TTATTATTAACTTAATTTAAAAATA
* ** *
7631422 TTATTTTTATTTTCATTTAAAAA
1 TTATTATTAACTTAATTTAAAAA
7631445 ATATATTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
TTATTATTAACTTAATTTAAAAATA
Found at i:7632657 original size:22 final size:22
Alignment explanation
Indices: 7632629--7632670 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7632619 TCATCTCCAA
* *
7632629 CCACCCATTCGTCGGCGACCGG
1 CCACCCATACGTCGCCGACCGG
7632651 CCACCCATACGTCGCCGACC
1 CCACCCATACGTCGCCGACC
7632671 ACCCAATGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.50, G:0.21, T:0.12
Consensus pattern (22 bp):
CCACCCATACGTCGCCGACCGG
Found at i:7633490 original size:159 final size:158
Alignment explanation
Indices: 7633201--7633775 Score: 712
Period size: 159 Copynumber: 3.6 Consensus size: 158
7633191 ATTGATTTCA
* * * * *
7633201 TTATTTCTTCAATTCCTTC-TTCATTTTAAATCAATTTTTTACGAAATTTGAACCACATGCTCAT
1 TTATTTCTTCAATT-CGTCATTTATTTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCAT
*
7633265 AAACCATAGTAGAATACATGTGTACTTTCAATTCCTCTTTTTTATAACAATTTTTTTTATTTTTC
65 AAACCATAGTAGAATACATATGTACTTTCAATTCCTCTTTTTTATAACAATTTTTTTTATTTTTC
7633330 AATTTAGTCATTCAATTTTTCATAATCTTC
130 AATTTAGTC-TTCAATTTTTCATAATCTTC
* * *
7633360 TTATTTCTTTAATTCGTCATTTATTTTAAGTCCATTTTTTACCAAATTTGAGCCACATGCTCCTA
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCATA
* *
7633425 AACCATAGTAGAATACATGTGTACTTTCAATTCATCTTTTTGT-TAACAATTTTTTTTATTTTTC
66 AACCATAGTAGAATACATATGTACTTTCAATTCCTCTTTTT-TATAACAATTTTTTTTATTTTTC
* *
7633489 AATTTAGTCTTCAATTTTTCATAATTTTTT
130 AATTTAGTCTTCAATTTTTCATAA-TCTTC
* * ** * * *
7633519 TTATTTCTTCAACTCGTCATTTATTTTAAGTCCGTTCTTTTACCAAATTTGAGTCGCATACTCCT
1 TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATT-TTTTACCAAATTTGAACCACATGCTCAT
* ***
7633584 AAACCATATTAGAATACATATGTACTTTCAATTCCTCTTTTTTATATA-ATAAAATTTTTATTTT
65 AAACCATAGTAGAATACATATGTACTTTCAATTCCTCTTTTTTATA-ACA-ATTTTTTTTATTTT
* *
7633648 TCAATTTAATCCTACAATTTTTCATAATCTTC
128 TCAATTTAGT-CTTCAATTTTTCATAATCTTC
* * * *
7633680 TTA-TTCATTCAATTTGTGATTTA-TTTAAGT-CATTTTTTTACAAAATTTGAACTACATGCTCA
1 TTATTTC-TTCAATTCGTCATTTATTTTAAGTCCA-TTTTTTACCAAATTTGAACCACATGCTCA
* * * *
7633742 TATATCATAATAGAATACATATGTAATTTCAATT
64 TAAACCATAGTAGAATACATATGTACTTTCAATT
7633776 GTTATTTTTT
Statistics
Matches: 364, Mismatches: 42, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
158 18 0.05
159 211 0.58
160 80 0.22
161 40 0.11
162 15 0.04
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (158 bp):
TTATTTCTTCAATTCGTCATTTATTTTAAGTCCATTTTTTACCAAATTTGAACCACATGCTCATA
AACCATAGTAGAATACATATGTACTTTCAATTCCTCTTTTTTATAACAATTTTTTTTATTTTTCA
ATTTAGTCTTCAATTTTTCATAATCTTC
Found at i:7635989 original size:24 final size:24
Alignment explanation
Indices: 7635941--7636030 Score: 155
Period size: 24 Copynumber: 3.8 Consensus size: 24
7635931 GGAATTTATA
* *
7635941 TGGCACTACGGTGC-ATTTCTACG
1 TGGCACTTCGGTGCAAATTCTACG
7635964 TGGCACTTCGGTGCAAATTCTACG
1 TGGCACTTCGGTGCAAATTCTACG
7635988 TGGCACTTCGGTGCAAATTCTACG
1 TGGCACTTCGGTGCAAATTCTACG
7636012 TGGCACTTCGGTGCAAATT
1 TGGCACTTCGGTGCAAATT
7636031 TATATGAGCT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 13 0.20
24 51 0.80
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (24 bp):
TGGCACTTCGGTGCAAATTCTACG
Found at i:7636290 original size:20 final size:20
Alignment explanation
Indices: 7636254--7636291 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7636244 TTGTATCTGT
*
7636254 TATATGAATGAGACATAATA
1 TATATGAAAGAGACATAATA
7636274 TATATGATAAGAG-CATAA
1 TATATGA-AAGAGACATAA
7636292 GAGATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (20 bp):
TATATGAAAGAGACATAATA
Found at i:7636768 original size:21 final size:21
Alignment explanation
Indices: 7636744--7636794 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
7636734 TTACGAAAAT
*
7636744 CACTGTAGCAGTGCATCGATG
1 CACTGTAGCAATGCATCGATG
7636765 CACTGTAGCAATGCATCGATG
1 CACTGTAGCAATGCATCGATG
7636786 CACTGTAGC
1 CACTGTAGC
7636795 CATTCGAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (21 bp):
CACTGTAGCAATGCATCGATG
Found at i:7636834 original size:21 final size:21
Alignment explanation
Indices: 7636808--7636849 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7636798 TCGAAGTTTT
*
7636808 ATGCATCGGTGCACTGTAGCA
1 ATGCATCGATGCACTGTAGCA
7636829 ATGCATCGATGCACTGTAGCA
1 ATGCATCGATGCACTGTAGCA
7636850 CTGTAGCAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
ATGCATCGATGCACTGTAGCA
Found at i:7639885 original size:2 final size:2
Alignment explanation
Indices: 7639878--7639907 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7639868 CTGGTTGGAA
7639878 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7639908 GATTAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7642622 original size:24 final size:24
Alignment explanation
Indices: 7642533--7642620 Score: 133
Period size: 24 Copynumber: 3.7 Consensus size: 24
7642523 GGAATTTATA
* * *
7642533 TGGCACTACGGTGC-ATTTCTACT
1 TGGCACTTCGGTGCAAATTCTACG
7642556 TGGCACTTCGGTGCAAATTCTACG
1 TGGCACTTCGGTGCAAATTCTACG
7642580 TGGCACTTCGGTGCAAATTCTACG
1 TGGCACTTCGGTGCAAATTCTACG
7642604 TGGCACTTCAGGTGCAA
1 TGGCACTTC-GGTGCAA
7642621 TTTATACGAG
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
23 13 0.22
24 40 0.67
25 7 0.12
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (24 bp):
TGGCACTTCGGTGCAAATTCTACG
Found at i:7642882 original size:20 final size:20
Alignment explanation
Indices: 7642846--7642883 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7642836 TTGTATCTGT
*
7642846 TATATGAATGAGACATAATA
1 TATATGAAAGAGACATAATA
7642866 TATATGATAAGAG-CATAA
1 TATATGA-AAGAGACATAA
7642884 GAGATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (20 bp):
TATATGAAAGAGACATAATA
Found at i:7643361 original size:21 final size:21
Alignment explanation
Indices: 7643337--7643387 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
7643327 TTACGAAAAT
*
7643337 CACTGTAGCAGTGCATCGATG
1 CACTGTAGCAATGCATCGATG
7643358 CACTGTAGCAATGCATCGATG
1 CACTGTAGCAATGCATCGATG
*
7643379 CACTATAGC
1 CACTGTAGC
7643388 CATTCGAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (21 bp):
CACTGTAGCAATGCATCGATG
Found at i:7643427 original size:21 final size:21
Alignment explanation
Indices: 7643401--7643442 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7643391 TCGAAGTTTT
*
7643401 ATGCATCGGTGCACTGTAGCA
1 ATGCATCGATGCACTGTAGCA
7643422 ATGCATCGATGCACTGTAGCA
1 ATGCATCGATGCACTGTAGCA
7643443 GGTTACTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
ATGCATCGATGCACTGTAGCA
Found at i:7644111 original size:20 final size:19
Alignment explanation
Indices: 7644081--7644189 Score: 118
Period size: 20 Copynumber: 5.7 Consensus size: 19
7644071 ACAAATTATC
*
7644081 TCAAATTCGCAACGCGAAT
1 TCAAATTCGCAACGCGAAG
*
7644100 TCAAATTTCGCAAC-C---C
1 TCAAA-TTCGCAACGCGAAG
7644116 TCCAAATTCGCAACGCGAAAG
1 T-CAAATTCGCAACGCG-AAG
*
7644137 TCAAATTCGCAACACAGAAG
1 TCAAATTCGCAACGC-GAAG
7644157 TCAAATTCGCAACGCAGAAG
1 TCAAATTCGCAACGC-GAAG
7644177 TCAAATTCGCAAC
1 TCAAATTCGCAAC
7644190 ACGATACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 15
0.80 0.04 0.15
Matches are distributed among these distances:
16 9 0.12
17 5 0.06
19 6 0.08
20 56 0.72
21 2 0.03
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (19 bp):
TCAAATTCGCAACGCGAAG
Found at i:7644466 original size:7 final size:7
Alignment explanation
Indices: 7644454--7644481 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
7644444 GCTAAGTTGA
7644454 AACATTT
1 AACATTT
7644461 AACATTT
1 AACATTT
7644468 AACATTT
1 AACATTT
7644475 AACATTT
1 AACATTT
7644482 GGAAGTTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (7 bp):
AACATTT
Found at i:7656206 original size:37 final size:37
Alignment explanation
Indices: 7656165--7656249 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
7656155 CGTGTGAATC
*
7656165 ATCGAATTTCTTGTCTTTATGCTT-GTGTGTGCGATTT
1 ATCGAATTTCTTGTCTTTATG-TTGGTGTGTGCGATTA
* *
7656202 ATCGAATTTCTTGTTTTTATGTTGGTGTGTGTGATTA
1 ATCGAATTTCTTGTCTTTATGTTGGTGTGTGCGATTA
7656239 ATCGAATTTCT
1 ATCGAATTTCT
7656250 CATCTCTACG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 2 0.05
37 42 0.95
ACGTcount: A:0.16, C:0.11, G:0.21, T:0.52
Consensus pattern (37 bp):
ATCGAATTTCTTGTCTTTATGTTGGTGTGTGCGATTA
Found at i:7657298 original size:4 final size:4
Alignment explanation
Indices: 7657291--7657480 Score: 52
Period size: 4 Copynumber: 48.5 Consensus size: 4
7657281 ATAGTAAGTA
* *
7657291 AAAT AAAT AAAT AAAT -ATT AAA- AAAT ATTAA- AAA- AAAT AAAG AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A--AAT AAAT AAAT AAAT AAAT
*
7657336 AAGA- AAA- AAAT ATATAT AAAT AAAAC AAAT AAAT AAA- ATAAT -AAT
1 AA-AT AAAT AAAT A-A-AT AAAT -AAAT AAAT AAAT AAAT A-AAT AAAT
* * * *
7657381 AAAA AAAGT -AA- AAAT AATAT ATAT ATAT ATAT ATAAT AAAT AAA- AATAT
1 AAAT AAA-T AAAT AAAT AA-AT AAAT AAAT AAAT A-AAT AAAT AAAT AA-AT
* * * * *
7657430 AAA- AAAT -AGT AAAT ATAT ATAT AAAT TAAT AAAAC AAAT -AAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT
7657475 AAAT AA
1 AAAT AA
7657481 CATATGCATA
Statistics
Matches: 144, Mismatches: 17, Indels: 50
0.68 0.08 0.24
Matches are distributed among these distances:
3 35 0.24
4 88 0.61
5 16 0.11
6 5 0.03
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:7657357 original size:50 final size:53
Alignment explanation
Indices: 7657286--7657480 Score: 161
Period size: 50 Copynumber: 3.9 Consensus size: 53
7657276 ATGAAATAGT
* *
7657286 AAGT-AAAATAA-ATAAATAAATATTAAA-AAATATTAA-AAAA-AATAA-AGAAA
1 AAGTAAAAATAATATATATAAATA-TAAACAAATA--AATAAAATAATAATAAAAA
7657336 AAG-AAAAA-AATATATATAAATA-AAACAAATAAATAAAATAATAATAAAAA
1 AAGTAAAAATAATATATATAAATATAAACAAATAAATAAAATAATAATAAAAA
* * *
7657386 AAGTAAAAATAATATATATATATATATA-TAATAAAT-AAA-AAT-ATAAAAA
1 AAGTAAAAATAATATATATAAATATAAACAAATAAATAAAATAATAATAAAAA
* * *
7657435 ATAGTAAATATATATATAAATTAATA-AAACAAAT-AATAAAA-AATAA
1 A-AGTAAAAATA-ATATATATAAATATAAACAAATAAATAAAATAATAA
7657481 CATATGCATA
Statistics
Matches: 120, Mismatches: 11, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
47 2 0.02
48 7 0.06
49 20 0.17
50 41 0.34
51 27 0.22
52 21 0.17
53 2 0.02
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (53 bp):
AAGTAAAAATAATATATATAAATATAAACAAATAAATAAAATAATAATAAAAA
Found at i:7657469 original size:47 final size:48
Alignment explanation
Indices: 7657341--7657470 Score: 140
Period size: 49 Copynumber: 2.6 Consensus size: 48
7657331 AGAAAAAGAA
*
7657341 AAAAATATATATAAA-TAAAACAAATAAATAAAATAATAATAAAAAAAGT
1 AAAAATATATATAAATTAATA-AAATAAAT-AAATAATAATAAAAAAAGT
* *
7657390 AAAAATAATATATATATATATATATAATAAATAAA-AAT-ATAAAAAATAGT
1 AAAAAT-ATATATAAAT-TA-ATAAAATAAATAAATAATAATAAAAAA-AGT
* *
7657440 AAATATATATATAAATTAATAAAACAAATAA
1 AAAAATATATATAAATTAATAAAATAAATAA
7657471 TAAAAAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
47 11 0.16
48 2 0.03
49 23 0.33
50 19 0.28
51 3 0.04
52 9 0.13
53 2 0.03
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (48 bp):
AAAAATATATATAAATTAATAAAATAAATAAATAATAATAAAAAAAGT
Found at i:7657659 original size:14 final size:15
Alignment explanation
Indices: 7657640--7657678 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
7657630 AAATGTGCGT
*
7657640 ATAAATAAAATTA-A
1 ATAAATAAAATAATA
7657654 ATAAATAAAATAATA
1 ATAAATAAAATAATA
*
7657669 ATAATTAAAA
1 ATAAATAAAA
7657679 CGTAAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAATAAAATAATA
Found at i:7658121 original size:37 final size:37
Alignment explanation
Indices: 7658071--7658178 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
7658061 TTCTGGATCC
7658071 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* * *
7658108 TATTTTTAGGAGTTTGAATCCTAGTAAAAATCTATCC
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
*
7658145 TATTTTTAGGAGTTTGAATCGTAGTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
7658179 ACGCTATGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
Found at i:7661469 original size:22 final size:22
Alignment explanation
Indices: 7661444--7661503 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
7661434 ATTTTGGTCC
7661444 TTTTTATTTATTTATTTATT-GA
1 TTTTT-TTTATTTATTTATTCGA
*
7661466 TTTTGTTTTATTT-TATTATTCTA
1 TTTT-TTTTATTTAT-TTATTCGA
7661489 TTTTTTTTA-TTATTT
1 TTTTTTTTATTTATTT
7661504 CTTTTTTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 5 0.15
22 22 0.67
23 6 0.18
ACGTcount: A:0.18, C:0.02, G:0.03, T:0.77
Consensus pattern (22 bp):
TTTTTTTTATTTATTTATTCGA
Found at i:7661505 original size:18 final size:17
Alignment explanation
Indices: 7661458--7661511 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
7661448 TATTTATTTA
7661458 TTTATTGATTT-TGTTTTAT
1 TTTATT-ATTTCT-TTTT-T
7661477 TTTATTA-TTCTATTTTT
1 TTTATTATTTCT-TTTTT
7661494 TTTATTATTTCTTTTTT
1 TTTATTATTTCTTTTTT
7661511 T
1 T
7661512 ACTAACTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 16 0.50
18 10 0.31
19 6 0.19
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTATTATTTCTTTTTT
Found at i:7661558 original size:17 final size:17
Alignment explanation
Indices: 7661450--7661576 Score: 71
Period size: 18 Copynumber: 6.9 Consensus size: 17
7661440 GTCCTTTTTA
7661450 TTTATTTA-TTTATTGAT
1 TTTATTTATTTTATT-AT
*
7661467 TTTGTTTTATTTTATTAT
1 TTT-ATTTATTTTATTAT
* *
7661485 TCTATTTTTTTTATTA-
1 TTTATTTATTTTATTAT
* *
7661501 TTTCTTT-TTTTACTAACT
1 TTTATTTATTTTA-TTA-T
*
7661519 TTTATTTGTCTTTGTTATCTAT
1 TTTA-TT-T-ATT-TTAT-TAT
7661541 TTTATTTATTTTATTAT
1 TTTATTTATTTTATTAT
7661558 TATTATTATATTTATATTA
1 T-TTATT-TATTT-TATTA
7661577 ATATTTTTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
15 5 0.06
16 7 0.08
17 18 0.21
18 20 0.23
19 15 0.17
20 7 0.08
21 2 0.02
22 8 0.09
23 4 0.05
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTATTTATTTTATTAT
Found at i:7661569 original size:23 final size:24
Alignment explanation
Indices: 7661533--7661581 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
7661523 TTTGTCTTTG
* * *
7661533 TTATCTATTTTATTTATTTTATTA
1 TTATCTATTATATTTATATTAATA
7661557 TTAT-TATTATATTTATATTAATA
1 TTATCTATTATATTTATATTAATA
7661580 TT
1 TT
7661582 TTTTTCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TTATCTATTATATTTATATTAATA
Found at i:7663596 original size:14 final size:14
Alignment explanation
Indices: 7663577--7663604 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7663567 CCCTCCCCTC
7663577 TTATTTCTTTGAGA
1 TTATTTCTTTGAGA
7663591 TTATTTCTTTGAGA
1 TTATTTCTTTGAGA
7663605 GTTGTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (14 bp):
TTATTTCTTTGAGA
Found at i:7667244 original size:35 final size:35
Alignment explanation
Indices: 7667205--7667275 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
7667195 TATAAATAGA
7667205 TACTAAGGGTCAGAGTTAGATATCAAGTTTTTCTT
1 TACTAAGGGTCAGAGTTAGATATCAAGTTTTTCTT
*
7667240 TACTAAGGGTCAGGGTTAGATATCAAGTTTTTCTT
1 TACTAAGGGTCAGAGTTAGATATCAAGTTTTTCTT
7667275 T
1 T
7667276 CACCAAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (35 bp):
TACTAAGGGTCAGAGTTAGATATCAAGTTTTTCTT
Found at i:7667805 original size:34 final size:32
Alignment explanation
Indices: 7667745--7667828 Score: 114
Period size: 34 Copynumber: 2.6 Consensus size: 32
7667735 CTTGATAATT
* *
7667745 TAAGTTCGTAAGCTTTTTTTTTAAAGAAAATA
1 TAAGCTCGTGAGCTTTTTTTTTAAAGAAAATA
*
7667777 TAAGCTCGTGAGCTTATTTTTTTAAAAGAAAGTA
1 TAAGCTCGTGAGCTT-TTTTTTT-AAAGAAAATA
*
7667811 TAAGCTGGTGAGCTTTTT
1 TAAGCTCGTGAGCTTTTT
7667829 AAAAGAAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
32 13 0.28
33 10 0.22
34 23 0.50
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (32 bp):
TAAGCTCGTGAGCTTTTTTTTTAAAGAAAATA
Found at i:7669873 original size:23 final size:23
Alignment explanation
Indices: 7669845--7669891 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7669835 GCCTCTGTTG
7669845 TTTGTTGAATTTGAAACTTTTGT
1 TTTGTTGAATTTGAAACTTTTGT
7669868 TTTGTTGAATTTGAAACTTTTGT
1 TTTGTTGAATTTGAAACTTTTGT
7669891 T
1 T
7669892 CCATAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.17, T:0.57
Consensus pattern (23 bp):
TTTGTTGAATTTGAAACTTTTGT
Found at i:7674877 original size:12 final size:11
Alignment explanation
Indices: 7674853--7674988 Score: 58
Period size: 12 Copynumber: 11.4 Consensus size: 11
7674843 TTCAAAGAGG
7674853 TTTTAT-TTAA
1 TTTTATATTAA
7674863 TTTTATATTATA
1 TTTTATATTA-A
* *
7674875 TTTGATTTTAA
1 TTTTATATTAA
7674886 TTTTAATATTAA
1 TTTT-ATATTAA
* *
7674898 TTTTTTAAATAAA
1 --TTTTATATTAA
**
7674911 TTAAATATTAATA
1 TTTTATATT-A-A
7674924 TTTTAATATTATA
1 TTTT-ATATTA-A
*
7674937 TTATAGATATTAA
1 TT-T-TATATTAA
7674950 TTTTAATATTAA
1 TTTT-ATATTAA
* *
7674962 TTTTTAAATAAA
1 -TTTTATATTAA
**
7674974 TTAAATATTAA
1 TTTTATATTAA
7674985 TTTT
1 TTTT
7674989 TTAATATTAT
Statistics
Matches: 92, Mismatches: 22, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
10 6 0.07
11 21 0.23
12 29 0.32
13 20 0.22
14 16 0.17
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (11 bp):
TTTTATATTAA
Found at i:7674939 original size:26 final size:27
Alignment explanation
Indices: 7674884--7674961 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 27
7674874 ATTTGATTTT
* *
7674884 AATTTTAATATTAATTTTTTAA-A-TA
1 AATTATAATATTAATATTTTAATATTA
7674909 AATTA-AATATTAATATTTTAATATTA
1 AATTATAATATTAATATTTTAATATTA
*
7674935 TATTATAGATATT-A-ATTTTAATATTA
1 AATTATA-ATATTAATATTTTAATATTA
7674961 A
1 A
7674962 TTTTTAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
24 15 0.33
25 5 0.11
26 18 0.40
27 2 0.04
28 5 0.11
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
AATTATAATATTAATATTTTAATATTA
Found at i:7674982 original size:63 final size:64
Alignment explanation
Indices: 7674862--7675018 Score: 259
Period size: 63 Copynumber: 2.5 Consensus size: 64
7674852 GTTTTATTTA
*
7674862 ATTTT-ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAAT
1 ATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAAT
7674923 ATTTTAATATTATATTATAGATATTAATTTTAATATTAA-TTTTTAAATAAATTAAATATTAAT
1 ATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAAT
*
7674986 TTTTTAATATTATATTATAGATATTTAATTTTA
1 ATTTTAATATTATATTATAGATA-TTAATTTTA
7675019 TTATCATATA
Statistics
Matches: 90, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
61 5 0.06
62 10 0.11
63 47 0.52
64 28 0.31
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (64 bp):
ATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAAT
Found at i:7674997 original size:37 final size:40
Alignment explanation
Indices: 7674914--7675015 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 40
7674904 AAATAAATTA
*
7674914 AATATTAATATTTTAATATTATATTATAGATATTAATTTT
1 AATATTAATATTTTAATATTAAATTATAGATATTAATTTT
7674954 AATATTAAT-TTTTAA-A-TAAATTA-A-ATATTAATTTTTT
1 AATATTAATATTTTAATATTAAATTATAGATATTAA--TTTT
* *
7674991 AATATT-ATATTATAGATATTTAATT
1 AATATTAATATTTTA-ATATTAAATT
7675016 TTATTATCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
35 7 0.13
36 3 0.06
37 20 0.38
38 2 0.04
39 7 0.13
40 14 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (40 bp):
AATATTAATATTTTAATATTAAATTATAGATATTAATTTT
Found at i:7675592 original size:31 final size:31
Alignment explanation
Indices: 7675533--7675593 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
7675523 GTAGTTGTAT
* * **
7675533 AAATTATTTAAATTTTAGTATTGTAAAACTA
1 AAATTATTTAAATATCAGTATTACAAAACTA
7675564 AAATTATTTAAATATCAGTATTACAAAACT
1 AAATTATTTAAATATCAGTATTACAAAACT
7675594 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (31 bp):
AAATTATTTAAATATCAGTATTACAAAACTA
Found at i:7676590 original size:27 final size:27
Alignment explanation
Indices: 7676534--7676594 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
7676524 TCGGGTCGAA
* * * *
7676534 GTCGGGTGGAGAGTATATATTTTTCGG
1 GTCGGGTGGAGAGTATAAAATTTCCAG
7676561 GTCGGGTGGA-AGATATAAAATTTCCAG
1 GTCGGGTGGAGAG-TATAAAATTTCCAG
7676588 GTCGGGT
1 GTCGGGT
7676595 TAGATTCGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.23, C:0.10, G:0.36, T:0.31
Consensus pattern (27 bp):
GTCGGGTGGAGAGTATAAAATTTCCAG
Found at i:7678868 original size:75 final size:73
Alignment explanation
Indices: 7678713--7678866 Score: 200
Period size: 75 Copynumber: 2.0 Consensus size: 73
7678703 GTTTTAGGTA
* *
7678713 TTTTAGTTTAAATAGGTTTTAATATTTTAATTAAGTTTTAGGATAATATTTTAAATATTATATTT
1 TTTTAGTTTAAATAGGTTTTAATATTTTAATTAAGATTTAGAATAATATTTTAAATATTATATTT
*
7678778 TATCTTTG
66 TATATTTG
* * * *
7678786 TATTTTAGTTTAAATATGTTTTAGTATTTTAATTAGGATTTAGAATAATATTTTAAATAGTATTT
1 --TTTTAGTTTAAATAGGTTTTAATATTTTAATTAAGATTTAGAATAATATTTT-AA-A-TATTA
7678851 TATTTTATATTTG
61 TATTTTATATTTG
7678864 TTT
1 TTT
7678867 AGGTATTTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
75 47 0.68
76 5 0.07
77 1 0.01
78 16 0.23
ACGTcount: A:0.32, C:0.01, G:0.10, T:0.57
Consensus pattern (73 bp):
TTTTAGTTTAAATAGGTTTTAATATTTTAATTAAGATTTAGAATAATATTTTAAATATTATATTT
TATATTTG
Found at i:7680490 original size:19 final size:18
Alignment explanation
Indices: 7680466--7680509 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
7680456 TTGTTAGAAG
*
7680466 TGTATGAGTTATATGTTAT
1 TGTATGAGTGATATGTT-T
*
7680485 TGTATGTGTGATATGTTT
1 TGTATGAGTGATATGTTT
7680503 TGTATGA
1 TGTATGA
7680510 ATATATGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (18 bp):
TGTATGAGTGATATGTTT
Found at i:7681030 original size:31 final size:30
Alignment explanation
Indices: 7680974--7681066 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 30
7680964 AGAGTCGAGG
* * * *
7680974 GTTACCTATGTCTTTCGAGATATATGGATT
1 GTTACCTATGTCCTTCGGGACATATGGATA
* *
7681004 GTTTACCTATGTCCTTAGGGACATATGGACA
1 G-TTACCTATGTCCTTCGGGACATATGGATA
* *
7681035 GTTACCTATGTTCTTCGGAACATATGGATA
1 GTTACCTATGTCCTTCGGGACATATGGATA
7681065 GT
1 GT
7681067 GGTCCTTTGG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 28 0.54
31 24 0.46
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.38
Consensus pattern (30 bp):
GTTACCTATGTCCTTCGGGACATATGGATA
Found at i:7681358 original size:6 final size:6
Alignment explanation
Indices: 7681342--7681429 Score: 169
Period size: 6 Copynumber: 14.8 Consensus size: 6
7681332 GGTTATATAT
7681342 ATGAT- ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA
1 ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA
7681389 ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGAT
1 ATGATA ATGATA ATGATA ATGATA ATGATA ATGATA ATGAT
7681430 GTTAGTAGTA
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.06
6 77 0.94
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
ATGATA
Found at i:7682249 original size:17 final size:18
Alignment explanation
Indices: 7682227--7682268 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
7682217 CTTTCCATTA
7682227 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATCT
*
7682244 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
7682262 TTTATTT
1 TTTATTT
7682269 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:7682329 original size:19 final size:19
Alignment explanation
Indices: 7682307--7682347 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7682297 TATTTTAATA
* *
7682307 TTATTATTTTCCCTTTTAT
1 TTATTATTATCCATTTTAT
*
7682326 TTATTATTATCTATTTTAT
1 TTATTATTATCCATTTTAT
7682345 TTA
1 TTA
7682348 ATTAAATCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATTATCCATTTTAT
Found at i:7685405 original size:20 final size:22
Alignment explanation
Indices: 7685382--7685426 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 22
7685372 CGAGTTTCTG
7685382 TTTAAATAATATTAT-AAA-TA
1 TTTAAATAATATTATGAAATTA
7685402 TTT--ATAATATTATGAAATTA
1 TTTAAATAATATTATGAAATTA
7685422 TTTAA
1 TTTAA
7685427 TTCTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
18 10 0.48
19 3 0.14
20 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAAATAATATTATGAAATTA
Found at i:7685410 original size:18 final size:20
Alignment explanation
Indices: 7685387--7685425 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
7685377 TTCTGTTTAA
7685387 ATAATATTAT-AAA-TATTT
1 ATAATATTATGAAATTATTT
7685405 ATAATATTATGAAATTATTT
1 ATAATATTATGAAATTATTT
7685425 A
1 A
7685426 ATTCTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
ATAATATTATGAAATTATTT
Found at i:7689679 original size:37 final size:38
Alignment explanation
Indices: 7689630--7689701 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
7689620 TTTTGTTCAG
7689630 GTCGGGTCGGGTTTTTT-AAGTGTGATATTCGGGTCGA
1 GTCGGGTCGGGTTTTTTGAAGTGTGATATTCGGGTCGA
*
7689667 GTCGGGTTGGGTTTTTTGAAGTGTGATATTCGGGT
1 GTCGGGTCGGGTTTTTTGAAGTGTGATATTCGGGT
7689702 TAGGTCATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 16 0.48
38 17 0.52
ACGTcount: A:0.12, C:0.08, G:0.39, T:0.40
Consensus pattern (38 bp):
GTCGGGTCGGGTTTTTTGAAGTGTGATATTCGGGTCGA
Found at i:7689717 original size:38 final size:37
Alignment explanation
Indices: 7689634--7689717 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 37
7689624 GTTCAGGTCG
* *
7689634 GGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAGTCG
1 GGTCGGGTTTTTTAAGTGTGATATTCGGGTAGAGTCA
*
7689671 GGTTGGGTTTTTTGAAGTGTGATATTCGGGTTAG-GTCA
1 GGTCGGGTTTTTT-AAGTGTGATATTCGGG-TAGAGTCA
*
7689709 TGTCGGGTT
1 GGTCGGGTT
7689718 CGGGTTTAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
37 12 0.30
38 26 0.65
39 2 0.05
ACGTcount: A:0.13, C:0.08, G:0.38, T:0.40
Consensus pattern (37 bp):
GGTCGGGTTTTTTAAGTGTGATATTCGGGTAGAGTCA
Found at i:7690321 original size:16 final size:17
Alignment explanation
Indices: 7690300--7690340 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
7690290 AATTGGATTC
7690300 CAATTCCT-ACATATTT
1 CAATTCCTCACATATTT
*
7690316 CAATTCATTCACATATTT
1 CAATTC-CTCACATATTT
7690334 CAATTCC
1 CAATTCC
7690341 CTCATAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 1 0.05
18 14 0.67
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (17 bp):
CAATTCCTCACATATTT
Found at i:7690994 original size:18 final size:19
Alignment explanation
Indices: 7690971--7691012 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
7690961 CAGTAATCCT
7690971 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
7690989 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
7691009 ATTC
1 ATTC
7691013 TGTGAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 3 0.14
20 16 0.73
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:7693438 original size:39 final size:39
Alignment explanation
Indices: 7693390--7693471 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
7693380 TCAAAATTAA
*
7693390 GTCGGGATCTACGATATTTGTTATAATTACTTGAAATTC
1 GTCGAGATCTACGATATTTGTTATAATTACTTGAAATTC
*
7693429 GTCGAGATCTACGATATTTGTTATAGTTACTTGAAATTC
1 GTCGAGATCTACGATATTTGTTATAATTACTTGAAATTC
7693468 GTCG
1 GTCG
7693472 CGTCGACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (39 bp):
GTCGAGATCTACGATATTTGTTATAATTACTTGAAATTC
Found at i:7698242 original size:19 final size:17
Alignment explanation
Indices: 7698214--7698273 Score: 52
Period size: 19 Copynumber: 3.4 Consensus size: 17
7698204 ATAAAATTAA
*
7698214 AAAAATTATATATTTTAG
1 AAAAATTATAAATTTT-G
7698232 AAAAATATATAAATTTTG
1 AAAAAT-TATAAATTTTG
7698250 AAATAACTCT-TAAATTTT-
1 AAA-AA-T-TATAAATTTTG
7698268 AAAAAT
1 AAAAAT
7698274 CTTCATTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 1 0.03
17 2 0.05
18 13 0.35
19 19 0.51
20 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
AAAAATTATAAATTTTG
Found at i:7701071 original size:22 final size:23
Alignment explanation
Indices: 7701046--7701098 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
7701036 AAAGAACAGA
7701046 AAAACATG-TCAAAAAGCATAAG
1 AAAACATGTTCAAAAAGCATAAG
** *
7701068 AAAACATGTTGTAAAAGCATATG
1 AAAACATGTTCAAAAAGCATAAG
7701091 AAAACATG
1 AAAACATG
7701099 CAACACAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.19
Consensus pattern (23 bp):
AAAACATGTTCAAAAAGCATAAG
Found at i:7702243 original size:12 final size:12
Alignment explanation
Indices: 7702226--7702250 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7702216 CCACCGTCAC
7702226 CCTCATTATCTT
1 CCTCATTATCTT
7702238 CCTCATTATCTT
1 CCTCATTATCTT
7702250 C
1 C
7702251 ATGTGAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (12 bp):
CCTCATTATCTT
Found at i:7707047 original size:23 final size:22
Alignment explanation
Indices: 7707019--7707103 Score: 93
Period size: 23 Copynumber: 3.8 Consensus size: 22
7707009 GTACCATCAG
*
7707019 GGGGTATCGATACCCATTCAAA
1 GGGGTATCGATACCTATTCAAA
* *
7707041 GATGGTATCAATACCTATTGC--A
1 G-GGGTATCGATACCTATT-CAAA
7707063 GGGGTATCGATACCTATTCAAA
1 GGGGTATCGATACCTATTCAAA
7707085 GGGGGTATCGATACTCTAT
1 -GGGGTATCGATAC-CTAT
7707104 GCACAAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
20 1 0.02
21 15 0.29
22 4 0.08
23 27 0.52
24 5 0.10
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (22 bp):
GGGGTATCGATACCTATTCAAA
Found at i:7707069 original size:44 final size:45
Alignment explanation
Indices: 7707019--7707103 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 45
7707009 GTACCATCAG
*
7707019 GGGGTATCGATACCCATTCAAAGATGGTATCAATAC-CTATTGCA
1 GGGGTATCGATACCCATTCAAAGAGGGTATCAATACTCTATTGCA
* * *
7707063 GGGGTATCGATACCTATTCAAAGGGGGTATCGATACTCTAT
1 GGGGTATCGATACCCATTCAAAGAGGGTATCAATACTCTAT
7707104 GCACAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 32 0.89
45 4 0.11
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
GGGGTATCGATACCCATTCAAAGAGGGTATCAATACTCTATTGCA
Found at i:7710635 original size:23 final size:23
Alignment explanation
Indices: 7710609--7710677 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
7710599 CACCACAGCT
*
7710609 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
7710632 CGTAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
7710655 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
7710678 TATAATAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:7711830 original size:3 final size:3
Alignment explanation
Indices: 7711822--7711847 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7711812 TCTCACGTAT
7711822 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
7711848 GAACTCTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7718112 original size:26 final size:26
Alignment explanation
Indices: 7718032--7718104 Score: 130
Period size: 26 Copynumber: 2.8 Consensus size: 26
7718022 AGAAATAGAG
7718032 AAGAGATTACAGCCGAAGAAAGGGAA
1 AAGAGATTACAGCCGAAGAAAGGGAA
7718058 AAGAGATTACAGCCGAAGAAAGGGAA
1 AAGAGATTACAGCCGAAGAAAGGGAA
*
7718084 AAGAGATTACAACCG-AGAAAG
1 AAGAGATTACAGCCGAAGAAAG
7718105 AAAGAAAGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 6 0.13
26 40 0.87
ACGTcount: A:0.51, C:0.12, G:0.29, T:0.08
Consensus pattern (26 bp):
AAGAGATTACAGCCGAAGAAAGGGAA
Found at i:7720900 original size:38 final size:34
Alignment explanation
Indices: 7720813--7720901 Score: 88
Period size: 35 Copynumber: 2.4 Consensus size: 34
7720803 ATTTTATTAC
*
7720813 TAGTATTAAATCATTAGTATCAAATAATTAAATAT
1 TAGTA-TAAATCATTAGTATAAAATAATTAAATAT
* * *
7720848 TAATAATAAATCATTATTAATAATAATTATTAAATCAT
1 TAGT-ATAAATCATTAGT-ATAA-AATAATTAAAT-AT
7720886 TAGTATCAAATCATTA
1 TAGTAT-AAATCATTA
7720902 AATATTTAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
35 14 0.32
36 4 0.09
37 12 0.27
38 14 0.32
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.40
Consensus pattern (34 bp):
TAGTATAAATCATTAGTATAAAATAATTAAATAT
Found at i:7720941 original size:59 final size:58
Alignment explanation
Indices: 7720810--7720925 Score: 141
Period size: 59 Copynumber: 2.0 Consensus size: 58
7720800 ATAATTTTAT
* *
7720810 TACTA-GTATTAAATCATTAGTATCAAATAATTAAATATTAATAATAAATCATTATTAA
1 TACTATGTATTAAATCATTAGTATCAAATAATTAAATATT-ATAAGAAATCATTATAAA
* *
7720868 TAATAAT-TATTAAATCATTAGTATCAAATCATTAAATATT-T-AGAAATCATTAATAAA
1 TACT-ATGTATTAAATCATTAGTATCAAATAATTAAATATTATAAGAAATCATT-ATAAA
7720925 T
1 T
7720926 TCGACTATGT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
56 9 0.18
57 6 0.12
58 3 0.06
59 33 0.65
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (58 bp):
TACTATGTATTAAATCATTAGTATCAAATAATTAAATATTATAAGAAATCATTATAAA
Found at i:7721025 original size:14 final size:14
Alignment explanation
Indices: 7721006--7721032 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7720996 TAGTAATAAT
7721006 TATTAAATCATTAG
1 TATTAAATCATTAG
7721020 TATTAAATCATTA
1 TATTAAATCATTA
7721033 TTATAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
TATTAAATCATTAG
Found at i:7721049 original size:14 final size:14
Alignment explanation
Indices: 7721027--7721068 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
7721017 TAGTATTAAA
*
7721027 TCATTATTATAATT
1 TCATGATTATAATT
*
7721041 TTATGATTATAATT
1 TCATGATTATAATT
7721055 TCATGATTACTAAT
1 TCATGATTA-TAAT
7721069 CACTAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (14 bp):
TCATGATTATAATT
Found at i:7721437 original size:21 final size:22
Alignment explanation
Indices: 7721407--7721451 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
7721397 TAATCATTAG
*
7721407 TAAATCATTAGT-ATCAAATCAT
1 TAAATCATTAATAAT-AAATCAT
7721429 TAAAT-ATTAATAATAAATCAT
1 TAAATCATTAATAATAAATCAT
7721450 TA
1 TA
7721452 TTATCAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAATCATTAATAATAAATCAT
Found at i:7721460 original size:14 final size:14
Alignment explanation
Indices: 7721443--7721632 Score: 77
Period size: 14 Copynumber: 13.6 Consensus size: 14
7721433 TATTAATAAT
7721443 AAATCATTATTATC
1 AAATCATTATTATC
*
7721457 AAATCATTA--CT-
1 AAATCATTATTATC
7721468 AAATCATTATTGAATC
1 AAATCATTATT--ATC
*
7721484 ATTATTAT-ATTATTATT
1 A--A--ATCATTATTATC
7721501 AAATCATTATTAT-
1 AAATCATTATTATC
*
7721514 -AATGATTATTA-C
1 AAATCATTATTATC
7721526 TAAATCATTATTAT-
1 -AAATCATTATTATC
*
7721540 -AATGATTATTATC
1 AAATCATTATTATC
7721553 AAATCATTACTAAATCATC
1 AAATCATTA-T---T-ATC
* *
7721572 AAATCATTAAATATTA
1 AAATCATT-ATTA-TC
7721588 AAATCATTA-T-T-
1 AAATCATTATTATC
*
7721599 AAATCATTA--CT-
1 AAATCATTATTATC
7721610 AAATCATTATTATC
1 AAATCATTATTATC
*
7721624 AAATAATTA
1 AAATCATTA
7721633 CTAAATCATA
Statistics
Matches: 138, Mismatches: 11, Indels: 54
0.68 0.05 0.27
Matches are distributed among these distances:
11 28 0.20
12 23 0.17
13 3 0.02
14 43 0.31
15 5 0.04
16 11 0.08
17 3 0.02
18 2 0.01
19 17 0.12
20 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (14 bp):
AAATCATTATTATC
Found at i:7721505 original size:131 final size:135
Alignment explanation
Indices: 7721350--7721622 Score: 321
Period size: 131 Copynumber: 2.1 Consensus size: 135
7721340 ATCGACATAT
* *
7721350 TTATTATGATTATTAGTATCAAATCATTATTATAATTTCATTTTTAGT-AATCATTAGTA-AATC
1 TTATTATGATTATTAGTATCAAATCATTATTATAA--TCATTATTACTAAATCATTAGTATAATC
* *
7721413 ATTAGTATCAAATCATTAAATATTAATAAT-AAATCATT-ATTA-TCAAATCATTACTAAATCAT
64 ATTAGTATCAAATCATT-AATA--AATAATCAAATCATTAAATATTAAAATCATTACTAAATCAT
* *
7721475 TATTGAATCA
126 TACTAAATCA
* * *
7721485 TTATTAT-ATTATTA-T-T-AAATCATTATTATAATGATTATTACTAAATCATTATTATAATGAT
1 TTATTATGATTATTAGTATCAAATCATTATTATAATCATTATTACTAAATCATTAGTATAATCAT
* * * *
7721546 TATTATCAAATCATTACTAAATCATCAAATCATTAAATATTAAAATCATTATTAAATCATTACTA
66 TAGTATCAAATCATTAATAAATAATCAAATCATTAAATATTAAAATCATTACTAAATCATTACTA
7721611 AATCA
131 AATCA
7721616 TTATTAT
1 TTATTAT
7721623 CAAATAATTA
Statistics
Matches: 120, Mismatches: 13, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
128 5 0.04
129 16 0.13
130 16 0.13
131 67 0.56
132 1 0.01
133 1 0.01
134 7 0.06
135 7 0.06
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (135 bp):
TTATTATGATTATTAGTATCAAATCATTATTATAATCATTATTACTAAATCATTAGTATAATCAT
TAGTATCAAATCATTAATAAATAATCAAATCATTAAATATTAAAATCATTACTAAATCATTACTA
AATCA
Found at i:7721510 original size:11 final size:11
Alignment explanation
Indices: 7721370--7721621 Score: 127
Period size: 11 Copynumber: 21.1 Consensus size: 11
7721360 TATTAGTATC
7721370 AAATCATTATT
1 AAATCATTATT
*
7721381 ATAATTTCATTTTT
1 A-AA--TCATTATT
*
7721395 AGTAATCATTAGT
1 A--AATCATTATT
7721408 AAATCATTAGTAT
1 AAATCATTA-T-T
7721421 CAAATCATTA--
1 -AAATCATTATT
* * *
7721431 AATATTAATAAT
1 AA-ATCATTATT
7721443 AAATCATTATTAT
1 AAATCATTA-T-T
*
7721456 CAAATCATTACT
1 -AAATCATTATT
7721468 AAATCATTATT
1 AAATCATTATT
*
7721479 GAATCATTATT
1 AAATCATTATT
* *
7721490 ATATTATTATT
1 AAATCATTATT
7721501 AAATCATTATT
1 AAATCATTATT
*
7721512 ATAATGATTATTACT
1 A-AATCATTA-T--T
7721527 AAATCATTATT
1 AAATCATTATT
*
7721538 ATAATGATTATTAT
1 A-AATCATTA-T-T
*
7721552 CAAATCATTACT
1 -AAATCATTATT
7721564 AAATCATCAAATCATT
1 AAATCAT----T-ATT
7721580 AAAT-ATTA--
1 AAATCATTATT
7721588 AAATCATTATT
1 AAATCATTATT
*
7721599 AAATCATTACT
1 AAATCATTATT
7721610 AAATCATTATT
1 AAATCATTATT
7721621 A
1 A
7721622 TCAAATAATT
Statistics
Matches: 187, Mismatches: 25, Indels: 58
0.69 0.09 0.21
Matches are distributed among these distances:
8 4 0.02
9 6 0.03
10 6 0.03
11 83 0.44
12 20 0.11
13 12 0.06
14 41 0.22
15 9 0.05
16 6 0.03
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (11 bp):
AAATCATTATT
Found at i:7721529 original size:26 final size:25
Alignment explanation
Indices: 7721448--7721561 Score: 123
Period size: 26 Copynumber: 4.7 Consensus size: 25
7721438 ATAATAAATC
* *
7721448 ATTATTATCAAATCATTACTA-AATC
1 ATTATTAT-AAATCATTATTATAATG
* *
7721473 ATTA-T-TGAATCATTATTAT-ATT
1 ATTATTATAAATCATTATTATAATG
7721495 ATTA-T-TAAATCATTATTATAATG
1 ATTATTATAAATCATTATTATAATG
7721518 ATTATTACTAAATCATTATTATAATG
1 ATTATTA-TAAATCATTATTATAATG
7721544 ATTATTATCAAATCATTA
1 ATTATTAT-AAATCATTA
7721562 CTAAATCATC
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
22 30 0.38
23 7 0.09
24 2 0.03
25 5 0.06
26 34 0.44
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (25 bp):
ATTATTATAAATCATTATTATAATG
Found at i:7721753 original size:8 final size:8
Alignment explanation
Indices: 7721742--7721783 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
7721732 TTTAAAAAAC
*
7721742 TAAATTAT
1 TAAATCAT
7721750 TAAATCAT
1 TAAATCAT
*
7721758 CAAATCAT
1 TAAATCAT
7721766 TAAAT-AT
1 TAAATCAT
7721773 TAAAATCAT
1 T-AAATCAT
7721782 TA
1 TA
7721784 TTAAATTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 3 0.10
8 23 0.79
9 3 0.10
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATCAT
Found at i:7721822 original size:21 final size:20
Alignment explanation
Indices: 7721795--7721850 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
7721785 TAAATTTCAT
7721795 TATTACTAATAATTATTAAA
1 TATTACTAATAATTATTAAA
*
7721815 TCATTACT-ATCAAATCATTAAA
1 T-ATTACTAAT--AATTATTAAA
*
7721837 TATTAATAATAATT
1 TATTACTAATAATT
7721851 TCATTACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
20 6 0.21
21 11 0.38
22 12 0.41
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTACTAATAATTATTAAA
Found at i:7721850 original size:42 final size:42
Alignment explanation
Indices: 7721795--7721939 Score: 113
Period size: 36 Copynumber: 3.3 Consensus size: 42
7721785 TAAATTTCAT
*
7721795 TATTACTAATAATTATTAAATCATTACTATCAAATCATTAAA
1 TATTAATAATAATTATTAAATCATTACTATCAAATCATTAAA
7721837 TATTAATAAT-A--ATT---TCATTACTATCAAATCATTAAATA
1 TATTAATAATAATTATTAAATCATTACTATCAAATCATT-AA-A
* * *
7721875 TAATTTCATTATTACTAATCATTACTAAATCATAACTATCAAATCATTAAA
1 T-A-TT-A--A-TAATAA---TTATTAAATCATTACTATCAAATCATTAAA
7721926 TATTAATAATAATT
1 TATTAATAATAATT
7721940 TCATTATTAC
Statistics
Matches: 81, Mismatches: 5, Indels: 34
0.68 0.04 0.28
Matches are distributed among these distances:
36 19 0.23
37 2 0.02
38 2 0.02
39 4 0.05
40 2 0.02
41 2 0.02
42 11 0.14
43 1 0.01
44 3 0.04
45 6 0.07
46 1 0.01
48 1 0.01
49 2 0.02
50 3 0.04
51 2 0.02
52 2 0.02
53 18 0.22
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (42 bp):
TATTAATAATAATTATTAAATCATTACTATCAAATCATTAAA
Found at i:7721870 original size:29 final size:29
Alignment explanation
Indices: 7721834--7721924 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
7721824 TCAAATCATT
7721834 AAAT-ATTAATAATAATTTCATTACTATC
1 AAATCATTAATAATAATTTCATTACTATC
*
7721862 AAATCATTAA-ATATAATTTCATTATTA-C
1 AAATCATTAATA-ATAATTTCATTACTATC
* * *
7721890 TAATCATTACT-A-AA--TCATAACTATC
1 AAATCATTAATAATAATTTCATTACTATC
7721915 AAATCATTAA
1 AAATCATTAA
7721925 ATATTAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
24 7 0.13
25 9 0.17
26 2 0.04
27 1 0.02
28 14 0.27
29 19 0.37
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATCATTAATAATAATTTCATTACTATC
Found at i:7721968 original size:89 final size:89
Alignment explanation
Indices: 7721775--7721945 Score: 292
Period size: 89 Copynumber: 1.9 Consensus size: 89
7721765 TTAAATATTA
* * *
7721775 AAATCATT-ATTA-AATTTCATTATTACTAATAATTATTAAATCATTACTATCAAATCATTAAAT
1 AAATCATTAAATATAATTTCATTATTACTAATAATTACTAAATCATAACTATCAAATCATTAAAT
7721838 ATTAATAATAATTTCATTACTATC
66 ATTAATAATAATTTCATTACTATC
*
7721862 AAATCATTAAATATAATTTCATTATTACTAATCATTACTAAATCATAACTATCAAATCATTAAAT
1 AAATCATTAAATATAATTTCATTATTACTAATAATTACTAAATCATAACTATCAAATCATTAAAT
7721927 ATTAATAATAATTTCATTA
66 ATTAATAATAATTTCATTA
7721946 TTACTATTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 8 0.10
88 3 0.04
89 67 0.86
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (89 bp):
AAATCATTAAATATAATTTCATTATTACTAATAATTACTAAATCATAACTATCAAATCATTAAAT
ATTAATAATAATTTCATTACTATC
Found at i:7724551 original size:28 final size:28
Alignment explanation
Indices: 7724516--7724569 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
7724506 ATAATCTAAT
7724516 ATATAACTTAAACTAAAAAACTAATATA
1 ATATAACTTAAACTAAAAAACTAATATA
*
7724544 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAAAAAACTAATA
7724570 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (28 bp):
ATATAACTTAAACTAAAAAACTAATATA
Found at i:7724576 original size:28 final size:28
Alignment explanation
Indices: 7724512--7724576 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
7724502 TTATATAATC
7724512 TAATATATAACTTAAACTAAAAAACTAA
1 TAATATATAACTTAAACTAAAAAACTAA
*
7724540 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAAAAAACTAA
*
7724568 TAATTTATA
1 TAATATATA
7724577 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATATATAACTTAAACTAAAAAACTAA
Found at i:7724579 original size:21 final size:21
Alignment explanation
Indices: 7724546--7724594 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7724536 CTAATATAAT
7724546 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
7724567 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
7724588 ATTAACT
1 A-TAACT
7724595 AAATTTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:7725181 original size:29 final size:29
Alignment explanation
Indices: 7725149--7725219 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
7725139 GGCTGGGAGT
*
7725149 GCATGGCGACCTACAAGGTCACCCAGAGG
1 GCATGACGACCTACAAGGTCACCCAGAGG
*
7725178 GCATGACGACCTACAAGGTCACCCAGAGT
1 GCATGACGACCTACAAGGTCACCCAGAGG
7725207 GCATGACGACCTA
1 GCATGACGACCTA
7725220 TGCGTTGGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.30, C:0.31, G:0.27, T:0.13
Consensus pattern (29 bp):
GCATGACGACCTACAAGGTCACCCAGAGG
Found at i:7725766 original size:14 final size:13
Alignment explanation
Indices: 7725742--7725780 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
7725732 ATTTCTAAGT
7725742 AATAATTATAAAA
1 AATAATTATAAAA
7725755 AATAATTTATAAAA
1 AATAA-TTATAAAA
7725769 AAT--TTATAAAA
1 AATAATTATAAAA
7725780 A
1 A
7725781 TTAACAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.36
13 5 0.20
14 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATAATTATAAAA
Found at i:7729976 original size:21 final size:21
Alignment explanation
Indices: 7729950--7729990 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7729940 TTCCACTACA
*
7729950 CCCGCGACGACTGCAATCGCG
1 CCCGCGACGACCGCAATCGCG
7729971 CCCGCGACGACCGCAATCGC
1 CCCGCGACGACCGCAATCGC
7729991 AATAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.46, G:0.27, T:0.07
Consensus pattern (21 bp):
CCCGCGACGACCGCAATCGCG
Found at i:7730574 original size:91 final size:90
Alignment explanation
Indices: 7730463--7730627 Score: 226
Period size: 90 Copynumber: 1.8 Consensus size: 90
7730453 TTTTTCAAAG
* * * *
7730463 TGATGCACCAATCCATGCATCGATGCAC-CAATTAATTTTTC-AAACATCGAATGCATTTTATGC
1 TGATGCACAAAACCATGCATCAATGCACTC-A--AATTTTTCAAAACATCGAATGCATTTTATAC
7730526 ATCGATGCACTCAGAGCATTTGATGCAT
63 ATCGATGCACTCAGAGCATTTGATGCAT
* * *
7730554 TGATGCACAAAACCATGCATCAATGCGCTCAAGTTTTTCAAAACATCGAATGTATTTTATACATC
1 TGATGCACAAAACCATGCATCAATGCACTCAAATTTTTCAAAACATCGAATGCATTTTATACATC
7730619 GATGCACTC
66 GATGCACTC
7730628 TTAGAGCACC
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
89 7 0.11
90 32 0.49
91 25 0.38
92 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (90 bp):
TGATGCACAAAACCATGCATCAATGCACTCAAATTTTTCAAAACATCGAATGCATTTTATACATC
GATGCACTCAGAGCATTTGATGCAT
Found at i:7736399 original size:24 final size:25
Alignment explanation
Indices: 7736350--7736399 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
7736340 CGATACACTT
* *
7736350 AATAGTGCATCGATGCATCCTTTTG
1 AATAGTGCATCGATGCATCATGTTG
*
7736375 AATA-TGCATCGATTCATCATGTTG
1 AATAGTGCATCGATGCATCATGTTG
7736399 A
1 A
7736400 TGCACCGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (25 bp):
AATAGTGCATCGATGCATCATGTTG
Found at i:7736420 original size:44 final size:43
Alignment explanation
Indices: 7736372--7736454 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
7736362 ATGCATCCTT
* * *
7736372 TTGAATATGCATCGATTCATCATGTTGATGCACCGATGCACGCC
1 TTGAATATGCATCGATGCA-CATGGTCATGCACCGATGCACGCC
* * *
7736416 TTGAATGTGCATCTATGCACATGGTCATGCATCGATGCA
1 TTGAATATGCATCGATGCACATGGTCATGCACCGATGCA
7736455 TCCGTCGGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 17 0.52
44 16 0.48
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (43 bp):
TTGAATATGCATCGATGCACATGGTCATGCACCGATGCACGCC
Found at i:7740035 original size:33 final size:34
Alignment explanation
Indices: 7739971--7740037 Score: 118
Period size: 35 Copynumber: 2.0 Consensus size: 34
7739961 AAAGATTGCT
7739971 GAAAATGAATAGATCATGACATATCTAGTAGGAAA
1 GAAAATGAATAGATCATGACA-ATCTAGTAGGAAA
7740006 GAAAATGAATAGATCATGAC-ATCTAGTAGGAA
1 GAAAATGAATAGATCATGACAATCTAGTAGGAA
7740038 TGCAACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 12 0.38
35 20 0.62
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.22
Consensus pattern (34 bp):
GAAAATGAATAGATCATGACAATCTAGTAGGAAA
Found at i:7740475 original size:20 final size:20
Alignment explanation
Indices: 7740375--7740553 Score: 87
Period size: 20 Copynumber: 8.8 Consensus size: 20
7740365 AAATGACCAA
**
7740375 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACGCGATTTC
* * *
7740395 CAATTTTGCAACTC-AGTTTC
1 CAAATTCGCAACGCGA-TTTC
* *
7740415 CAAATTCGCAACGCGAATATG
1 CAAATTCGCAACGCG-ATTTC
* * **
7740436 TAAA-TCACATTGCGATTTTC
1 CAAATTCGCAACGCGA-TTTC
7740456 CAAATTCGCAACGCGATTTC
1 CAAATTCGCAACGCGATTTC
**
7740476 CAAATTCGCAATACTGAATTT-
1 CAAATTCGCAACGC-G-ATTTC
**
7740497 CAAATTCGCAATACTGAATTT-
1 CAAATTCGCAACGC-G-ATTTC
**
7740518 CAAATTCGCAATTCGATTTC
1 CAAATTCGCAACGCGATTTC
** *
7740538 TGAATTCGTAACGCGA
1 CAAATTCGCAACGCGA
7740554 ATTTTTGTTT
Statistics
Matches: 123, Mismatches: 28, Indels: 16
0.74 0.17 0.10
Matches are distributed among these distances:
19 6 0.05
20 64 0.52
21 48 0.39
22 5 0.04
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (20 bp):
CAAATTCGCAACGCGATTTC
Found at i:7740502 original size:21 final size:21
Alignment explanation
Indices: 7740471--7740529 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
7740461 TCGCAACGCG
7740471 ATTTCCAAATTCGCAATACTGA
1 ATTT-CAAATTCGCAATACTGA
7740493 ATTTCAAATTCGCAATACTGA
1 ATTTCAAATTCGCAATACTGA
7740514 ATTTCAAATTCGCAAT
1 ATTTCAAATTCGCAAT
7740530 TCGATTTCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 33 0.89
22 4 0.11
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (21 bp):
ATTTCAAATTCGCAATACTGA
Found at i:7740567 original size:41 final size:41
Alignment explanation
Indices: 7740522--7740599 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
7740512 GAATTTCAAA
* ** *
7740522 TTCGCAATTCGA-TTTCTGAATTCGTAACGCGAATTTTTGTT
1 TTCGCAACTCGATTTTC-GAATTCACAACACGAATTTTTGTT
7740563 TTCGCAACTCGATTTTCGAATTCACAACACGAATTTT
1 TTCGCAACTCGATTTTCGAATTCACAACACGAATTTT
7740600 AATTTCGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 28 0.88
42 4 0.12
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (41 bp):
TTCGCAACTCGATTTTCGAATTCACAACACGAATTTTTGTT
Found at i:7740786 original size:14 final size:15
Alignment explanation
Indices: 7740767--7740804 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
7740757 TCCCCATCTC
7740767 TAATTTTTTT-TACA
1 TAATTTTTTTATACA
*
7740781 TAATTTTATTTATATA
1 TAATTTT-TTTATACA
7740797 TAATTTTT
1 TAATTTTT
7740805 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTATACA
Found at i:7741641 original size:21 final size:22
Alignment explanation
Indices: 7741615--7741657 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
7741605 ATTCATATAA
7741615 CCCTGAAG-AAGAAAAAGAAGT
1 CCCTGAAGAAAGAAAAAGAAGT
7741636 CCCTGAAGAAAAGAAAAAGAAG
1 CCCTGAAG-AAAGAAAAAGAAG
7741658 AAAATGCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
23 12 0.60
ACGTcount: A:0.56, C:0.14, G:0.23, T:0.07
Consensus pattern (22 bp):
CCCTGAAGAAAGAAAAAGAAGT
Found at i:7743716 original size:18 final size:18
Alignment explanation
Indices: 7743693--7743728 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7743683 AAGCAAAAGG
7743693 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
7743711 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
7743729 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:7745487 original size:21 final size:21
Alignment explanation
Indices: 7745461--7745531 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
7745451 GTGAATCTGG
7745461 CTCTTGAACGGTGGGA-GGGAC
1 CTCTTGAACGGTGGGATGGG-C
* **
7745482 CTCTTGAACGATGAAATGGGC
1 CTCTTGAACGGTGGGATGGGC
*
7745503 CTCTTGAACGGTAGGATGGGC
1 CTCTTGAACGGTGGGATGGGC
7745524 CTCTTGAA
1 CTCTTGAA
7745532 AGATGATAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 39 0.93
22 3 0.07
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGATGGGC
Found at i:7745527 original size:42 final size:41
Alignment explanation
Indices: 7745461--7745579 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 41
7745451 GTGAATCTGG
*
7745461 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGAAATG-GGC
1 CTCTTGAACGGTAGGAGGG-CCTCTTGAACGATGAAA-GAGGC
* *
7745503 CTCTTGAACGGTAGGATGGGCCTCTTGAAAGATGATAGAGGC
1 CTCTTGAACGGTAGGA-GGGCCTCTTGAACGATGAAAGAGGC
* *
7745545 CTCTTGAATGATAGGAGAGGCCTCTTGAACGATGA
1 CTCTTGAACGGTAGGAG-GGCCTCTTGAACGATGA
7745580 CAGGTGAATT
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
41 2 0.03
42 63 0.93
43 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.24
Consensus pattern (41 bp):
CTCTTGAACGGTAGGAGGGCCTCTTGAACGATGAAAGAGGC
Found at i:7745545 original size:21 final size:22
Alignment explanation
Indices: 7745500--7745579 Score: 78
Period size: 21 Copynumber: 3.8 Consensus size: 22
7745490 CGATGAAATG
* *
7745500 GGCCTCTTGAACGGT-AGGATG-
1 GGCCTCTTGAAAGATGAGGA-GA
*
7745521 GGCCTCTTGAAAGATGA-TAGA
1 GGCCTCTTGAAAGATGAGGAGA
*
7745542 GGCCTCTTGAATGAT-AGGAGA
1 GGCCTCTTGAAAGATGAGGAGA
*
7745563 GGCCTCTTGAACGATGA
1 GGCCTCTTGAAAGATGA
7745580 CAGGTGAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 2 0.04
21 45 0.92
22 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (22 bp):
GGCCTCTTGAAAGATGAGGAGA
Found at i:7747672 original size:20 final size:20
Alignment explanation
Indices: 7747647--7747691 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
7747637 TGTTTTTTGG
7747647 TGCGATTTTCATTTTCGCGT
1 TGCGATTTTCATTTTCGCGT
*
7747667 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
7747687 TGCGA
1 TGCGA
7747692 ATTTAAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:7747702 original size:20 final size:20
Alignment explanation
Indices: 7747659--7747702 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
7747649 CGATTTTCAT
* * *
7747659 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGAATTTAAG
*
7747679 TTTCGTGTTGCGAATTTAAG
1 TTTCGCGTTGCGAATTTAAG
7747699 TTTC
1 TTTC
7747703 AAATAGTCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTAAG
Found at i:7748060 original size:22 final size:22
Alignment explanation
Indices: 7748030--7748087 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
7748020 GATGGAGATA
7748030 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
7748052 GATGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
7748074 GACGGATGTCGCCG
1 GACGGATTTCGCCG
7748088 TATAAAGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.45, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:7748146 original size:20 final size:20
Alignment explanation
Indices: 7748121--7748166 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7748111 GACTGAGTTG
*
7748121 TGATTTAGGGTTTTAGGTTA
1 TGATTTAGGGTTTCAGGTTA
7748141 TGATTTAGGGTTTCAGGTTA
1 TGATTTAGGGTTTCAGGTTA
7748161 TGATTT
1 TGATTT
7748167 GCGATTATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (20 bp):
TGATTTAGGGTTTCAGGTTA
Found at i:7748233 original size:19 final size:20
Alignment explanation
Indices: 7748211--7748248 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7748201 AATATTGTGT
7748211 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
7748230 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
7748249 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:7748283 original size:20 final size:20
Alignment explanation
Indices: 7748255--7748306 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
7748245 TAAACGCGCT
7748255 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
* *
7748275 TTGCAAATTTGACTTCTGTG
1 TTGCGAATTTGACTTATGTG
7748295 TTGCGAATTTGA
1 TTGCGAATTTGA
7748307 AAATCTTTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:7748338 original size:20 final size:20
Alignment explanation
Indices: 7748294--7748353 Score: 88
Period size: 18 Copynumber: 3.0 Consensus size: 20
7748284 TGACTTCTGT
7748294 GTTGCGAATTTGAAAAT--C
1 GTTGCGAATTTGAAAATCGC
*
7748312 TTTGCGAATTTGAAAATCGC
1 GTTGCGAATTTGAAAATCGC
7748332 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAATTT-GAAAATCGC
7748353 G
1 G
7748354 ACACGAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 16 0.43
20 11 0.30
21 10 0.27
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGC
Found at i:7748349 original size:21 final size:21
Alignment explanation
Indices: 7748294--7748442 Score: 96
Period size: 20 Copynumber: 7.4 Consensus size: 21
7748284 TGACTTCTGT
7748294 GTTGCGAATTT-GAAAAT--C
1 GTTGCGAATTTGGAAAATCGC
*
7748312 TTTGCGAATTT-GAAAATCGC
1 GTTGCGAATTTGGAAAATCGC
7748332 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAATTTGGAAAATCGC
*** *
7748353 GACACGAATTCGGAAAATCGC
1 GTTGCGAATTTGGAAAATCGC
** ** * * *
7748374 AATGCG-ATTTACATATTTGC
1 GTTGCGAATTTGGAAAATCGC
* *
7748394 GTTGCGAATTTGGAAACT-GA
1 GTTGCGAATTTGGAAAATCGC
* **
7748414 GTTGCGAAATTGG-AGTTCGC
1 GTTGCGAATTTGGAAAATCGC
7748434 GTTGCGAAT
1 GTTGCGAAT
7748443 GTGTTGGTCA
Statistics
Matches: 99, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
18 16 0.16
19 2 0.02
20 45 0.45
21 36 0.36
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (21 bp):
GTTGCGAATTTGGAAAATCGC
Found at i:7751180 original size:11 final size:11
Alignment explanation
Indices: 7751164--7751193 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
7751154 AGACCGCCGC
7751164 TGCCCTCCTCA
1 TGCCCTCCTCA
7751175 TGCCCTCCTCA
1 TGCCCTCCTCA
7751186 TGCCCTCC
1 TGCCCTCC
7751194 CGCGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.07, C:0.57, G:0.10, T:0.27
Consensus pattern (11 bp):
TGCCCTCCTCA
Found at i:7751844 original size:21 final size:21
Alignment explanation
Indices: 7751820--7751870 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
7751810 CGTTAAAATG
7751820 TTGATGTGGT-ATTTCA-TATTA
1 TTGATGTGGTGATTT-ATTA-TA
* *
7751841 TTGATATGATGATTTATTATA
1 TTGATGTGGTGATTTATTATA
7751862 TTGATGTGG
1 TTGATGTGG
7751871 CAATTCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.25, C:0.02, G:0.22, T:0.51
Consensus pattern (21 bp):
TTGATGTGGTGATTTATTATA
Found at i:7759198 original size:14 final size:14
Alignment explanation
Indices: 7759181--7759232 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
7759171 TTTATAACCC
*
7759181 TAAATTCTAAAATT
1 TAAATTATAAAATT
*
7759195 TAAATTAT-AAATA
1 TAAATTATAAAATT
*
7759208 TAAA-TATTAAAATC
1 TAAATTA-TAAAATT
7759222 TAAATTATAAA
1 TAAATTATAAA
7759233 TTTGAATCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 2 0.06
13 9 0.28
14 19 0.59
15 2 0.06
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATTATAAAATT
Found at i:7759245 original size:27 final size:27
Alignment explanation
Indices: 7759181--7759252 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
7759171 TTTATAACCC
* *
7759181 TAAATTCTAAAATTTAAATTATAAATA
1 TAAATACTAAAATCTAAATTATAAATA
* *
7759208 TAAATATTAAAATCTAAATTATAAATT
1 TAAATACTAAAATCTAAATTATAAATA
* * *
7759235 TGAATCCTAAAACCTAAA
1 TAAATACTAAAATCTAAA
7759253 CTTCCTTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.36
Consensus pattern (27 bp):
TAAATACTAAAATCTAAATTATAAATA
Found at i:7764435 original size:27 final size:27
Alignment explanation
Indices: 7764405--7764470 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
7764395 TTTATAACCC
*
7764405 TAAATTCTAAAATTTAAATTATAAATA
1 TAAATTCTAAAATCTAAATTATAAATA
* *
7764432 TAAATAT-TAAAATCTAGATTATAAATT
1 TAAAT-TCTAAAATCTAAATTATAAATA
*
7764459 TAAATCCTAAAA
1 TAAATTCTAAAA
7764471 CATAAACTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAATTCTAAAATCTAAATTATAAATA
Found at i:7780576 original size:3 final size:3
Alignment explanation
Indices: 7780568--7780645 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
7780558 TCATTGAAGG
7780568 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
7780616 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
7780646 TACTATCAAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:7788155 original size:16 final size:16
Alignment explanation
Indices: 7788100--7788155 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 16
7788090 TATATATATA
*
7788100 TATATTTAATAATAA-
1 TATAATTAATAATAAT
7788115 -ATAA-TAATAATAATT
1 TATAATTAATAATAA-T
7788130 TATTATATTAATAATAAT
1 TA-TA-ATTAATAATAAT
7788148 TATAATTA
1 TATAATTA
7788156 TTATTATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.26
14 3 0.09
16 5 0.15
17 4 0.12
18 4 0.12
19 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAATTAATAATAAT
Found at i:7788157 original size:19 final size:19
Alignment explanation
Indices: 7788119--7788158 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7788109 TAATAAATAA
*
7788119 TAATAATAATTTATTATAT
1 TAATAATAATTTAATATAT
7788138 TAATAATAATTATAAT-TAT
1 TAATAATAATT-TAATATAT
7788157 TA
1 TA
7788159 TTATGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAATAATTTAATATAT
Found at i:7788434 original size:76 final size:76
Alignment explanation
Indices: 7788282--7789301 Score: 1706
Period size: 76 Copynumber: 13.5 Consensus size: 76
7788272 GATGAAAATG
* * * * *
7788282 TTTGAAAACATCATGCGCTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-CTTTGAAAACATCAAAAAGC
7788347 TCCCGAAGGCTT
65 TCCCGAAGGCTT
* * *
7788359 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAAGCTTTGAAAACATCAAAAAACT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
7788424 CCCGAAGGCTT
66 CCCGAAGGCTT
* **
7788435 TTTGGAAACATCATGCATTGTAGGACTTACAGATGACCTTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
7788500 CCCGAAGGCTT
66 CCCGAAGGCTT
* * * *
7788511 TTTGGAAACATCATGCACTGCAAGACTTACAAATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
7788576 CTCGAAGGCTT
66 CCCGAAGGCTT
7788587 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
7788651 CCCGAAGGCTT
66 CCCGAAGGCTT
*
7788662 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCA
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
7788727 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
7788738 TTTGGAAGCATCGTGCACTGTAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
7788802 CCCGAAGGCTT
66 CCCGAAGGCTT
7788813 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
7788878 CTCGAAGGCTT
66 CCCGAAGGCTT
* * *
7788889 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACACTAAGGCTTTGAAAACATCAAAATGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
7788954 CCCGAAGGCTT
66 CCCGAAGGCTT
* * *
7788965 TTTGGAAACATCATGTACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
7789030 CCCGATGGCTT
66 CCCGAAGGCTT
7789041 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
* **
7789105 CCCTAAAACTT
66 CCCGAAGGCTT
*
7789116 TTTGGAAACATCATGCGCTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
7789181 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
7789192 TTTGGAAACATCATGCACTATAGGACTTACAGATGACCCTAAGGCTTTGAAAA-ATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
7789256 CCCGAAGGCTT
66 CCCGAAGGCTT
7789267 TTTGGAAACATCATGCACTGTAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATG
7789302 TAGAAAATAG
Statistics
Matches: 886, Mismatches: 54, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
75 272 0.31
76 576 0.65
77 38 0.04
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:7788698 original size:151 final size:151
Alignment explanation
Indices: 7788282--7789301 Score: 1691
Period size: 151 Copynumber: 6.7 Consensus size: 151
7788272 GATGAAAATG
* * * * *
7788282 TTTGAAAACATCATGCGCTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG--CTTGAAAACATCAAAAAGC
* *
7788347 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAAGCTTTGAAAA
64 TCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAA
*
7788412 CATCAAAAAACTCCCGAAGGCTT
129 CATCAAAAAGCTCCCGAAGGCTT
* **
7788435 TTTGGAAACATCATGCATTGTAGGACTTACAGATGACCTTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCT
* * * *
7788500 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTACAAATGACCCTAAGGCTTTGAAAAC
65 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
*
7788565 ATCAAAAAGCTCTCGAAGGCTT
130 ATCAAAAAGCTCCCGAAGGCTT
7788587 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTC
7788652 CCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
*
7788717 TCAAAAAGCACCCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
* *
7788738 TTTGGAAGCATCGTGCACTGTAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTC
7788803 CCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
*
7788868 TCAAAAAGCTCTCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
* * *
7788889 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACACTAAGGCTTTGAAAACATCAAAATGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCT
* * *
7788954 CCCGAAGGCTTTTTGGAAACATCATGTACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
65 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
*
7789019 ATCAAAAAGCTCCCGATGGCTT
130 ATCAAAAAGCTCCCGAAGGCTT
7789041 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTC
* ** *
7789106 CCTAAAACTTTTTGGAAACATCATGCGCTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
7789171 TCAAAAAGCTCCCGAAGGCTT
131 TCAAAAAGCTCCCGAAGGCTT
* *
7789192 TTTGGAAACATCATGCACTATAGGACTTACAGATGACCCTAAGGCTTTGAAAA-ATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCT
7789256 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
65 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
7789302 TAGAAAATAG
Statistics
Matches: 810, Mismatches: 54, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
151 481 0.59
152 292 0.36
153 37 0.05
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (151 bp):
TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTC
CCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
TCAAAAAGCTCCCGAAGGCTT
Found at i:7789176 original size:454 final size:454
Alignment explanation
Indices: 7788282--7789301 Score: 1758
Period size: 454 Copynumber: 2.2 Consensus size: 454
7788272 GATGAAAATG
* * * *
7788282 TTTGAAAACATCATGCGCTGA-AGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAG
1 TTTGGAAACATCATGCACT-ATAGGACTTACAGATGACCCGAAGG--CTTGAAAACATCAAAAAG
*
7788346 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAAGCTTTGAAA
63 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAAGCTTTGAAA
*
7788411 ACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCATTGTAGGACTTACAGATGACCTTA
128 ACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCTTA
7788476 AGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTAC
193 AGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTAC
*
7788541 AAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCTTTTTGGAAACATCATGCACT
258 AAATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACT
**
7788606 GTAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
323 GTAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTCCCGAAAACTTTTTGGAAAC
7788671 ATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCACCCGAAGGC
388 ATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCACCCGAAGGC
7788736 TT
453 TT
* * *
7788738 TTTGGAAGCATCGTGCACTGTAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTC
1 TTTGGAAACATCATGCACTATAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTC
*
7788803 CCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAAGCTTTGAAAACA
* *
7788868 TCAAAAAGCTCTCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACAC-TAAG
131 TCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGAC-CTTAAG
* * * *
7788932 GCTTTGAAAACATCAAAATGCTCCCGAAGGCTTTTTGGAAACATCATGTACTGCAGGACTTACAG
195 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTACAA
*
7788997 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGATGGCTTTTTGGAAACATCATGCACTGT
260 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
*
7789062 AGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTCCCTAAAACTTTTTGGAAACAT
325 AGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTCCCGAAAACTTTTTGGAAACAT
* *
7789127 CATGCGCTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
390 CATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCACCCGAAGGCTT
*
7789192 TTTGGAAACATCATGCACTATAGGACTTACAGATGACCCTAAGGCTTTGAAAA-ATCAAAAAGCT
1 TTTGGAAACATCATGCACTATAGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCT
7789256 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
65 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
7789302 TAGAAAATAG
Statistics
Matches: 534, Mismatches: 27, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
454 489 0.92
455 8 0.01
456 37 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (454 bp):
TTTGGAAACATCATGCACTATAGGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTC
CCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAAGCTTTGAAAACA
TCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCTTAAGG
CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTACAAA
TGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTA
GGACTTACAGATGACCCGAAGGCTTGAAAACATCAAAAAGCTCCCGAAAACTTTTTGGAAACATC
ATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCACCCGAAGGCTT
Found at i:7789562 original size:185 final size:183
Alignment explanation
Indices: 7789245--7789610 Score: 635
Period size: 185 Copynumber: 2.0 Consensus size: 183
7789235 GCTTTGAAAA
*
7789245 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGTAGAAAAT
1 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTAGAAAAT
7789310 AGTTTAATAAGTAAAAACAACTAAGGAAATCATTTTCTTACTTTTCAACAATTTCATTTTTGAAA
66 AGTTTAATAAGTAAAAACAACTAAGGAAATCATTTTCTTACTTTTCAACAATTTCATTTTTGAAA
7789375 AGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACAAC
131 AGATAAAATGAGAAACTATGGAAATCG-TTT-TCATTATTTTTCAAAATAACAAC
* *
7789430 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGAAAT
1 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTAGAAAAT
* *
7789495 AGTTTACTAAGTAAAAA-AACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAGAA
66 AGTTTAATAAGTAAAAACAACTAAGGAAATCATTTTCTTACTTTTCAACAATTTCATTTTT-GAA
**
7789559 AAGATTGAATGAGAAACTATGGAAATCGTTTTCATTATTTTTCAAAATAACA
130 AAGATAAAATGAGAAACTATGGAAATCGTTTTCATTATTTTTCAAAATAACA
7789611 TGTTGATTGG
Statistics
Matches: 173, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
183 21 0.12
184 45 0.26
185 107 0.62
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (183 bp):
ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTAGAAAAT
AGTTTAATAAGTAAAAACAACTAAGGAAATCATTTTCTTACTTTTCAACAATTTCATTTTTGAAA
AGATAAAATGAGAAACTATGGAAATCGTTTTCATTATTTTTCAAAATAACAAC
Done.