Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_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: 6915314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 30
Found at i:5809971 original size:29 final size:29
Alignment explanation
Indices: 5809833--5809973 Score: 71
Period size: 29 Copynumber: 5.1 Consensus size: 29
5809823 ACCAATATAG
*
5809833 CACCATTTTCAAAATATTTACTAAAATGT
1 CACCATTTTCAAAATAATTACTAAAATGT
*** **
5809862 CATTTTTTTC-AAA-AATTACGGAAA--T
1 CACCATTTTCAAAATAATTACTAAAATGT
* ** *
5809887 -AACATTTTTTAAA-AATTACAAAAATAG-
1 CACCATTTTCAAAATAATTACTAAAAT-GT
* ** * * * *
5809914 CACCCTTTTTGAATTAATTCCCAATATGT
1 CACCATTTTCAAAATAATTACTAAAATGT
5809943 CACCATTTTCAAAATAATTACTAAAATGT
1 CACCATTTTCAAAATAATTACTAAAATGT
5809972 CA
1 CA
5809974 ATCGGTCAAC
Statistics
Matches: 79, Mismatches: 26, Indels: 14
0.66 0.22 0.12
Matches are distributed among these distances:
24 5 0.06
25 13 0.16
27 8 0.10
28 13 0.16
29 40 0.51
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (29 bp):
CACCATTTTCAAAATAATTACTAAAATGT
Found at i:5809988 original size:7 final size:7
Alignment explanation
Indices: 5809970--5809999 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
5809960 TTACTAAAAT
5809970 GTCAATCG
1 GTCAA-CG
5809978 GTCAACG
1 GTCAACG
5809985 GTCAACG
1 GTCAACG
5809992 GTCAACG
1 GTCAACG
5809999 G
1 G
5810000 GGTTGGGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:5810027 original size:18 final size:18
Alignment explanation
Indices: 5810004--5810057 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
5809994 CAACGGGGTT
*
5810004 GGGTCAACGGGTCATGTC
1 GGGTCAACGGGTCAGGTC
*
5810022 GGGTCAACGGGTCGGGTC
1 GGGTCAACGGGTCAGGTC
* *
5810040 GGGTCAACAGGTCGGGTC
1 GGGTCAACGGGTCAGGTC
5810058 AAAACCGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.15, C:0.22, G:0.44, T:0.19
Consensus pattern (18 bp):
GGGTCAACGGGTCAGGTC
Found at i:5817252 original size:27 final size:26
Alignment explanation
Indices: 5817210--5817284 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 26
5817200 TATAGCACCA
* **
5817210 TTTTCAAAATATTTACTAAAATGTCATTT
1 TTTTCAAAA-A-TTACAAAAATAACA-TT
*
5817239 TTTTCAAAAATTACGAAAATAACATT
1 TTTTCAAAAATTACAAAAATAACATT
5817265 TTTT-AAAAATTACAAAAATA
1 TTTTCAAAAATTACAAAAATA
5817285 GCACCCTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.36
26 6 0.14
27 11 0.26
28 1 0.02
29 9 0.21
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (26 bp):
TTTTCAAAAATTACAAAAATAACATT
Found at i:5817294 original size:26 final size:26
Alignment explanation
Indices: 5817239--5817294 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
5817229 AATGTCATTT
* *
5817239 TTTTCAAAAATTACGAAAATAACA-T
1 TTTTCAAAAATTACAAAAATAACACC
* *
5817264 TTTTTAAAAATTACAAAAATAGCACCC
1 TTTTCAAAAATTACAAAAATAACA-CC
5817291 TTTT
1 TTTT
5817295 TGAATTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 21 0.84
27 4 0.16
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (26 bp):
TTTTCAAAAATTACAAAAATAACACC
Found at i:5817294 original size:27 final size:27
Alignment explanation
Indices: 5817140--5817295 Score: 90
Period size: 29 Copynumber: 5.7 Consensus size: 27
5817130 AAAGTGGTCA
** *
5817140 ACGAAAATAGCA-TTTTTTTCAAAATT
1 ACGAAAATAGCACCATTTTTAAAAATT
* *
5817166 ACGAAAATAGCTCCATTTTAAAATTAATT
1 ACGAAAATAGCACCATTTTTAAA--AATT
* * *
5817195 ACCAATATAGCACCATTTTCAAAATATTT
1 ACGAAAATAGCACCATTTTTAAAA-A-TT
* **
5817224 ACTAAAAT-GTCA-TTTTTTTCAAAAATT
1 ACGAAAATAG-CACCATTTTT-AAAAATT
5817251 ACGAAAATA--A-CATTTTTTAAAAATT
1 ACGAAAATAGCACCA-TTTTTAAAAATT
* *
5817276 ACAAAAATAGCACCCTTTTT
1 ACGAAAATAGCACCATTTTT
5817296 GAATTAATTC
Statistics
Matches: 99, Mismatches: 19, Indels: 23
0.70 0.13 0.16
Matches are distributed among these distances:
25 16 0.16
26 16 0.16
27 22 0.22
28 8 0.08
29 37 0.37
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (27 bp):
ACGAAAATAGCACCATTTTTAAAAATT
Found at i:5817336 original size:110 final size:111
Alignment explanation
Indices: 5817140--5817345 Score: 308
Period size: 110 Copynumber: 1.9 Consensus size: 111
5817130 AAAGTGGTCA
* * * *
5817140 ACGAAAATAGCATTTTTTTCAAAATTACGAAAATAGCTCCATTTTAAAATTAATTACCAATATAG
1 ACGAAAATAACATTTTTTTAAAAATTACAAAAATAGCACCATTTTAAAATTAATTACCAATATAG
*
5817205 CACCATTTTCAAAATATTTACTAAAATGTCATTTTTTTCAAAAATT
66 CACCATTTTCAAAATAATTACTAAAATGTCATTTTTTTCAAAAATT
* ** *
5817251 ACGAAAATAACA-TTTTTTAAAAATTACAAAAATAGCACCCTTTTTGAATTAATTCCCAATAT-G
1 ACGAAAATAACATTTTTTTAAAAATTACAAAAATAGCACCATTTTAAAATTAATTACCAATATAG
5817314 TCACCATTTTCAAAATAATTACTAAAATGTCA
66 -CACCATTTTCAAAATAATTACTAAAATGTCA
5817346 CTCGGTCAAC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
109 1 0.01
110 73 0.86
111 11 0.13
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (111 bp):
ACGAAAATAACATTTTTTTAAAAATTACAAAAATAGCACCATTTTAAAATTAATTACCAATATAG
CACCATTTTCAAAATAATTACTAAAATGTCATTTTTTTCAAAAATT
Found at i:5817343 original size:29 final size:29
Alignment explanation
Indices: 5817178--5817346 Score: 86
Period size: 29 Copynumber: 6.0 Consensus size: 29
5817168 GAAAATAGCT
*
5817178 CCATTTT-AAAATTAATTACCAATATAG-CA
1 CCATTTTCAAAA-TAATTACCAAAAT-GTCA
* *
5817207 CCATTTTCAAAATATTTACTAAAATGTCA
1 CCATTTTCAAAATAATTACCAAAATGTCA
*** *
5817236 TTTTTTTC-AAA-AATTACGAAAA--T-A
1 CCATTTTCAAAATAATTACCAAAATGTCA
* ** *
5817260 ACATTTTTTAAA-AATTACAAAAATAG-CA
1 CCATTTTCAAAATAATTACCAAAAT-GTCA
* ** * * *
5817288 CCCTTTTTGAATTAATTCCCAATATGTCA
1 CCATTTTCAAAATAATTACCAAAATGTCA
*
5817317 CCATTTTCAAAATAATTACTAAAATGTCA
1 CCATTTTCAAAATAATTACCAAAATGTCA
5817346 C
1 C
5817347 TCGGTCAACG
Statistics
Matches: 104, Mismatches: 27, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
24 5 0.05
25 14 0.13
27 9 0.09
28 14 0.13
29 58 0.56
30 4 0.04
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.37
Consensus pattern (29 bp):
CCATTTTCAAAATAATTACCAAAATGTCA
Found at i:5819991 original size:18 final size:18
Alignment explanation
Indices: 5819968--5820013 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
5819958 ACCGATCATA
*
5819968 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
*
5819986 ACCCGACCCGACCTGTTG
1 ACCCGACCCGACCCGTTG
5820004 ACCCGACCCG
1 ACCCGACCCG
5820014 TTGACCGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.50, G:0.20, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:5820006 original size:13 final size:13
Alignment explanation
Indices: 5819990--5820019 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5819980 CCGTTTACCC
*
5819990 GACCCGACCTGTT
1 GACCCGACCCGTT
5820003 GACCCGACCCGTT
1 GACCCGACCCGTT
5820016 GACC
1 GACC
5820020 GTTGACCGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:5822546 original size:24 final size:25
Alignment explanation
Indices: 5822488--5822546 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
5822478 TTATTTTATC
5822488 TGATTTCTGA-CTTGAATTCTGTTA
1 TGATTTCTGATCTTGAATTCTGTTA
* *
5822512 TGA-TACATGATC-TGAATTCTGTTT
1 TGATTTC-TGATCTTGAATTCTGTTA
5822536 TGATTTCTGAT
1 TGATTTCTGAT
5822547 ATCTCCGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 2 0.07
24 24 0.83
25 3 0.10
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (25 bp):
TGATTTCTGATCTTGAATTCTGTTA
Found at i:5826628 original size:2 final size:2
Alignment explanation
Indices: 5826621--5826645 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5826611 CCTCCCTTCA
5826621 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5826646 ATTATAAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5828656 original size:26 final size:26
Alignment explanation
Indices: 5828620--5828768 Score: 95
Period size: 29 Copynumber: 5.5 Consensus size: 26
5828610 AAAGTGGTCA
5828620 ACGAAAATAGCATTTTTTTCAAAATT
1 ACGAAAATAGCATTTTTTTCAAAATT
* **
5828646 ACGAAAATAGC-TCCATTTTAAAATTAATT
1 ACGAAAATAGCAT--TTTTTTCAA--AATT
* * ***
5828675 ACCAATATAGCACCATTTTCAAAATATTT
1 ACGAAAATAGCATTTTTTTC-AAA-A-TT
*
5828704 ACTAAAAT-GTCATTTTTTTCAAAAATT
1 ACGAAAATAG-CATTTTTTTC-AAAATT
* *
5828731 ACGAAAATAACATTTTTTTAAAAATT
1 ACGAAAATAGCATTTTTTTCAAAATT
*
5828757 ACAAAAATAGCA
1 ACGAAAATAGCA
5828769 CCCTTTTTGA
Statistics
Matches: 93, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
25 1 0.01
26 27 0.29
27 25 0.27
28 6 0.06
29 34 0.37
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (26 bp):
ACGAAAATAGCATTTTTTTCAAAATT
Found at i:5828732 original size:27 final size:27
Alignment explanation
Indices: 5828690--5828765 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
5828680 TATAGCACCA
* **
5828690 TTTTCAAAATATTTACTAAAATGTCATTT
1 TTTTCAAAA-A-TTACAAAAATAACATTT
*
5828719 TTTTCAAAAATTACGAAAATAACATTT
1 TTTTCAAAAATTACAAAAATAACATTT
5828746 TTTT-AAAAATTACAAAAATA
1 TTTTCAAAAATTACAAAAATA
5828766 GCACCCTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.35
27 18 0.42
28 1 0.02
29 9 0.21
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (27 bp):
TTTTCAAAAATTACAAAAATAACATTT
Found at i:5828775 original size:26 final size:27
Alignment explanation
Indices: 5828719--5828775 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
5828709 AATGTCATTT
* **
5828719 TTTTCAAAAATTACGAAAATAACA-TT
1 TTTTCAAAAATTACAAAAATAACACCC
* *
5828745 TTTTTAAAAATTACAAAAATAGCACCC
1 TTTTCAAAAATTACAAAAATAACACCC
5828772 TTTT
1 TTTT
5828776 TGAATTAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.37
Consensus pattern (27 bp):
TTTTCAAAAATTACAAAAATAACACCC
Found at i:5828817 original size:111 final size:111
Alignment explanation
Indices: 5828620--5828826 Score: 317
Period size: 111 Copynumber: 1.9 Consensus size: 111
5828610 AAAGTGGTCA
* * * *
5828620 ACGAAAATAGCATTTTTTTCAAAATTACGAAAATAGCTCCATTTTAAAATTAATTACCAATATAG
1 ACGAAAATAACATTTTTTTAAAAATTACAAAAATAGCACCATTTTAAAATTAATTACCAATATAG
*
5828685 CACCATTTTCAAAATATTTACTAAAATGTCATTTTTTTCAAAAATT
66 CACCATTTTCAAAATAATTACTAAAATGTCATTTTTTTCAAAAATT
* ** *
5828731 ACGAAAATAACATTTTTTTAAAAATTACAAAAATAGCACCCTTTTTGAATTAATTCCCAATAT-G
1 ACGAAAATAACATTTTTTTAAAAATTACAAAAATAGCACCATTTTAAAATTAATTACCAATATAG
5828795 TCACCATTTTCAAAATAATTACTAAAATGTCA
66 -CACCATTTTCAAAATAATTACTAAAATGTCA
5828827 CTCGGTCAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
110 1 0.01
111 85 0.99
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.36
Consensus pattern (111 bp):
ACGAAAATAACATTTTTTTAAAAATTACAAAAATAGCACCATTTTAAAATTAATTACCAATATAG
CACCATTTTCAAAATAATTACTAAAATGTCATTTTTTTCAAAAATT
Found at i:5828824 original size:29 final size:29
Alignment explanation
Indices: 5828658--5828827 Score: 79
Period size: 29 Copynumber: 6.0 Consensus size: 29
5828648 GAAAATAGCT
*
5828658 CCATTTT-AAAATTAATTACCAATATAG-CA
1 CCATTTTCAAAA-TAATTACCAAAAT-GTCA
* *
5828687 CCATTTTCAAAATATTTACTAAAATGTCA
1 CCATTTTCAAAATAATTACCAAAATGTCA
*** *
5828716 TTTTTTTC-AAA-AATTACGAAAA--T-A
1 CCATTTTCAAAATAATTACCAAAATGTCA
* ** *
5828740 ACATTTTTTTAAA-AATTACAAAAATAG-CA
1 CCA-TTTTCAAAATAATTACCAAAAT-GTCA
* ** * * *
5828769 CCCTTTTTGAATTAATTCCCAATATGTCA
1 CCATTTTCAAAATAATTACCAAAATGTCA
*
5828798 CCATTTTCAAAATAATTACTAAAATGTCA
1 CCATTTTCAAAATAATTACCAAAATGTCA
5828827 C
1 C
5828828 TCGGTCAACG
Statistics
Matches: 104, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
24 1 0.01
25 5 0.05
26 13 0.12
27 9 0.09
28 12 0.12
29 60 0.58
30 4 0.04
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.37
Consensus pattern (29 bp):
CCATTTTCAAAATAATTACCAAAATGTCA
Found at i:5828906 original size:18 final size:18
Alignment explanation
Indices: 5828852--5828910 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
5828842 ACGGTCAACG
*
5828852 GGGTTGGGTCAACGAGTC
1 GGGTCGGGTCAACGAGTC
**
5828870 ATGTCGGGTCAACGAGTC
1 GGGTCGGGTCAACGAGTC
5828888 GGGTCGGGTCAAC-AGGTC
1 GGGTCGGGTCAACGA-GTC
5828906 GGGTC
1 GGGTC
5828911 AAAACCGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 1 0.03
18 34 0.97
ACGTcount: A:0.17, C:0.20, G:0.42, T:0.20
Consensus pattern (18 bp):
GGGTCGGGTCAACGAGTC
Found at i:5836045 original size:26 final size:25
Alignment explanation
Indices: 5836001--5836052 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
5835991 AAAGTGGTCA
***
5836001 ACGAAAATAGCATTTTTTTCAAAATT
1 ACGAAAATAGCACCATTTT-AAAATT
5836027 ACGAAAATAGCACCATTTTAAAATT
1 ACGAAAATAGCACCATTTTAAAATT
5836052 A
1 A
5836053 ATTACCAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (25 bp):
ACGAAAATAGCACCATTTTAAAATT
Found at i:5836120 original size:29 final size:29
Alignment explanation
Indices: 5836088--5836146 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
5836078 CATATTTACT
* *
5836088 AAAATGTCATTTTTTTCAAAATTACAAAAA
1 AAAATATCA-TTTTTTAAAAATTACAAAAA
*
5836118 AAAATATTATTTTTTAAAAATTACAAAAA
1 AAAATATCATTTTTTAAAAATTACAAAAA
5836147 TAGCACCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATATCATTTTTTAAAAATTACAAAAA
Found at i:5838849 original size:13 final size:13
Alignment explanation
Indices: 5838831--5838860 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
5838821 ATCATAACCC
5838831 GACCCGACCCGTT
1 GACCCGACCCGTT
5838844 GACCCGACCCGTT
1 GACCCGACCCGTT
5838857 GACC
1 GACC
5838861 GTTGACCGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:5841386 original size:24 final size:25
Alignment explanation
Indices: 5841328--5841386 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
5841318 TTATTTTATC
5841328 TGATTTCTGA-CTTGAATTCTGTTA
1 TGATTTCTGATCTTGAATTCTGTTA
* *
5841352 TGA-TACATGATC-TGAATTCTGTTT
1 TGATTTC-TGATCTTGAATTCTGTTA
5841376 TGATTTCTGAT
1 TGATTTCTGAT
5841387 ATCTCCGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 2 0.07
24 24 0.83
25 3 0.10
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (25 bp):
TGATTTCTGATCTTGAATTCTGTTA
Found at i:5841553 original size:2 final size:2
Alignment explanation
Indices: 5841546--5841570 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5841536 GGGATGGGGG
5841546 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
5841571 GTTTTAAAAG
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:5844474 original size:2 final size:2
Alignment explanation
Indices: 5844467--5844507 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5844457 CCTCCCATCA
5844467 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5844508 AAAAACTGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5846494 original size:2 final size:2
Alignment explanation
Indices: 5846487--5846515 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5846477 CCTCCTCCCT
5846487 TA TA 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 TA TA T
5846516 TAAAAAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5856537 original size:2 final size:2
Alignment explanation
Indices: 5856530--5856603 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
5856520 CCTCCCTTTA
5856530 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
5856572 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
5856604 GTGAAATGAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5866246 original size:2 final size:2
Alignment explanation
Indices: 5866239--5866263 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5866229 CCTCCCTTCA
5866239 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5866264 AAATTAAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5870140 original size:2 final size:2
Alignment explanation
Indices: 5870133--5870163 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5870123 CCTCCCTTTA
5870133 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5870164 ATTAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5885035 original size:2 final size:2
Alignment explanation
Indices: 5885028--5885052 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5885018 GCTAGTAAAA
5885028 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5885053 CTGCATGATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5889333 original size:24 final size:24
Alignment explanation
Indices: 5889286--5889395 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 24
5889276 AAACATAATT
* * * *
5889286 CAGGTCAAGTAGCAGATCAGAATC
1 CAGGTCAAGTATCATATAAAAATC
5889310 CAGGTCAAGTATCATATAAAAATCGTC
1 CAGGTCAAGTATCATATAAAAA---TC
*
5889337 CAGGTCAAGTATCGTATAAAAATCATC
1 CAGGTCAAGTATCATAT-AAAA--ATC
*
5889364 CAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATAAAAATC
5889388 CAGGTCAA
1 CAGGTCAA
5889396 AAACCAGATA
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
24 29 0.40
26 3 0.04
27 36 0.49
28 4 0.05
30 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (24 bp):
CAGGTCAAGTATCATATAAAAATC
Found at i:5889344 original size:27 final size:27
Alignment explanation
Indices: 5889307--5889387 Score: 135
Period size: 27 Copynumber: 3.0 Consensus size: 27
5889297 GCAGATCAGA
5889307 ATCCAGGTCAAGTATCATATAAAAATC
1 ATCCAGGTCAAGTATCATATAAAAATC
* *
5889334 GTCCAGGTCAAGTATCGTATAAAAATC
1 ATCCAGGTCAAGTATCATATAAAAATC
*
5889361 ATCCAGGTCAAGTATCATATCAAAATC
1 ATCCAGGTCAAGTATCATATAAAAATC
5889388 CAGGTCAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.26
Consensus pattern (27 bp):
ATCCAGGTCAAGTATCATATAAAAATC
Found at i:5890133 original size:29 final size:29
Alignment explanation
Indices: 5890101--5890257 Score: 180
Period size: 29 Copynumber: 5.6 Consensus size: 29
5890091 TTTAAAAAAT
5890101 TTACTAAAATATCACCATTTTCAAAATAA
1 TTACTAAAATATCACCATTTTCAAAATAA
** * *
5890130 TTACTAAAATATCA-TTTTTTTAAAA-AT
1 TTACTAAAATATCACCATTTTCAAAATAA
* * *
5890157 TTAC-AAATTTATCA-C-TTTTTAAAAAAA
1 TTACTAAA-ATATCACCATTTTCAAAATAA
* *
5890184 TTACGAAAATAACACCATTTTCAAAATAA
1 TTACTAAAATATCACCATTTTCAAAATAA
*
5890213 TTACCAAAATATCACCATTTTCAAAATAA
1 TTACTAAAATATCACCATTTTCAAAATAA
5890242 TTACTAAAATATCACC
1 TTACTAAAATATCACC
5890258 TGGTCAACGG
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
26 12 0.11
27 19 0.17
28 12 0.11
29 66 0.61
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.36
Consensus pattern (29 bp):
TTACTAAAATATCACCATTTTCAAAATAA
Found at i:5890203 original size:83 final size:85
Alignment explanation
Indices: 5890070--5890226 Score: 246
Period size: 83 Copynumber: 1.9 Consensus size: 85
5890060 GATCATCCAT
* * * * *
5890070 TTTACACATTTATCACCCTTTTTTAAAAAATTTACTAAAATATCACCATTTTCAAAATAATTACT
1 TTTACAAATTTATCA-CCTTTTTTAAAAAAATTACGAAAATAACACCATTTTCAAAATAATTACC
5890135 AAAATATCATTTTTTTAAAAA
65 AAAATATCATTTTTTTAAAAA
5890156 TTTACAAATTTATCA-C-TTTTTAAAAAAATTACGAAAATAACACCATTTTCAAAATAATTACCA
1 TTTACAAATTTATCACCTTTTTTAAAAAAATTACGAAAATAACACCATTTTCAAAATAATTACCA
5890219 AAATATCA
66 AAATATCA
5890227 CCATTTTCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
83 51 0.77
84 1 0.02
86 14 0.21
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (85 bp):
TTTACAAATTTATCACCTTTTTTAAAAAAATTACGAAAATAACACCATTTTCAAAATAATTACCA
AAATATCATTTTTTTAAAAA
Found at i:5896526 original size:24 final size:24
Alignment explanation
Indices: 5896470--5896561 Score: 103
Period size: 24 Copynumber: 3.7 Consensus size: 24
5896460 TCAAAATTAA
* * * *
5896470 ATCATAATTCAGGTCAAGTAGCAG
1 ATCAAAATCCAGGTCAAGTATCAT
*
5896494 ATCAGAATCCAGGTCAAGTATCAT
1 ATCAAAATCCAGGTCAAGTATCAT
*
5896518 ATAAAAATCATCCAGGTCAAGTATCAT
1 AT-CAAA--ATCCAGGTCAAGTATCAT
5896545 ATCAAAATCCAGGTCAA
1 ATCAAAATCCAGGTCAA
5896562 AAACCAGATA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
24 33 0.57
25 2 0.03
26 3 0.05
27 20 0.34
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCAGGTCAAGTATCAT
Found at i:5896537 original size:27 final size:27
Alignment explanation
Indices: 5896500--5896553 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
5896490 GCAGATCAGA
5896500 ATCCAGGTCAAGTATCATATAAAAATC
1 ATCCAGGTCAAGTATCATATAAAAATC
*
5896527 ATCCAGGTCAAGTATCATATCAAAATC
1 ATCCAGGTCAAGTATCATATAAAAATC
5896554 CAGGTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (27 bp):
ATCCAGGTCAAGTATCATATAAAAATC
Found at i:5897337 original size:30 final size:30
Alignment explanation
Indices: 5897276--5897458 Score: 139
Period size: 29 Copynumber: 6.3 Consensus size: 30
5897266 TTTACACATT
*
5897276 TATCACCC-TTTT-AAAAAAATTTACAAAAA
1 TATCACCCTTTTTCAAAAAAA-TTACTAAAA
*
5897305 TATCACCCTTTTTCAAAATAATTACTAAAA
1 TATCACCCTTTTTCAAAAAAATTACTAAAA
** * * **
5897335 TATCACTTTTTTTAAAAAAAAATTACGAATT
1 TATCACCCTTTTT-CAAAAAAATTACTAAAA
5897366 TATCA--CTTTTT-AAAAAAATTA-TGAAAA
1 TATCACCCTTTTTCAAAAAAATTACT-AAAA
* * * * *
5897393 TAGCA-CCATTTTCAAAATAATTACCAATA
1 TATCACCCTTTTTCAAAAAAATTACTAAAA
* * *
5897422 TAT-AACCATTTTCAAAATAATTACTAAAA
1 TATCACCCTTTTTCAAAAAAATTACTAAAA
5897451 TATCACCC
1 TATCACCC
5897459 GGTCAACGGT
Statistics
Matches: 123, Mismatches: 22, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
27 16 0.13
28 6 0.05
29 52 0.42
30 26 0.21
31 23 0.19
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (30 bp):
TATCACCCTTTTTCAAAAAAATTACTAAAA
Found at i:5897484 original size:13 final size:13
Alignment explanation
Indices: 5897466--5897492 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5897456 CCCGGTCAAC
5897466 GGTCAACGGGTCG
1 GGTCAACGGGTCG
5897479 GGTCAACGGGTCG
1 GGTCAACGGGTCG
5897492 G
1 G
5897493 AACCGGTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.48, T:0.15
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:5906338 original size:28 final size:28
Alignment explanation
Indices: 5906298--5906530 Score: 389
Period size: 28 Copynumber: 8.4 Consensus size: 28
5906288 CTTTTTAAAA
*
5906298 AAATAATTACCAAAATATCACTTTTTTG
1 AAATAATTACCAAAATATCACTTTTTCG
5906326 AAATAATTACCAAAATATCACTTTTTCG
1 AAATAATTACCAAAATATCACTTTTTCG
5906354 AAATAATTACCAAAATATCAC-TTTTCG
1 AAATAATTACCAAAATATCACTTTTTCG
*
5906381 AAATAATTACCAAAATATCATTTTTTTCG
1 AAATAATTACCAAAATATCA-CTTTTTCG
*
5906410 AAATAATTACCAAAATATCACTTTTTTG
1 AAATAATTACCAAAATATCACTTTTTCG
5906438 AAATAATTACCAAAATATCA-TTTTTCG
1 AAATAATTACCAAAATATCACTTTTTCG
*
5906465 AAATAATTACCAAAATATCACTTTTTTG
1 AAATAATTACCAAAATATCACTTTTTCG
*
5906493 AAATAATTACCAGAATATCACTTTTTCG
1 AAATAATTACCAAAATATCACTTTTTCG
*
5906521 AAATATTTAC
1 AAATAATTAC
5906531 GAAACTAACA
Statistics
Matches: 193, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
27 52 0.27
28 115 0.60
29 26 0.13
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (28 bp):
AAATAATTACCAAAATATCACTTTTTCG
Found at i:5906406 original size:55 final size:56
Alignment explanation
Indices: 5906298--5906530 Score: 407
Period size: 55 Copynumber: 4.2 Consensus size: 56
5906288 CTTTTTAAAA
5906298 AAATAATTACCAAAATATCACTTTTTTGAAATAATTACCAAAATATCACTTTTTCG
1 AAATAATTACCAAAATATCACTTTTTTGAAATAATTACCAAAATATCACTTTTTCG
* *
5906354 AAATAATTACCAAAATATCAC-TTTTCGAAATAATTACCAAAATATCATTTTTTTCG
1 AAATAATTACCAAAATATCACTTTTTTGAAATAATTACCAAAATATCA-CTTTTTCG
5906410 AAATAATTACCAAAATATCACTTTTTTGAAATAATTACCAAAATATCA-TTTTTCG
1 AAATAATTACCAAAATATCACTTTTTTGAAATAATTACCAAAATATCACTTTTTCG
*
5906465 AAATAATTACCAAAATATCACTTTTTTGAAATAATTACCAGAATATCACTTTTTCG
1 AAATAATTACCAAAATATCACTTTTTTGAAATAATTACCAAAATATCACTTTTTCG
*
5906521 AAATATTTAC
1 AAATAATTAC
5906531 GAAACTAACA
Statistics
Matches: 169, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
55 79 0.47
56 65 0.38
57 25 0.15
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (56 bp):
AAATAATTACCAAAATATCACTTTTTTGAAATAATTACCAAAATATCACTTTTTCG
Found at i:5906587 original size:29 final size:28
Alignment explanation
Indices: 5906522--5906615 Score: 125
Period size: 28 Copynumber: 3.3 Consensus size: 28
5906512 ACTTTTTCGA
** *
5906522 AATATTTACGAAACTAACACCTCTTAAC
1 AATATTTACGAAACTAACATTTTTTAAC
* *
5906550 AGTATTTACGAAACTAACATTTTTTTAAT
1 AATATTTACGAAACTAACA-TTTTTTAAC
*
5906579 AATATTTACAAAACTAACATTTTTTAAC
1 AATATTTACGAAACTAACATTTTTTAAC
5906607 AATATTTAC
1 AATATTTAC
5906616 AAAAATACCA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 35 0.61
29 22 0.39
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (28 bp):
AATATTTACGAAACTAACATTTTTTAAC
Found at i:5910761 original size:86 final size:85
Alignment explanation
Indices: 5910654--5910847 Score: 264
Period size: 86 Copynumber: 2.3 Consensus size: 85
5910644 ACAATCAACT
* * *
5910654 ATTACGAAAATAACACATTTTTTAAAAAATAATTACGAAAATATCA-CTTTTAGAAATAATTACC
1 ATTACCAAAATATCAC-TTTTTT-AAAAATAATTACCAAAATATCATCTTTTAGAAATAATTACC
5910718 AAAATATCACTTTATCGAAATA
64 AAAATATCACTTTATCGAAATA
** * *
5910740 ATTACCAAAATATCACTTTTTTCGAAATAATTACCAAAATATCATTTTTTTCGAAATAATTACCA
1 ATTACCAAAATATCACTTTTTTAAAAATAATTACCAAAATATCA-TCTTTTAGAAATAATTACCA
*
5910805 AAATATCACTTTTTCGAAATA
65 AAATATCACTTTATCGAAATA
* *
5910826 ATTAGCAATATATCACTTTTTT
1 ATTACCAAAATATCACTTTTTT
5910848 CGAAATATTT
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
84 19 0.20
85 6 0.06
86 71 0.74
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.37
Consensus pattern (85 bp):
ATTACCAAAATATCACTTTTTTAAAAATAATTACCAAAATATCATCTTTTAGAAATAATTACCAA
AATATCACTTTATCGAAATA
Found at i:5910774 original size:29 final size:28
Alignment explanation
Indices: 5910680--5910859 Score: 263
Period size: 29 Copynumber: 6.4 Consensus size: 28
5910670 ATTTTTTAAA
* *
5910680 AAATAATTACGAAAATATCAC-TTTTAG
1 AAATAATTACCAAAATATCACTTTTTCG
*
5910707 AAATAATTACCAAAATATCACTTTATCG
1 AAATAATTACCAAAATATCACTTTTTCG
5910735 AAATAATTACCAAAATATCACTTTTTTCG
1 AAATAATTACCAAAATATCAC-TTTTTCG
*
5910764 AAATAATTACCAAAATATCATTTTTTTCG
1 AAATAATTACCAAAATATCA-CTTTTTCG
5910793 AAATAATTACCAAAATATCACTTTTTCG
1 AAATAATTACCAAAATATCACTTTTTCG
* *
5910821 AAATAATTAGCAATATATCACTTTTTTCG
1 AAATAATTACCAAAATATCAC-TTTTTCG
*
5910850 AAATATTTAC
1 AAATAATTAC
5910860 GAAACTAACA
Statistics
Matches: 139, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
27 20 0.14
28 51 0.37
29 68 0.49
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (28 bp):
AAATAATTACCAAAATATCACTTTTTCG
Found at i:5910818 original size:57 final size:56
Alignment explanation
Indices: 5910680--5910859 Score: 263
Period size: 57 Copynumber: 3.2 Consensus size: 56
5910670 ATTTTTTAAA
* * * *
5910680 AAATAATTACGAAAATATCAC-TTTTAGAAATAATTACCAAAATATCACTTTATCG
1 AAATAATTACCAAAATATCACTTTTTCGAAATAATTACCAAAATATCATTTTTTCG
5910735 AAATAATTACCAAAATATCACTTTTTTCGAAATAATTACCAAAATATCATTTTTTTCG
1 AAATAATTACCAAAATATCAC-TTTTTCGAAATAATTACCAAAATATCA-TTTTTTCG
* *
5910793 AAATAATTACCAAAATATCACTTTTTCGAAATAATTAGCAATATATCACTTTTTTCG
1 AAATAATTACCAAAATATCACTTTTTCGAAATAATTACCAAAATATCA-TTTTTTCG
*
5910850 AAATATTTAC
1 AAATAATTAC
5910860 GAAACTAACA
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
55 20 0.18
57 67 0.59
58 27 0.24
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (56 bp):
AAATAATTACCAAAATATCACTTTTTCGAAATAATTACCAAAATATCATTTTTTCG
Found at i:5910848 original size:86 final size:84
Alignment explanation
Indices: 5910680--5910859 Score: 279
Period size: 86 Copynumber: 2.1 Consensus size: 84
5910670 ATTTTTTAAA
*
5910680 AAATAATTACGAAAATATCACTTTTAGAAATAATTACCAAAATATCACTTTATCGAAATAATTAC
1 AAATAATTACCAAAATATCACTTTTAGAAATAATTACCAAAATATCACTTTATCGAAATAATTAC
5910745 CAAAATATCACTTTTTTCG
66 CAAAATATCACTTTTTTCG
* * *
5910764 AAATAATTACCAAAATATCATTTTTTTCGAAATAATTACCAAAATATCACTTTTTCGAAATAATT
1 AAATAATTACCAAAATATCA--CTTTTAGAAATAATTACCAAAATATCACTTTATCGAAATAATT
* *
5910829 AGCAATATATCACTTTTTTCG
64 ACCAAAATATCACTTTTTTCG
*
5910850 AAATATTTAC
1 AAATAATTAC
5910860 GAAACTAACA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 19 0.22
86 68 0.78
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (84 bp):
AAATAATTACCAAAATATCACTTTTAGAAATAATTACCAAAATATCACTTTATCGAAATAATTAC
CAAAATATCACTTTTTTCG
Found at i:5910895 original size:29 final size:29
Alignment explanation
Indices: 5910851--5910946 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 29
5910841 CTTTTTTCGA
5910851 AATATTTACGAAACTAACACCTTCTTAAC
1 AATATTTACGAAACTAACACCTTCTTAAC
* *** * *
5910880 AGTATTTACGAAACTAACTTTTTTTTAAT
1 AATATTTACGAAACTAACACCTTCTTAAC
* ** *
5910909 AATATTTACGAAACTAATATTTTTTTAAC
1 AATATTTACGAAACTAACACCTTCTTAAC
5910938 AATATTTAC
1 AATATTTAC
5910947 AAAAATACTA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.42
Consensus pattern (29 bp):
AATATTTACGAAACTAACACCTTCTTAAC
Found at i:5915849 original size:2 final size:2
Alignment explanation
Indices: 5915842--5915874 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
5915832 CCTCCCTTCA
*
5915842 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5915875 ATTAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5934282 original size:2 final size:2
Alignment explanation
Indices: 5934275--5934302 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5934265 CATCCCTTCA
5934275 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
5934303 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5938103 original size:2 final size:2
Alignment explanation
Indices: 5938096--5938158 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
5938086 TCCCTTCAAA
5938096 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
5938138 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
5938159 ATTCAAAAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5939671 original size:6 final size:6
Alignment explanation
Indices: 5939660--5939695 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
5939650 CACTTTCTTT
*
5939660 TTTTTC TTTTTC ATTTTC TTTTTC TTTTT- TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T
5939696 AATATGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:5939678 original size:12 final size:11
Alignment explanation
Indices: 5939653--5939695 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
5939643 GAAGTTGCAC
5939653 TTTC-TTTT-T
1 TTTCTTTTTCT
5939662 TTTCTTTTTCAT
1 TTTCTTTTTC-T
5939674 TTTCTTTTTCT
1 TTTCTTTTTCT
*
5939685 TTTTTTTTTCT
1 TTTCTTTTTCT
5939696 AATATGAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 4 0.13
10 4 0.13
11 11 0.37
12 11 0.37
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:5941143 original size:21 final size:21
Alignment explanation
Indices: 5941109--5941160 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
5941099 TATAATATAT
** *
5941109 GGCCAATTCAAAATTTTAAAA
1 GGCCAATTTGAAATATTAAAA
*
5941130 GGCCAATTTGAAATATTAAAT
1 GGCCAATTTGAAATATTAAAA
*
5941151 GACCAATTTG
1 GGCCAATTTG
5941161 GGAAATTAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (21 bp):
GGCCAATTTGAAATATTAAAA
Found at i:5951705 original size:47 final size:48
Alignment explanation
Indices: 5951609--5951723 Score: 171
Period size: 47 Copynumber: 2.4 Consensus size: 48
5951599 TTCGATTTGA
5951609 ATTCTGATCTGATACTTGACATGGATTCTGATCTGATATCTGACATGG
1 ATTCTGATCTGATACTTGACATGGATTCTGATCTGATATCTGACATGG
* *
5951657 ATTCTGATCTGATACTTGACTTGGA-TCTGATCTGATA-CTTGACCTGG
1 ATTCTGATCTGATACTTGACATGGATTCTGATCTGATATC-TGACATGG
* *
5951704 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
5951724 CTGATTTATG
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.02
47 37 0.60
48 24 0.39
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (48 bp):
ATTCTGATCTGATACTTGACATGGATTCTGATCTGATATCTGACATGG
Found at i:5951726 original size:24 final size:24
Alignment explanation
Indices: 5951609--5951723 Score: 171
Period size: 24 Copynumber: 4.8 Consensus size: 24
5951599 TTCGATTTGA
5951609 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
5951633 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
5951657 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
5951681 A-TCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
5951704 ATTTTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
5951724 CTGATTTATG
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
23 23 0.27
24 60 0.71
25 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:5957267 original size:14 final size:14
Alignment explanation
Indices: 5957249--5957358 Score: 96
Period size: 14 Copynumber: 7.6 Consensus size: 14
5957239 AAGTCAATGG
*
5957249 GTTGACTCGGACGA
1 GTTGACTCAGACGA
* *
5957263 ATTGACAT-AGACGG
1 GTTGAC-TCAGACGA
*
5957277 GTTGACTCGGACGA
1 GTTGACTCAGACGA
*
5957291 GTTGACTCAGACGG
1 GTTGACTCAGACGA
*
5957305 GTTGACTCAGACCAA
1 GTTGACTCAGA-CGA
* *
5957320 ATTGACTCAGACCGG
1 GTTGACTCAGA-CGA
*
5957335 GTTGACTCAGACCGG
1 GTTGACTCAGA-CGA
5957350 GTTGACTCA
1 GTTGACTCA
5957359 AACTGGGTTC
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
13 1 0.01
14 41 0.52
15 37 0.47
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (14 bp):
GTTGACTCAGACGA
Found at i:5957287 original size:28 final size:28
Alignment explanation
Indices: 5957247--5957374 Score: 132
Period size: 28 Copynumber: 4.4 Consensus size: 28
5957237 CAAAGTCAAT
5957247 GGGTTGACTCGGACGAATTGACAT-AGAC
1 GGGTTGACTCGGACGAATTGAC-TCAGAC
*
5957275 GGGTTGACTCGGACGAGTTGACTCAGAC
1 GGGTTGACTCGGACGAATTGACTCAGAC
* *
5957303 GGGTTGACTCAGACCAAATTGACTCAGACC
1 GGGTTGACTCGGA-CGAATTGACTCAGA-C
* ** *
5957333 GGGTTGACTCAGACCGGGTTGACTCAAAC
1 GGGTTGACTCGGA-CGAATTGACTCAGAC
*
5957362 TGGGTTCACTCGG
1 -GGGTTGACTCGG
5957375 TTGGGTCAAC
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 37 0.43
29 13 0.15
30 35 0.41
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (28 bp):
GGGTTGACTCGGACGAATTGACTCAGAC
Found at i:5957348 original size:15 final size:15
Alignment explanation
Indices: 5957274--5957372 Score: 112
Period size: 15 Copynumber: 6.7 Consensus size: 15
5957264 TTGACATAGA
*
5957274 CGGGTTGACTCGGA-
1 CGGGTTGACTCAGAC
*
5957288 CGAGTTGACTCAGA-
1 CGGGTTGACTCAGAC
5957302 CGGGTTGACTCAGAC
1 CGGGTTGACTCAGAC
***
5957317 CAAATTGACTCAGAC
1 CGGGTTGACTCAGAC
5957332 CGGGTTGACTCAGAC
1 CGGGTTGACTCAGAC
*
5957347 CGGGTTGACTCAAAC
1 CGGGTTGACTCAGAC
* *
5957362 TGGGTTCACTC
1 CGGGTTGACTC
5957373 GGTTGGGTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
14 25 0.35
15 47 0.65
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.22
Consensus pattern (15 bp):
CGGGTTGACTCAGAC
Found at i:5961526 original size:25 final size:22
Alignment explanation
Indices: 5961498--5961543 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
5961488 GTTTTAACTC
5961498 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
5961523 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
5961544 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:5965297 original size:2 final size:2
Alignment explanation
Indices: 5965292--5965319 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5965282 TTGAATTTTC
5965292 TA 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 TA
5965320 ACTCTTGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5973210 original size:23 final size:23
Alignment explanation
Indices: 5973168--5973250 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 23
5973158 CACCACAGCT
* * * *
5973168 CGTATAAATGCACTGAAGTGCCA
1 CGTAGAAATGCACCGTAGTGCCG
* *
5973191 CGTAGAATTGCACCGTAGTGTCG
1 CGTAGAAATGCACCGTAGTGCCG
*
5973214 CATAGAAATGCACCGTAGTGCCG
1 CGTAGAAATGCACCGTAGTGCCG
*
5973237 CGTAGAAATACACC
1 CGTAGAAATGCACC
5973251 AAAGTGTTAT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGTAGTGCCG
Found at i:5976659 original size:24 final size:24
Alignment explanation
Indices: 5976632--5976694 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
5976622 CGTTCATGAA
*
5976632 CGTTCGGTTATGTTTGTTTATGTT
1 CGTTCGGTAATGTTTGTTTATGTT
5976656 CGTTCGGTAATGTTTGTTTATGTT
1 CGTTCGGTAATGTTTGTTTATGTT
5976680 CGTTCGGTAATGTTT
1 CGTTCGGTAATGTTT
5976695 AACCCAATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.11, C:0.10, G:0.25, T:0.54
Consensus pattern (24 bp):
CGTTCGGTAATGTTTGTTTATGTT
Found at i:5977433 original size:10 final size:10
Alignment explanation
Indices: 5977418--5977476 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
5977408 GGGTCTCCAA
5977418 CGTTTATGTT
1 CGTTTATGTT
5977428 CGTTTATGTT
1 CGTTTATGTT
5977438 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
5977449 ATGTTCGTGTT
1 -CGTTTATGTT
5977460 CGTTTATGTT
1 CGTTTATGTT
5977470 CGTTTAT
1 CGTTTAT
5977477 TTATTAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 28 0.72
11 7 0.18
12 4 0.10
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.58
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:5977449 original size:16 final size:16
Alignment explanation
Indices: 5977424--5977480 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
5977414 CCAACGTTTA
*
5977424 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
5977440 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
5977456 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
5977472 T-TT-ATTTAT
1 TGTTCATTTAT
5977481 TAAATGAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
14 5 0.13
15 2 0.05
16 31 0.82
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.60
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:5977564 original size:16 final size:16
Alignment explanation
Indices: 5977543--5977575 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5977533 AAAAAAATTT
5977543 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
5977559 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
5977575 T
1 T
5977576 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:5978154 original size:21 final size:20
Alignment explanation
Indices: 5978119--5978159 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
5978109 GACAATAAAT
5978119 AATTTTATGTAAAAAATTATA
1 AATTTTATGT-AAAAATTATA
* *
5978140 AATTTTATTTCAAAATTATA
1 AATTTTATGTAAAAATTATA
5978160 TACTAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
AATTTTATGTAAAAATTATA
Found at i:5979830 original size:120 final size:116
Alignment explanation
Indices: 5979604--5980189 Score: 684
Period size: 108 Copynumber: 5.1 Consensus size: 116
5979594 GAACCATAGC
* * * * * * * * *
5979604 CTTTATTCCACCCACCAGATTGATTCCAGCTGGATGACTGGCCTCCCTGATCAGCATTGGACTGA
1 CTTTGTTCCAGCCACCAGATTGATTCCAACCGGAGGATTGGCCTCCCTGTTCAGCATTGGATTGG
* * * * * **
5979669 CCCCATGTCTTAGCACCACTGTCAC-TCGTTCCACTATTCCAGCCCTGGTTTTCCT
66 CTCCAAGTCTTAGCTCCAC---CACAT-GTT-CACCACTCCAGCCCTGGTTACCCT
* * * * *
5979724 CTTTGGTCCAGCCACCAGATTTATTCGAACCGGAGGATTGGCCTCCCTGATCAGCATTGGGTTGG
1 CTTTGTTCCAGCCACCAGATTGATTCCAACCGGAGGATTGGCCTCCCTGTTCAGCATTGGATTGG
5979789 CTCCAAGTCTTAGCTCCACCAACATTTGTTCTACCACTCCAGCCCTGGTTACCCT
66 CTCCAAGTCTTAGCTCCACC-ACA--TGTTC-ACCACTCCAGCCCTGGTTACCCT
*
5979844 CTTTGTTCCAGACACCAGATTGATTCCAACCGGAGGATTGGCCTCCCTGTTCAGCATTGGATTGG
1 CTTTGTTCCAGCCACCAGATTGATTCCAACCGGAGGATTGGCCTCCCTGTTCAGCATTGGATTGG
5979909 CTCCAAGTCTTAGCT---CCAC-----CACCACTCCAGCCCTGGTTACCCT
66 CTCCAAGTCTTAGCTCCACCACATGTTCACCACTCCAGCCCTGGTTACCCT
*
5979952 CTTTGTTCCAGCCACCAGATTGATTCCAACCGGAGGATTGGTCTCCCTGTTCAGCATTGGATTGG
1 CTTTGTTCCAGCCACCAGATTGATTCCAACCGGAGGATTGGCCTCCCTGTTCAGCATTGGATTGG
*
5980017 CTCCAAGTCTTAGCT---CCAC-----CACCACTCCAGCCCAGGTTACCCT
66 CTCCAAGTCTTAGCTCCACCACATGTTCACCACTCCAGCCCTGGTTACCCT
* * *
5980060 CTTTGTTACAGCCACCAGATTGATTCCAATCGGAGGATTGGCCTCCCTGTTCAGCATCGGATTGG
1 CTTTGTTCCAGCCACCAGATTGATTCCAACCGGAGGATTGGCCTCCCTGTTCAGCATTGGATTGG
*
5980125 CTCCAAGTCTTAGCTCCACCACCATTAGTTCCACCACTCCAGCCCTGGTTGCCCT
66 CTCCAAGTCTTAGCTCCACCA-CA-T-GTT-CACCACTCCAGCCCTGGTTACCCT
5980180 CTTTGTTCCA
1 CTTTGTTCCA
5980190 ACCAAAAGAT
Statistics
Matches: 414, Mismatches: 35, Indels: 34
0.86 0.07 0.07
Matches are distributed among these distances:
108 204 0.49
109 1 0.00
111 3 0.01
112 1 0.00
116 2 0.00
117 3 0.01
118 2 0.00
119 1 0.00
120 196 0.47
121 1 0.00
ACGTcount: A:0.19, C:0.34, G:0.19, T:0.28
Consensus pattern (116 bp):
CTTTGTTCCAGCCACCAGATTGATTCCAACCGGAGGATTGGCCTCCCTGTTCAGCATTGGATTGG
CTCCAAGTCTTAGCTCCACCACATGTTCACCACTCCAGCCCTGGTTACCCT
Found at i:5980294 original size:30 final size:30
Alignment explanation
Indices: 5980260--5980329 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
5980250 CCTTCCACGT
5980260 CCTCTACCTCCAAAGCCTCCCCTATCACCA
1 CCTCTACCTCCAAAGCCTCCCCTATCACCA
*
5980290 CCTCTACCTCCATAGCCTCCCCTATCACCA
1 CCTCTACCTCCAAAGCCTCCCCTATCACCA
5980320 CCTCTACCTC
1 CCTCTACCTC
5980330 TGAACCCACC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.20, C:0.54, G:0.03, T:0.23
Consensus pattern (30 bp):
CCTCTACCTCCAAAGCCTCCCCTATCACCA
Found at i:5980369 original size:30 final size:30
Alignment explanation
Indices: 5980260--5980378 Score: 123
Period size: 30 Copynumber: 4.0 Consensus size: 30
5980250 CCTTCCACGT
* *
5980260 CCTCTACCTCCAAAGCCTCCCCTATCACCA
1 CCTCTACCTCCATAGCCACCCCTATCACCA
*
5980290 CCTCTACCTCCATAGCCTCCCCTATCACCA
1 CCTCTACCTCCATAGCCACCCCTATCACCA
* * * * *
5980320 CCTCTACCTCTGA-ACCCACCTCTACCGCCA
1 CCTCTACCTC-CATAGCCACCCCTATCACCA
* * *
5980350 CCTCGACCTCCATAGCCACCTCGATCACC
1 CCTCTACCTCCATAGCCACCCCTATCACC
5980379 CCTACCTCCA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
29 1 0.01
30 72 0.97
31 1 0.01
ACGTcount: A:0.21, C:0.53, G:0.06, T:0.20
Consensus pattern (30 bp):
CCTCTACCTCCATAGCCACCCCTATCACCA
Found at i:5982419 original size:6 final size:6
Alignment explanation
Indices: 5982405--5982444 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
5982395 TATAAACATC
* * *
5982405 TGTGCA TGTGAA TGTGCA TGTGAA TGTGCA TGTGAA TGTG
1 TGTGAA TGTGAA TGTGAA TGTGAA TGTGAA TGTGAA TGTG
5982445 CAGGTGTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.07, G:0.35, T:0.35
Consensus pattern (6 bp):
TGTGAA
Found at i:5982422 original size:12 final size:12
Alignment explanation
Indices: 5982405--5982446 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
5982395 TATAAACATC
5982405 TGTGCATGTGAA
1 TGTGCATGTGAA
5982417 TGTGCATGTGAA
1 TGTGCATGTGAA
5982429 TGTGCATGTGAA
1 TGTGCATGTGAA
5982441 TGTGCA
1 TGTGCA
5982447 GGTGTGAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (12 bp):
TGTGCATGTGAA
Found at i:5988087 original size:15 final size:15
Alignment explanation
Indices: 5988067--5988100 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5988057 AATATATTAA
5988067 ATTTTAAAATAATAT
1 ATTTTAAAATAATAT
* *
5988082 ATTTTATAATAGTAT
1 ATTTTAAAATAATAT
5988097 ATTT
1 ATTT
5988101 ATAATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTTAAAATAATAT
Found at i:5988166 original size:19 final size:19
Alignment explanation
Indices: 5988094--5988156 Score: 117
Period size: 19 Copynumber: 3.3 Consensus size: 19
5988084 TTTATAATAG
*
5988094 TATATTTATAATTATTTAT
1 TATATTAATAATTATTTAT
5988113 TATATTAATAATTATTTAT
1 TATATTAATAATTATTTAT
5988132 TATATTAATAATTATTTAT
1 TATATTAATAATTATTTAT
5988151 TATATT
1 TATATT
5988157 TTAAATTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTAATAATTATTTAT
Found at i:5989866 original size:5 final size:5
Alignment explanation
Indices: 5989856--5989881 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5989846 TATTATTATT
5989856 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
5989882 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:5990173 original size:2 final size:2
Alignment explanation
Indices: 5990146--5990411 Score: 160
Period size: 2 Copynumber: 137.0 Consensus size: 2
5990136 AATAATATTG
* * * *
5990146 AT AT A- AT AT A- AT AA AT AT AT AA AT AT AT A- AT AA AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
5990185 A- AT ACT AC AT AT A- AT AT GT AT AT AT AT AC ACT AA AT AT AT -T
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
*
5990226 A- AT AT A- AT AT AT AT AT AT AT AT AT GT A- AT -T AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
5990263 AA AT AT ACT AT A- AT AT CT ACT AT AT A- AT AT AT ACT ACT AT AT
1 AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T A-T AT AT
5990305 AT A- AT AT AT AT ACT AT A- AT AT AT AT AT AT AT AT AT GAT AT A-
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
*
5990346 AT AT AT AT AT AT GAT AT AT GAT AT AT GAT AT AT ACT AC AT A- AT
1 AT AT AT AT AT AT -AT AT AT -AT AT AT -AT AT AT A-T AT AT AT AT
5990389 A- AT ACT AT -T AT AT A- AT AT A- AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT
5990412 CCTCGGCCAA
Statistics
Matches: 207, Mismatches: 24, Indels: 66
0.70 0.08 0.22
Matches are distributed among these distances:
1 21 0.10
2 160 0.77
3 26 0.13
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:5990173 original size:19 final size:19
Alignment explanation
Indices: 5990151--5990336 Score: 85
Period size: 19 Copynumber: 9.3 Consensus size: 19
5990141 TATTGATATA
5990151 ATATAATAAATATATAAAT
1 ATATAATAAATATATAAAT
*
5990170 ATATAATAAATACAT-AAT
1 ATATAATAAATATATAAAT
* * *
5990188 ACTA-CATATAATATGTATAT
1 A-TATAATA-AATATATAAAT
*
5990208 ATATACACTAAATATATTAAT
1 ATATA-A-TAAATATATAAAT
* *
5990229 ATA-ATATATATATATATAT
1 ATATA-ATAAATATATAAAT
* *
5990248 ATGTAAT-TATATAATAAAT
1 ATATAATAAATAT-ATAAAT
5990267 ATACT-ATAATATCTACTATATAAT
1 ATA-TAATAA-A--TA-TATA-AAT
* *
5990291 ATATACTACTATATATAATAT
1 ATATAATA-AATATATAA-AT
* *
5990312 ATATACTATAATATATATAT
1 ATATAATA-AATATATAAAT
5990332 ATATA
1 ATATA
5990337 TATGATATAA
Statistics
Matches: 127, Mismatches: 22, Indels: 35
0.69 0.12 0.19
Matches are distributed among these distances:
18 12 0.09
19 46 0.36
20 15 0.12
21 34 0.27
22 4 0.03
23 6 0.05
24 10 0.08
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (19 bp):
ATATAATAAATATATAAAT
Found at i:5990269 original size:57 final size:58
Alignment explanation
Indices: 5990203--5990379 Score: 152
Period size: 55 Copynumber: 3.0 Consensus size: 58
5990193 ATATAATATG
5990203 TATATATATACACTAAATATATTAATATAATATATATATATATATATGTAAT-TATATAA
1 TATA-ATATA-ACTAAATATATTAATATAATATATATATATATATATGTAATATATATAA
* * * *
5990262 TA-AATAT-ACTATAATAT-CTACTAT-ATA-ATATATACTACTATATATAATATATATAC
1 TATAATATAACTA-AATATATTAATATAATATATATATA-TA-TATATGTAATATATATAA
* *
5990318 TATAATATATA-TATATATATATGATATAATATATATATATGATATATGATATATGATATATA
1 TATAATATA-ACTAAATATAT-TAATATAATATATATATAT-ATATATG-TA-AT-ATATATA
5990380 CTACATAATA
Statistics
Matches: 94, Mismatches: 9, Indels: 26
0.73 0.07 0.20
Matches are distributed among these distances:
53 7 0.07
54 5 0.05
55 18 0.19
56 13 0.14
57 13 0.14
58 3 0.03
59 7 0.07
60 9 0.10
61 10 0.11
62 2 0.02
63 7 0.07
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (58 bp):
TATAATATAACTAAATATATTAATATAATATATATATATATATATGTAATATATATAA
Found at i:5990293 original size:33 final size:31
Alignment explanation
Indices: 5990147--5990410 Score: 125
Period size: 33 Copynumber: 8.2 Consensus size: 31
5990137 ATAATATTGA
* *
5990147 TATAATATAATAAATAT-ATAAATATATAATAA
1 TATAATA-AATATATATAATATATATAT-ATAA
* *
5990179 -ATACATAATACTACATATAATATGTATATAT-A
1 TATA-ATAA-A-TATATATAATATATATATATAA
* *
5990211 TACACTAAATATAT-TAATATA-ATATAT-A
1 TATAATAAATATATATAATATATATATATAA
* * * * *
5990239 TAT-ATATATATGTAATTATATAATAAATATAC
1 TATAATAAATATAT-ATAATAT-ATATATATAA
**
5990271 TATAATATCTACTATATAATATATACTACTAT-A
1 TATAATAAATA-TATATAATATATA-TA-TATAA
*
5990304 TATAATATATATACTATAATATATATATATATA
1 TATAATAAATATA-TATAATATATATATATA-A
*
5990337 TATGATATAATATATAT-ATATGATATATGAT-A
1 TATAATA-AATATATATAATAT-ATATAT-ATAA
* * *
5990369 TATGATATATACTACATAATAATACTATTATATAA
1 TATAATAAATA-TATATAAT-ATA-TA-TATATAA
5990404 TATAATA
1 TATAATA
5990411 TCCTCGGCCA
Statistics
Matches: 181, Mismatches: 25, Indels: 49
0.71 0.10 0.19
Matches are distributed among these distances:
27 7 0.04
28 9 0.05
29 11 0.06
30 5 0.03
31 16 0.09
32 34 0.19
33 63 0.35
34 26 0.14
35 10 0.06
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (31 bp):
TATAATAAATATATATAATATATATATATAA
Found at i:5990483 original size:21 final size:21
Alignment explanation
Indices: 5990457--5990496 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5990447 TAATTTTATT
5990457 TTTTAATAAT-TAAAGAATATA
1 TTTTAATAATATAAA-AATATA
5990478 TTTTAATAATATAAAAATA
1 TTTTAATAATATAAAAATA
5990497 AAAATTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTTAATAATATAAAAATATA
Found at i:5995853 original size:12 final size:12
Alignment explanation
Indices: 5995828--5995857 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
5995818 TTCTTTAGTG
5995828 TTTCTTGATATT
1 TTTCTTGATATT
5995840 TTTC-TGATATT
1 TTTCTTGATATT
5995851 TTTCTTG
1 TTTCTTG
5995858 TTTGCATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.13, C:0.10, G:0.10, T:0.67
Consensus pattern (12 bp):
TTTCTTGATATT
Found at i:5998567 original size:18 final size:18
Alignment explanation
Indices: 5998544--5998584 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
5998534 TCAATGGGAT
5998544 TAGGATTAGAAATTGGAA
1 TAGGATTAGAAATTGGAA
5998562 TAGGATTAGAAATTGGAA
1 TAGGATTAGAAATTGGAA
5998580 TAGGA
1 TAGGA
5998585 GGAGGATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (18 bp):
TAGGATTAGAAATTGGAA
Found at i:5999333 original size:21 final size:20
Alignment explanation
Indices: 5999309--5999347 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5999299 ATTCCCCTGT
*
5999309 GGGGGGAATCGGTTCCCTCAA
1 GGGGGG-ATCGATTCCCTCAA
5999330 GGGGGGATCGATTCCCTC
1 GGGGGGATCGATTCCCTC
5999348 TGCACCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (20 bp):
GGGGGGATCGATTCCCTCAA
Found at i:6003199 original size:17 final size:16
Alignment explanation
Indices: 6003177--6003210 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6003167 TAAAAATAGT
6003177 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
6003194 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
6003210 A
1 A
6003211 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:6013459 original size:18 final size:17
Alignment explanation
Indices: 6013436--6013470 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6013426 TAAAAACAGT
6013436 AAATAAAAAGATAAATAA
1 AAATAAAAAGA-AAATAA
*
6013454 AAATAAGAAGAAAATAA
1 AAATAAAAAGAAAATAA
6013471 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (17 bp):
AAATAAAAAGAAAATAA
Found at i:6017571 original size:21 final size:21
Alignment explanation
Indices: 6017541--6017581 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6017531 ACTTAGCAAA
* * *
6017541 TGAACCAGATTCGATTAAAAG
1 TGAACAAGATTAGACTAAAAG
6017562 TGAACAAGATTAGACTAAAA
1 TGAACAAGATTAGACTAAAA
6017582 ATTAAAAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (21 bp):
TGAACAAGATTAGACTAAAAG
Found at i:6019451 original size:14 final size:14
Alignment explanation
Indices: 6019414--6019452 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
6019404 TAGTCTTTTG
6019414 TTTTCACAAATTTA
1 TTTTCACAAATTTA
*
6019428 -TTTCAAAAATTTA
1 TTTTCACAAATTTA
6019441 TTTTCACAAATT
1 TTTTCACAAATT
6019453 ATCATAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTTCACAAATTTA
Found at i:6020789 original size:34 final size:34
Alignment explanation
Indices: 6020746--6020810 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
6020736 AGTATTTATC
6020746 TTATATATATACATATATGAACAGACACAAGATT
1 TTATATATATACATATATGAACAGACACAAGATT
*
6020780 TTATATATATACATATATGATCAGACACAAG
1 TTATATATATACATATATGAACAGACACAAG
6020811 TTTAAATGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (34 bp):
TTATATATATACATATATGAACAGACACAAGATT
Found at i:6029216 original size:68 final size:68
Alignment explanation
Indices: 6029107--6029243 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
6029097 AATCGTTTGC
*
6029107 TTAGATTGATAAATCTTATCAAAACGGAGTTAAATCATCATTTCAGTTTATGTTCATTTTGTATG
1 TTAGATCGATAAATCTTATCAAAACGGAGTTAAATCATCATTTCAGTTTATGTTCATTTTGTATG
6029172 TGT
66 TGT
*
6029175 TTAGATCGATAAATCTTATCAAAACGGAGTTAAATCATCATTTCGGTTTATGTTCATTTTGTATG
1 TTAGATCGATAAATCTTATCAAAACGGAGTTAAATCATCATTTCAGTTTATGTTCATTTTGTATG
6029240 TGT
66 TGT
6029243 T
1 T
6029244 CATTGCTCAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (68 bp):
TTAGATCGATAAATCTTATCAAAACGGAGTTAAATCATCATTTCAGTTTATGTTCATTTTGTATG
TGT
Found at i:6039420 original size:54 final size:54
Alignment explanation
Indices: 6039285--6039965 Score: 898
Period size: 54 Copynumber: 12.5 Consensus size: 54
6039275 ATCCTTGAGG
* ** * **
6039285 TGCACATATAGTGCCAATACGGAAATTCATAAACTCGTTATAAATTTCGTGGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-TTAGGT
* * *
6039340 TGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTATGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGT
* *
6039394 TGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGT
* *
6039448 TGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCGTAGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA-GGT
* * * *
6039503 TGCACATATAGTGACAATAAGGAAATTCATAAACTCATTATGAATTTCTTAGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGT
* * * *
6039557 TGCACACACAGTGTCAATACGGAAATTCATAAACTTATTATTAATTTCTTAAGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGT
* * ** **
6039611 TGCAAAAATAGTGCCAATACATAAATTCATAAACTTATTATGAATTTCATGGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-TTAGGT
*
6039666 TGCACACATAGTGCCAATACGGAAATTCATAAA-TGCATTATGAATTTCTTAGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACT-TATTATGAATTTCTTAGGT
* * *
6039720 TGCACACACAGTGCCAATACGGAAATTTATAAACTTATTATGAATTTCTTAAGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGT
* **
6039774 TGCACACACAGTG-CAATTACGGAAATTCATAAACTTATTATGAATTTCGTGGGGT
1 TGCACACATAGTGCCAA-TACGGAAATTCATAAACTTATTATGAATTTC-TTAGGT
* * **
6039829 TGCACACACAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCGTGGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-TTAGGT
* * * *
6039884 TGCACACATAGTACCAATATGGAAATTCATAAACTCATTATGAATTTCATAGGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTA-GGT
6039939 TGCACACATAGTGCCAATACGGAAATT
1 TGCACACATAGTGCCAATACGGAAATT
6039966 GCAACATATA
Statistics
Matches: 556, Mismatches: 62, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
53 3 0.01
54 290 0.52
55 260 0.47
56 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (54 bp):
TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGT
Found at i:6039421 original size:109 final size:108
Alignment explanation
Indices: 6039230--6039965 Score: 906
Period size: 109 Copynumber: 6.8 Consensus size: 108
6039220 GTACATGAAT
* * * * * * *
6039230 TTGCACCCA-AGTACCAATATGGAAATTCACAAACTCATTTTTG-ATATCCTTGAGG-TGCACAT
1 TTGCACACACAGTGCCAATACGGAAATTCATAAACTCA-TTATGAAT-TTCTT-AGGTTGCACAC
** * *
6039292 ATAGTGCCAATACGGAAATTCATAAACTCGTTATAAATTTCGTGGGG
63 ATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-TGAGG
* * * *
6039339 TTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTATGTTGCACACACA
1 TTGCACACACAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATA
* *
6039404 GTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAG
66 GTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTGAGG
* * *
6039447 TTGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCGTAGGGTTGCACATAT
1 TTGCACACACAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTA-GGTTGCACACAT
* * * *
6039512 AGTGACAATAAGGAAATTCATAAACTCATTATGAATTTCTTAGG
65 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTGAGG
* * * * * *
6039556 TTGCACACACAGTGTCAATACGGAAATTCATAAACTTATTATTAATTTCTTAAGTTGCAAAAATA
1 TTGCACACACAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATA
** *
6039621 GTGCCAATACATAAATTCATAAACTTATTATGAATTTCATGGGG
66 GTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-TGAGG
* *
6039665 TTGCACACATAGTGCCAATACGGAAATTCATAAA-TGCATTATGAATTTCTTAGGTTGCACACAC
1 TTGCACACACAGTGCCAATACGGAAATTCATAAACT-CATTATGAATTTCTTAGGTTGCACACAT
* * *
6039729 AGTGCCAATACGGAAATTTATAAACTTATTATGAATTTCTTAAG
65 AGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTGAGG
* **
6039773 TTGCACACACAGTG-CAATTACGGAAATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACA
1 TTGCACACACAGTGCCAA-TACGGAAATTCATAAACTCATTATGAATTTC-TTAGGTTGCACACA
* * *
6039837 CAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCGTGGGG
64 TAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTC-TGAGG
* * * *
6039883 TTGCACACATAGTACCAATATGGAAATTCATAAACTCATTATGAATTTCATAGGGTTGCACACAT
1 TTGCACACACAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTA-GGTTGCACACAT
6039948 AGTGCCAATACGGAAATT
65 AGTGCCAATACGGAAATT
6039966 GCAACATATA
Statistics
Matches: 543, Mismatches: 72, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.01
108 139 0.26
109 301 0.55
110 97 0.18
111 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (108 bp):
TTGCACACACAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACATA
GTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTGAGG
Found at i:6039564 original size:163 final size:163
Alignment explanation
Indices: 6039285--6039965 Score: 1033
Period size: 163 Copynumber: 4.2 Consensus size: 163
6039275 ATCCTTGAGG
* ** *
6039285 TGCACATATAGTGCCAATACGGAAATTCATAAACTCGTTATAAATTTCGTGGGGTTGCACACATA
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATA
*
6039350 GTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTATGTTGCACACACAGTGCCAATACG
66 GTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACG
6039415 GAAATTCATAAACTTATTATGAATTTCTTAAGT
131 GAAATTCATAAACTTATTATGAATTTCTTAAGT
* * *
6039448 TGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCGTAGGGTTGCACATATA
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATA
* * * *
6039513 GTGACAATAAGGAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACACAGTGTCAATACG
66 GTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACG
*
6039578 GAAATTCATAAACTTATTATTAATTTCTTAAGT
131 GAAATTCATAAACTTATTATGAATTTCTTAAGT
* * ** *
6039611 TGCAAAAATAGTGCCAATACATAAATTCATAAACTTATTATGAATTTCATGGGGTTGCACACATA
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATA
*
6039676 GTGCCAATACGGAAATTCATAAA-TGCATTATGAATTTCTTAGGTTGCACACACAGTGCCAATAC
66 GTGCCAATACGAAAATTCATAAACT-CATTATGAATTTCTTAGGTTGCACACACAGTGCCAATAC
*
6039740 GGAAATTTATAAACTTATTATGAATTTCTTAAGT
130 GGAAATTCATAAACTTATTATGAATTTCTTAAGT
* *
6039774 TGCACACACAGTG-CAATTACGGAAATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACAC
1 TGCACACATAGTGCCAA-TACGGAAATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACAT
* ** * *
6039838 AGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATAGTACCAATA
65 AGTGCCAATACGAAAATTCATAAACTCATTATGAATTTC-TTAGGTTGCACACACAGTGCCAATA
* * * *
6039903 TGGAAATTCATAAACTCATTATGAATTTCATAGGGT
129 CGGAAATTCATAAACTTATTATGAATTTCTTA-AGT
6039939 TGCACACATAGTGCCAATACGGAAATT
1 TGCACACATAGTGCCAATACGGAAATT
6039966 GCAACATATA
Statistics
Matches: 467, Mismatches: 45, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
162 4 0.01
163 386 0.83
164 50 0.11
165 24 0.05
166 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (163 bp):
TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCGTGGGGTTGCACACATA
GTGCCAATACGAAAATTCATAAACTCATTATGAATTTCTTAGGTTGCACACACAGTGCCAATACG
GAAATTCATAAACTTATTATGAATTTCTTAAGT
Found at i:6040420 original size:20 final size:21
Alignment explanation
Indices: 6040375--6040426 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
6040365 TTTCCAATCA
* *
6040375 CAGTATCGATACCTTCTTCCT
1 CAGTATCGATACCTTCTACAT
*
6040396 -GGTATCGATACC-TCTACAT
1 CAGTATCGATACCTTCTACAT
6040415 CAGTATCGATAC
1 CAGTATCGATAC
6040427 TACTTGCAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (21 bp):
CAGTATCGATACCTTCTACAT
Found at i:6041743 original size:32 final size:32
Alignment explanation
Indices: 6041707--6041789 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 32
6041697 TAACTGCTAC
*
6041707 GCATTATCTAAATGCTACACT-AACTATGTTGT
1 GCATTATCTAAATGCAACACTGAA-TATGTTGT
* ** *
6041739 GCATTATTTGGATGCAACACTGAATCTGTTGT
1 GCATTATCTAAATGCAACACTGAATATGTTGT
* *
6041771 GCATTATATGAATGCAACA
1 GCATTATCTAAATGCAACA
6041790 TTGACTAGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 41 0.95
33 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (32 bp):
GCATTATCTAAATGCAACACTGAATATGTTGT
Found at i:6045880 original size:2 final size:2
Alignment explanation
Indices: 6045873--6045911 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6045863 CTTTTAAAAC
6045873 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6045912 CCCCCATCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6046098 original size:12 final size:12
Alignment explanation
Indices: 6046083--6046129 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
6046073 CAGATATCAA
6046083 AACAGAATTCAG
1 AACAGAATTCAG
*
6046095 AACAGAATCCAG
1 AACAGAATTCAG
* *
6046107 ATCAGAAATCAG
1 AACAGAATTCAG
6046119 AACAGAATTCA
1 AACAGAATTCA
6046130 AGTCGGAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.51, C:0.19, G:0.15, T:0.15
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:6046138 original size:24 final size:24
Alignment explanation
Indices: 6046085--6046143 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
6046075 GATATCAAAA
* *
6046085 CAGAATTCAGAACAGAATCCAGAT
1 CAGAAATCAGAACAGAATCAAGAT
6046109 CAGAAATCAGAACAGAATTCAAG-T
1 CAGAAATCAGAACAGAA-TCAAGAT
*
6046133 CGGAAATCAGA
1 CAGAAATCAGA
6046144 TAAAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.15
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATCAAGAT
Found at i:6048634 original size:18 final size:18
Alignment explanation
Indices: 6048611--6048653 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
6048601 CAACGGTCAA
6048611 CGGGTCGGGTCAACGGAT
1 CGGGTCGGGTCAACGGAT
*
6048629 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGAT
6048647 CGGGTCG
1 CGGGTCG
6048654 TGACCAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.12, C:0.23, G:0.49, T:0.16
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGAT
Found at i:6048652 original size:13 final size:13
Alignment explanation
Indices: 6048605--6048634 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6048595 GCCAGTCAAC
*
6048605 GGTCAACGGGTCG
1 GGTCAACGGATCG
6048618 GGTCAACGGATCG
1 GGTCAACGGATCG
6048631 GGTC
1 GGTC
6048635 GGGTCAACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACGGATCG
Found at i:6053326 original size:12 final size:12
Alignment explanation
Indices: 6053306--6053375 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
6053296 GATACATGAC
*
6053306 CTGAATTCTGTT
1 CTGATTTCTGTT
* *
6053318 CTAATTTCTGAT
1 CTGATTTCTGTT
6053330 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
*
6053342 CTGATATCTGTT
1 CTGATTTCTGTT
*
6053354 CTGAATTCTGTT
1 CTGATTTCTGTT
*
6053366 TTGATTTCTG
1 CTGATTTCTG
6053376 ATATCTCCGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 43 0.93
13 1 0.02
ACGTcount: A:0.16, C:0.16, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:6053337 original size:24 final size:24
Alignment explanation
Indices: 6053269--6053377 Score: 105
Period size: 24 Copynumber: 4.5 Consensus size: 24
6053259 AATTATTTTA
* *
6053269 TCTGATTTCCGA-CTTGAATTATGT
1 TCTGATTTCTGATC-TGAATTCTGT
* *
6053293 TCTGA-TACATGACCTGAATTCTGT
1 TCTGATTTC-TGATCTGAATTCTGT
* *
6053317 TCTAATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
6053341 TCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
6053365 TTTGATTTCTGAT
1 TCTGATTTCTGAT
6053378 ATCTCCGTTT
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
23 2 0.03
24 63 0.93
25 3 0.04
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:6054395 original size:12 final size:12
Alignment explanation
Indices: 6054378--6054406 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6054368 TAACTATTAT
6054378 ATATATATATAG
1 ATATATATATAG
6054390 ATATATATATAG
1 ATATATATATAG
6054402 ATATA
1 ATATA
6054407 GATTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
ATATATATATAG
Found at i:6076120 original size:2 final size:2
Alignment explanation
Indices: 6076109--6076161 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
6076099 AAAATTAGAA
6076109 AT AT AT -T 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
6076150 AT AT AT AT AT AT
1 AT AT AT AT AT AT
6076162 TACTAGCTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6076847 original size:20 final size:21
Alignment explanation
Indices: 6076814--6076860 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6076804 TTTATTTGGA
6076814 TAAACTATGCG-TTTAGTACT
1 TAAACTATGCGTTTTAGTACT
6076834 TAAACTAT-CTGTTTTAGTA-T
1 TAAACTATGC-GTTTTAGTACT
6076854 CTAAACT
1 -TAAACT
6076861 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.04
20 10 0.42
21 13 0.54
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TAAACTATGCGTTTTAGTACT
Found at i:6080201 original size:45 final size:45
Alignment explanation
Indices: 6080137--6080388 Score: 247
Period size: 45 Copynumber: 5.3 Consensus size: 45
6080127 AACAGAAACG
* *
6080137 GCGGCGACTACTTTTACCTCGGTCGTCAATGGGGTTTCAACTGCA
1 GCGGCGAGTACTTCTACCTCGGTCGTCAATGGGGTTTCAACTGCA
* *
6080182 GCGGCGAGTACTTCTACCTCGGTCATCAATGGGGTTTCAACCGCA
1 GCGGCGAGTACTTCTACCTCGGTCGTCAATGGGGTTTCAACTGCA
* *
6080227 GCGGCGAGTACTTCTACCTCGGCCGTCAAT-GGGTTTACAACGGC-
1 GCGGCGAGTACTTCTACCTCGGTCGTCAATGGGGTTT-CAACTGCA
* * *
6080271 GACGGCGAGTCCTTTTTCTAGCTCGGCCGTCAATTTGTCCATTGGGGTTTCAACTGCA
1 G-CGGCGAGTAC---TTCTACCTC-G--GTC-----GT-CAATGGGGTTTCAACTGCA
* * * *
6080329 GCGGCGAGTACTTCTAGCTCGGCCGTCGATGGGGTTTCAACTGCG
1 GCGGCGAGTACTTCTACCTCGGTCGTCAATGGGGTTTCAACTGCA
6080374 GCGGCGAGTACTTCT
1 GCGGCGAGTACTTCT
6080389 TCTAGCTCCG
Statistics
Matches: 174, Mismatches: 17, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
44 7 0.04
45 115 0.66
46 2 0.01
48 8 0.05
49 1 0.01
51 4 0.02
53 1 0.01
54 9 0.05
56 2 0.01
57 18 0.10
58 7 0.04
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (45 bp):
GCGGCGAGTACTTCTACCTCGGTCGTCAATGGGGTTTCAACTGCA
Found at i:6080392 original size:102 final size:102
Alignment explanation
Indices: 6080208--6080426 Score: 341
Period size: 102 Copynumber: 2.1 Consensus size: 102
6080198 CCTCGGTCAT
6080208 CAATGGGGTTTCAACCGCAGCGGCGAGTACTTCTACCTCGGCCGTCAATGGGTTTACAACGGCGA
1 CAATGGGGTTTCAACCGCAGCGGCGAGTACTTCTACCTCGGCCGTCAATGGGTTTACAACGGCGA
* * *
6080273 CGGCGAGTCCTTTTTCTAGCTCGGCCGTCAATTTGTC
66 CGGCGAGTACTTCTTCTAGCTCCGCCGTCAATTTGTC
* * * * *
6080310 CATTGGGGTTTCAACTGCAGCGGCGAGTACTTCTAGCTCGGCCGTCGATGGGGTTT-CAACTGCG
1 CAATGGGGTTTCAACCGCAGCGGCGAGTACTTCTACCTCGGCCGTCAAT-GGGTTTACAACGGCG
*
6080374 GCGGCGAGTACTTCTTCTAGCTCCGCCGTCAATTTGTC
65 ACGGCGAGTACTTCTTCTAGCTCCGCCGTCAATTTGTC
6080412 CAATGGGGTTTCAAC
1 CAATGGGGTTTCAAC
6080427 GGGTACTTGT
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
102 100 0.94
103 6 0.06
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.27
Consensus pattern (102 bp):
CAATGGGGTTTCAACCGCAGCGGCGAGTACTTCTACCTCGGCCGTCAATGGGTTTACAACGGCGA
CGGCGAGTACTTCTTCTAGCTCCGCCGTCAATTTGTC
Found at i:6080950 original size:23 final size:23
Alignment explanation
Indices: 6080906--6080950 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6080896 AACATATTAG
* **
6080906 GTAGCGTTTATATAATGTAATAT
1 GTAGCGCTTATATAATAAAATAT
6080929 GTAGCGCTTATATAATAAAATA
1 GTAGCGCTTATATAATAAAATA
6080951 GGCATTTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (23 bp):
GTAGCGCTTATATAATAAAATAT
Found at i:6081013 original size:87 final size:87
Alignment explanation
Indices: 6080867--6081028 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
6080857 ATGTTATATA
* * *
6080867 ATTTAACTGGAAATATTATCAAGTACAATAACATATTAGGTAGCGTTTATATAATGTAATATGTA
1 ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTA
6080932 GCGCTTATATAATAAAATAGGC
66 GCGCTTATATAATAAAATAGGC
*
6080954 ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTATC-TCTTATATAATGTAATAGGT
1 ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGT-TTATATAATGTAATAGGT
6081018 AGCGCTTATAT
65 AGCGCTTATAT
6081029 TGACCTATTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 1 0.01
87 69 0.99
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (87 bp):
ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTA
GCGCTTATATAATAAAATAGGC
Found at i:6081668 original size:205 final size:203
Alignment explanation
Indices: 6081046--6082157 Score: 1159
Period size: 199 Copynumber: 5.5 Consensus size: 203
6081036 TTTTCGAAGT
* *
6081046 AAACCGATATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATTATTATCGGTTTCGA
1 AAACCGATATATTTATACCGGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
6081111 TGTTTTTTAGATCGATACAATTT-TAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATT
66 TGTTTTTGAGATCGATAC-ATTTATAAATGTATCGACACTTTATGCTTGCACCTCGTTGGG-ATT
* * * *
6081175 CATATTTCATTCTGGA-ACAAAGTATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACC
129 CA-A-TTCATTATGGACAAAAAGTATCGACACAAATTAAACAAGTGTCGATACATTATTTAGACC
6081239 TATTTTCTCATA
192 TATTTTCTCATA
* * * * * * **
6081251 AAACCGGTATATTTATACCAG-ATATATTGTAAATTTACATATCACATTGTAATT-TTTGTTTCG
1 AAACCGATATATTTATACCGGTA-ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* * * * * * *
6081314 ATGTTTTTGAGATCGATACTTTTAATAAATGTATTGAAACTCTATGCGTGCACCCCGTT-TGA--
65 ATGTTTTTGAGATCGATACATTT-ATAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGATT
* * * * * *
6081376 C-ATTCTTTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTATGCT-GACAT
129 CAATTCATTATGGACAAAAAGTATCGACACAAATTAAACAAGTGTCGATACATTAT-TTAGACCT
6081439 ATTTTCTCATA
193 ATTTTCTCATA
* * * * *
6081450 AAACCGGTATATTTATACTGGTAACATTGCAAATTTACCTATTACATTATTATTATCGGTTTTGA
1 AAACCGATATATTTATACCGGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
6081515 TGTTTTTTAGATCGATACAATTT-TAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATT
66 TGTTTTTGAGATCGATAC-ATTTATAAATGTATCGACACTTTATGCTTGCACCTCGTTGGG-ATT
* *
6081579 CATATTTCATTATGGA-AAAAAGTATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACC
129 CA-A-TTCATTATGGACAAAAAGTATCGACACAAATTAAACAAGTGTCGATACATTATTTAGACC
6081643 TATTTTCTCATA
192 TATTTTCTCATA
* * * **
6081655 AAACCGATATATTTATACCGGGT-ACATTGTAAATTTACATATCACATTGTAATT-TTTGTTTCG
1 AAACCGATATATTTATACC-GGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* * * * *
6081718 ATGTTTTTGGGATCGATAC-TTCTAATAAATGTATCGACACTCTATGCGTGCACCCCGTT-TGA-
65 ATGTTTTTGAGATCGATACATT-T-ATAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGAT
*** * * *
6081780 -C-ATTCATTATGGACAAAATA-TATCGACACTTTTTTAACAAGTGTCGATACTTTA-TGATGAC
128 TCAATTCATTATGGACAAAA-AGTATCGACACAAATTAAACAAGTGTCGATACATTATTTA-GAC
*
6081841 CTATTTTCTTATA
191 CTATTTTCTCATA
* *
6081854 AAACCGATATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGATATATTTATACCGGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
6081919 TGTTTTTGGGATCGATACGTTTAATAAATGTATCGACACTTTATG-TGTGCACCTCGTTTGGGAT
66 TGTTTTTGAGATCGATACATTT-ATAAATGTATCGACACTTTATGCT-TGCACCTCG-TTGGGA-
* **
6081983 TTCAA-TC--TA--GACAATAAGTATCGACACAAATTCCACAAGTGTCGATACA-TATTGTAGAC
127 TTCAATTCATTATGGACAAAAAGTATCGACACAAATTAAACAAGTGTCGATACATTATT-TAGAC
* * *
6082042 CTATTCTAT-ATT
191 CTATTTTCTCATA
* * * ** *
6082054 TAACCGATATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTTGTTTTGA
1 AAACCGATATATTTATACCGGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
6082119 TGTTTTTTG-GGTCGATAC-TTGTAGAAAATGTATCGACAC
66 TG-TTTTTGAGATCGATACATT-TA-TAAATGTATCGACAC
6082158 ATATTTAGGT
Statistics
Matches: 759, Mismatches: 109, Indels: 83
0.80 0.11 0.09
Matches are distributed among these distances:
198 25 0.03
199 220 0.29
200 174 0.23
201 58 0.08
202 5 0.01
203 9 0.01
204 52 0.07
205 202 0.27
206 14 0.02
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (203 bp):
AAACCGATATATTTATACCGGTAACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGAGATCGATACATTTATAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGATTCA
ATTCATTATGGACAAAAAGTATCGACACAAATTAAACAAGTGTCGATACATTATTTAGACCTATT
TTCTCATA
Found at i:6081783 original size:404 final size:404
Alignment explanation
Indices: 6081046--6082157 Score: 1633
Period size: 404 Copynumber: 2.8 Consensus size: 404
6081036 TTTTCGAAGT
*
6081046 AAACCGATATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATTATTATCGGTTTCGA
1 AAACCGATATATTTATACTGGTAACATTGCAAATTTACCTATTACATTATTATTATCGGTTTCGA
6081111 TGTTTTTTAGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTC
66 TGTTTTTTAGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTC
* *
6081176 ATATTTCATTCTGGAACAAAGTATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTA
131 ATATTTCATTATGGAAAAAAGTATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTA
* * *
6081241 TTTTCTCATAAAACCGGTATATTTATACCAGATATATTGTAAATTTACATATCACATTGTAATTT
196 TTTTCTCATAAAACCGATATATTTATACCGGATACATTGTAAATTTACATATCACATTGTAATTT
* * * *
6081306 TTGTTTCGATGTTTTTGAGATCGATACTTTTAATAAATGTATTGAAACTCTATGCGTGCACCCCG
261 TTGTTTCGATGTTTTTGGGATCGATACTTCTAATAAATGTATCGACACTCTATGCGTGCACCCCG
* * *
6081371 TTTGACATTCTTTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTATGCTGA
326 TTTGACATTCATTATGGACAAAATATATCGACACAAATTTAACAAGTGTCGATACTTTATGATGA
6081436 CATATTTTCTCATA
391 CATATTTTCTCATA
* *
6081450 AAACCGGTATATTTATACTGGTAACATTGCAAATTTACCTATTACATTATTATTATCGGTTTTGA
1 AAACCGATATATTTATACTGGTAACATTGCAAATTTACCTATTACATTATTATTATCGGTTTCGA
6081515 TGTTTTTTAGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTC
66 TGTTTTTTAGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTC
6081580 ATATTTCATTATGGAAAAAAGTATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTA
131 ATATTTCATTATGGAAAAAAGTATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTA
*
6081645 TTTTCTCATAAAACCGATATATTTATACCGGGTACATTGTAAATTTACATATCACATTGTAATTT
196 TTTTCTCATAAAACCGATATATTTATACCGGATACATTGTAAATTTACATATCACATTGTAATTT
6081710 TTGTTTCGATGTTTTTGGGATCGATACTTCTAATAAATGTATCGACACTCTATGCGTGCACCCCG
261 TTGTTTCGATGTTTTTGGGATCGATACTTCTAATAAATGTATCGACACTCTATGCGTGCACCCCG
***
6081775 TTTGACATTCATTATGGACAAAATATATCGACACTTTTTTAACAAGTGTCGATACTTTATGATGA
326 TTTGACATTCATTATGGACAAAATATATCGACACAAATTTAACAAGTGTCGATACTTTATGATGA
* *
6081840 CCTATTTTCTTATA
391 CATATTTTCTCATA
* * *
6081854 AAACCGATATATTTATA-TCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
1 AAACCGATATATTTATACT-GGTAACATTGCAAATTTACCTATTACATTATTATTATCGGTTTCG
** *
6081918 ATGTTTTTGGGATCGATAC-GTTTAATAAATGTATCGACACTTTATG-TGTGCACCTCGTTTGGG
65 ATGTTTTTTAGATCGATACAATTT--TAAATGTATCGACACTTTATGCT-TGCACCTCG-TTGGG
* * ** *
6081981 -ATTTCA-A--TC--TA--GACAATAAGTATCGACACAAATTCCACAAGTGTCGATACA-TATTG
126 CA-TTCATATTTCATTATGGA-AAAAAGTATCGACACAAACTAAAAAAGTGTCGATACATTATT-
* * ** * * * *
6082037 TAGACCTATTCTAT-ATTTAACCGATATATTTATACCGGTTACATTGTTAATTTACCTATTACAT
188 TAGACCTATTTTCTCATAAAACCGATATATTTATACCGGATACATTGTAAATTTACATATCACAT
* * *
6082101 TATAATTATTTGTTTTGATGTTTTTTGGG-TCGATACTTGTAGA-AAATGTATCGACAC
253 TGTAATT-TTTGTTTCGATG-TTTTTGGGATCGATACTTCTA-ATAAATGTATCGACAC
6082158 ATATTTAGGT
Statistics
Matches: 652, Mismatches: 45, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
399 56 0.09
400 80 0.12
401 11 0.02
403 6 0.01
404 458 0.70
405 32 0.05
406 9 0.01
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (404 bp):
AAACCGATATATTTATACTGGTAACATTGCAAATTTACCTATTACATTATTATTATCGGTTTCGA
TGTTTTTTAGATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTC
ATATTTCATTATGGAAAAAAGTATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTA
TTTTCTCATAAAACCGATATATTTATACCGGATACATTGTAAATTTACATATCACATTGTAATTT
TTGTTTCGATGTTTTTGGGATCGATACTTCTAATAAATGTATCGACACTCTATGCGTGCACCCCG
TTTGACATTCATTATGGACAAAATATATCGACACAAATTTAACAAGTGTCGATACTTTATGATGA
CATATTTTCTCATA
Found at i:6084646 original size:17 final size:17
Alignment explanation
Indices: 6084621--6084654 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6084611 TAACTTTTCT
* *
6084621 CATCTCATACATAATTA
1 CATCACATACAAAATTA
6084638 CATCACATACAAAATTA
1 CATCACATACAAAATTA
6084655 TAAATCGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CATCACATACAAAATTA
Found at i:6084699 original size:20 final size:20
Alignment explanation
Indices: 6084674--6084711 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6084664 TGTAACTTAT
6084674 ACAAAATTAACCCTACATTA
1 ACAAAATTAACCCTACATTA
6084694 ACAAAATTAACCCTACAT
1 ACAAAATTAACCCTACAT
6084712 CATCACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (20 bp):
ACAAAATTAACCCTACATTA
Found at i:6086575 original size:179 final size:184
Alignment explanation
Indices: 6086367--6087110 Score: 874
Period size: 200 Copynumber: 3.9 Consensus size: 184
6086357 ACACTTTGTG
*
6086367 CGTTCATCCTTTTTGGCGTCCATTCTGGACAAAAAGTATCGACACAAATTTAACAAGTGTCGATA
1 CGTTCATCCTTTTTGGCATCCATTCTGGACAAAAAGTATCGACACAAATTTAACAAGTGTCGATA
* * *
6086432 CATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCAGTTATATTACAAAATTACCT
66 CATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCAGTTACATTATAAAATTACCT
*
6086497 ATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACAC-T-T-TA-CG-
131 ATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTATGTATCGA
* **
6086546 CGTTCATCCTTTTTGCCATTGATTCTGGACAAAAAGTATCGACACAAATTTAACAAGTGTCGATA
1 CGTTCATCCTTTTTGGCATCCATTCTGGACAAAAAGTATCGACACAAATTTAACAAGTGTCGATA
* * * *
6086611 CATGTTATAGATCTATTCTCTCATAAAACCGATATATTTATATCGGTTACATTGTAAAATTACCT
66 CATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCAGTTACATTATAAAATTACCT
6086676 ATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACA
131 ATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACAC---T--T--ATGTATCG--A
* *
6086739 CTTTGTGCATGCATCATTTTTGGCATCCATTCTGGACAAAAAGTATCTACACAAATTTAACAAGT
1 C---GT---T-CATCCTTTTTGGCATCCATTCTGGACAAAAAGTATCGACACAAATTTAACAAGT
* * *
6086804 GTCTATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCAGTTACATTGTAAA
59 GTCGATACATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCAGTTACATTATAAA
* * *
6086869 TTTACCTATTACATTATAATTATGGGTTTCTATGTTTTTCGGATCGACACTTTTTTAAAATGTAT
124 ATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACAC----TT---ATGTAT
6086934 CGACA
182 CG--A
* * *
6086939 CTTTGTGCGTTCATCCATTTTGGCATCCATTTTGGACAAAAAGTATCGACAC-AATATTAAAAAG
1 -------CGTTCATCCTTTTTGGCATCCATTCTGGACAAAAAGTATCGACACAAAT-TTAACAAG
* * *
6087003 TGTCGATACATGTTGTAGACCTATT-TTTCATAAAAACCGATATATTTATACCGGTTACATTGA-
58 TGTCGATACATGTTATAGACCTATTCTCTCAT-AAAACCGATATATTTATACCAGTTACATT-AT
*
6087066 AAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
121 AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
6087111 GTCGTTACTT
Statistics
Matches: 492, Mismatches: 40, Indels: 45
0.85 0.07 0.08
Matches are distributed among these distances:
179 161 0.33
185 1 0.00
188 1 0.00
189 2 0.00
190 2 0.00
193 1 0.00
196 2 0.00
199 10 0.02
200 304 0.62
201 5 0.01
204 2 0.00
207 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (184 bp):
CGTTCATCCTTTTTGGCATCCATTCTGGACAAAAAGTATCGACACAAATTTAACAAGTGTCGATA
CATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCAGTTACATTATAAAATTACCT
ATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTATGTATCGA
Found at i:6086906 original size:379 final size:383
Alignment explanation
Indices: 6086200--6087110 Score: 1289
Period size: 379 Copynumber: 2.3 Consensus size: 383
6086190 CATTATTTAC
* * * *
6086200 AAGTATCGACACAAAATAAAAAAGTGTTGCTACATGTTGTAGACATATTCTATCATAAAACCGAT
1 AAGTATCGACACAAATTTAAAAAGTGTCGATACATGTTGTAGAC-TATTCTATCATAAAACCGAT
* *
6086265 ATATTTATACCGATTATATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
65 ATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
* * * *
6086329 GGGATCGACACTTTTAATAAATGTATCGACACTTTGTGCGTTCATCCTTTTTGGCGTCCATTCTG
129 GGGATCGACACTTTTAATAAATGTATCGACACTTTGTGCATGCATCATTTTTGGCATCCATTCTG
6086394 GACAAAAAGTATCGACACAAATTTAACAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAA
194 GACAAAAAGTATCGACACAAATTTAACAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAA
* *
6086459 ACCGGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGGTTTTCGATG
259 ACCGGTATATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATG
* * **
6086524 TTTTTGGGATCGACAC-T-T-T-AC-GCGTTCATCCTTTTTGCCATTGATTCTGGACAAA
324 TTTTTCGGATCGACACTTGTATCACTGCGTTCATCCATTTTGCCATCCATTCTGGACAAA
* * *
6086579 AAGTATCGACACAAATTTAACAAGTGTCGATACATGTTATAGATCTATTCTCTCATAAAACCGAT
1 AAGTATCGACACAAATTTAAAAAGTGTCGATACATGTTGTAGA-CTATTCTATCATAAAACCGAT
* *
6086644 ATATTTATATCGGTTACATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
65 ATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
6086709 GGATCGACACTTTTAATAAATGTATCGACACTTTGTGCATGCATCATTTTTGGCATCCATTCTGG
130 GGATCGACACTTTTAATAAATGTATCGACACTTTGTGCATGCATCATTTTTGGCATCCATTCTGG
* *
6086774 ACAAAAAGTATCTACACAAATTTAACAAGTGTCTATACATGTTATAGACCTATTCTCTCATAAAA
195 ACAAAAAGTATCGACACAAATTTAACAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAA
** * *
6086839 CCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCTATGT
260 CCGGTATATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
*
6086904 TTTTCGGATCGACACTTTTTTAAAATGTATCGACACTTTGTGCGTTCATCCATTTTGGCATCCAT
325 TTTTCGGATCGACAC-----T----TGTAT---CAC----TGCGTTCATCCATTTTGCCATCCAT
*
6086969 TTTGGACAAA
374 TCTGGACAAA
*
6086979 AAGTATCGACAC-AATATTAAAAAGTGTCGATACATGTTGTAGACCTATT-TTTCATAAAAACCG
1 AAGTATCGACACAAAT-TTAAAAAGTGTCGATACATGTTGTAGA-CTATTCTATCAT-AAAACCG
*
6087042 ATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTT
63 ATATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
6087107 TGGG
128 TGGG
6087111 GTCGTTACTT
Statistics
Matches: 471, Mismatches: 36, Indels: 29
0.88 0.07 0.05
Matches are distributed among these distances:
379 313 0.66
380 1 0.00
389 1 0.00
390 1 0.00
391 1 0.00
395 2 0.00
399 8 0.02
400 144 0.31
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (383 bp):
AAGTATCGACACAAATTTAAAAAGTGTCGATACATGTTGTAGACTATTCTATCATAAAACCGATA
TATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
GATCGACACTTTTAATAAATGTATCGACACTTTGTGCATGCATCATTTTTGGCATCCATTCTGGA
CAAAAAGTATCGACACAAATTTAACAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAAC
CGGTATATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
TTTCGGATCGACACTTGTATCACTGCGTTCATCCATTTTGCCATCCATTCTGGACAAA
Found at i:6087123 original size:200 final size:201
Alignment explanation
Indices: 6086532--6087124 Score: 881
Period size: 200 Copynumber: 3.0 Consensus size: 201
6086522 TGTTTTTGGG
** * * **
6086532 ATCGACACTTTACGCGTTCATCCTTTTTGCCATTGATTCTGGACAAAAAGTATCGACACAAATTT
1 ATCGACACTTTGTGCGTTCATCCATTTTGGCATCCATTCTGGACAAAAAGTATCGACACAAATTT
* *
6086597 AACAAGTGTCGATACATGTTATAGATCTATTCTCTCATAAAACCGATATATTTATATCGGTTACA
66 AACAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACA
6086662 TTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACAC-TTTTAAT
131 TTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTAAT
6086726 AAATGT
196 AAATGT
* * *
6086732 ATCGACACTTTGTGCATGCAT-CATTTTTGGCATCCATTCTGGACAAAAAGTATCTACACAAATT
1 ATCGACACTTTGTGCGTTCATCCA-TTTTGGCATCCATTCTGGACAAAAAGTATCGACACAAATT
* * *
6086796 TAACAAGTGTCTATACATGTTATAGACCTATTCTCTCATAAAACCGGTATATTTATACCAGTTAC
65 TAACAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTAC
* * * *
6086861 ATTGTAAATTTACCTATTACATTATAATTATGGGTTTCTATGTTTTTCGGATCGACACTTTTTTA
130 ATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTAA
6086926 -AAATGT
195 TAAATGT
*
6086932 ATCGACACTTTGTGCGTTCATCCATTTTGGCATCCATTTTGGACAAAAAGTATCGACAC-AATAT
1 ATCGACACTTTGTGCGTTCATCCATTTTGGCATCCATTCTGGACAAAAAGTATCGACACAAAT-T
* * *
6086996 TAAAAAGTGTCGATACATGTTGTAGACCTATT-TTTCATAAAAACCGATATATTTATACCGGTTA
65 TAACAAGTGTCGATACATGTTATAGACCTATTCTCTCAT-AAAACCGATATATTTATACCGGTTA
* * * **
6087060 CATTGAAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGGTCGTTACTTTTTA
129 CATTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTA
6087125 TTTTTTGGAT
Statistics
Matches: 351, Mismatches: 37, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
199 9 0.03
200 335 0.95
201 7 0.02
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (201 bp):
ATCGACACTTTGTGCGTTCATCCATTTTGGCATCCATTCTGGACAAAAAGTATCGACACAAATTT
AACAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACA
TTGTAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTAAT
AAATGT
Found at i:6090409 original size:201 final size:201
Alignment explanation
Indices: 6090024--6090992 Score: 1430
Period size: 201 Copynumber: 4.8 Consensus size: 201
6090014 CACGATATTT
* *
6090024 AAAATAGTATCGACACAA-ATTTAAAAAGTGTCGATATATGTTGTAGACCTATTCTCTCATAAAA
1 AAAA-AGTATCGACACAATA-TAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
*
6090088 CC-GATATATTTATACTAGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATG
64 CCAG-TATATTTATACTGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATG
* * * * * *
6090152 TTTCTAGGATCGATACTTTTTATAAATGTATCAACACTTTATGGGTACATCCTTTTTG-GGATTT
128 TTTCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCA-TT
*
6090216 GATTCTGGAC
192 CATTCTGGAC
*
6090226 AAAAAGTATCGACACAATATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACT
1 AAAAAGTATCGACACAATATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * *
6090291 AGTATATTTATACTGGTTACATTGAAAAAAATACCTATTATATTATAATTATGGGTTTCGATGTT
66 AGTATATTTATACTGGTTACATTG-AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTT
*
6090356 TCTGGGATCGATACTTTTTATTAATGGATCGACACTTTAT-GGTGCACCCTTTTTGTGCATTCAT
130 TCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTCAT
*
6090420 TCTGGTC
195 TCTGGAC
* * * **
6090427 AAAATGTATCGACAC-ATAATTAAAAAGTTTCGATACATGTTGTAGACCTATTCTCTCATGTAAC
1 AAAAAGTATCGACACAAT-ATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* ** *
6090491 CGGTATAAATATACTGATTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTT
65 CAGTATATTTATACTGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTT
* * * *
6090556 TCTGGTATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGCACCCTTTTTG-GAATTTGA
130 TCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCA-TTCA
6090620 TTCTGGAC
194 TTCTGGAC
* *
6090628 AAAAAGTATCGACACAATATAAAAAAGTGTCGATACATGTTGTATACCTATTCTCTCATAAAACT
1 AAAAAGTATCGACACAATATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * *
6090693 AGTATATTTATACCGGTTACATTGAAAAATTACCTATTGCATTATAATTATGGGTTTCGATGTTT
66 AGTATATTTATACTGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
*
6090758 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGAGTGCACCCTTTTTGTGCATTCATT
131 CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTCATT
*
6090823 CTGGTC
196 CTGGAC
* *
6090829 AAAATGTATCGACAC-ATAATAAAAAAGTTTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
1 AAAAAGTATCGACACAAT-ATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* * * * *
6090893 CGGTATATTTATACCGTTTACATTGAAAAATTACCTATTACATTATACTTATGAGTTTCGATATT
65 CAGTATATTTATACTGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTT
6090958 TCTGGGATCGATACTTTTTATAAATGGATCGACAC
130 TCTGGGATCGATACTTTTTATAAATGGATCGACAC
6090993 ATTTGCTTAC
Statistics
Matches: 692, Mismatches: 65, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
200 80 0.12
201 527 0.76
202 85 0.12
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (201 bp):
AAAAAGTATCGACACAATATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
AGTATATTTATACTGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
CTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTCATT
CTGGAC
Found at i:6090805 original size:402 final size:401
Alignment explanation
Indices: 6090024--6090992 Score: 1647
Period size: 402 Copynumber: 2.4 Consensus size: 401
6090014 CACGATATTT
* *
6090024 AAAATAGTATCGACACA-AATTTAAAAAGTGTCGATATATGTTGTAGACCTATTCTCTCATAAAA
1 AAAAT-GTATCGACACATAA-TTAAAAAGTTTCGATACATGTTGTAGACCTATTCTCTCATAAAA
*
6090088 CCGATATATTTATACT-AGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATG
64 CCGGTATATTTATACTGA-TTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATG
* * *
6090152 TTTCTAGGATCGATACTTTTTATAAATGTATCAACACTTTATGGGTACATCCTTTTTGGGATTTG
128 TTTCT-GGATCGATACTTTTTATAAATGTATCGACACTTTATGGGTACACCCTTTTTGGAATTTG
6090217 ATTCTGGACAAAAAGTATCGACACAATATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCT
192 ATTCTGGACAAAAAGTATCGACACAATATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCT
* *
6090282 CATAAAACTAGTATATTTATACTGGTTACATTGAAAAAAATACCTATTATATTATAATTATGGGT
257 CATAAAACTAGTATATTTATACCGGTTACATTGAAAAAAATACCTATTACATTATAATTATGGGT
*
6090347 TTCGATGTTTCTGGGATCGATACTTTTTATTAATGGATCGACACTTTATGGTGCACCCTTTTTGT
322 TTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTGCACCCTTTTTGT
6090412 GCATTCATTCTGGTC
387 GCATTCATTCTGGTC
**
6090427 AAAATGTATCGACACATAATTAAAAAGTTTCGATACATGTTGTAGACCTATTCTCTCATGTAACC
1 AAAATGTATCGACACATAATTAAAAAGTTTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
**
6090492 GGTATAAATATACTGATTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
66 GGTATATTTATACTGATTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
*
6090557 CTGGTATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGAATTTGATT
131 CTGG-ATCGATACTTTTTATAAATGTATCGACACTTTATGGGTACACCCTTTTTGGAATTTGATT
*
6090622 CTGGACAAAAAGTATCGACACAATATAAAAAAGTGTCGATACATGTTGTATACCTATTCTCTCAT
195 CTGGACAAAAAGTATCGACACAATATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCAT
* *
6090687 AAAACTAGTATATTTATACCGGTTACATTG-AAAAATTACCTATTGCATTATAATTATGGGTTTC
260 AAAACTAGTATATTTATACCGGTTACATTGAAAAAAATACCTATTACATTATAATTATGGGTTTC
6090751 GATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGAGTGCACCCTTTTTGTGC
325 GATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATG-GTGCACCCTTTTTGTGC
6090816 ATTCATTCTGGTC
389 ATTCATTCTGGTC
*
6090829 AAAATGTATCGACACATAATAAAAAAGTTTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
1 AAAATGTATCGACACATAATTAAAAAGTTTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
* * * *
6090894 GGTATATTTATACCGTTTACATTGAAAAATTACCTATTACATTATACTTATGAGTTTCGATATTT
66 GGTATATTTATACTGATTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
*
6090959 CTGGGATCGATACTTTTTATAAATGGATCGACAC
131 CT-GGATCGATACTTTTTATAAATGTATCGACAC
6090993 ATTTGCTTAC
Statistics
Matches: 534, Mismatches: 27, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
401 79 0.15
402 445 0.83
403 10 0.02
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (401 bp):
AAAATGTATCGACACATAATTAAAAAGTTTCGATACATGTTGTAGACCTATTCTCTCATAAAACC
GGTATATTTATACTGATTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
CTGGATCGATACTTTTTATAAATGTATCGACACTTTATGGGTACACCCTTTTTGGAATTTGATTC
TGGACAAAAAGTATCGACACAATATAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATA
AAACTAGTATATTTATACCGGTTACATTGAAAAAAATACCTATTACATTATAATTATGGGTTTCG
ATGTTTCTGGGATCGATACTTTTTATAAATGGATCGACACTTTATGGTGCACCCTTTTTGTGCAT
TCATTCTGGTC
Found at i:6091198 original size:19 final size:19
Alignment explanation
Indices: 6091174--6091222 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
6091164 TTACATTCAC
*
6091174 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAACCGT
*
6091193 ATACAAAATTATAAACCTT
1 ATACAAAATTATAAACCGT
6091212 ATACAAAATTA
1 ATACAAAATTA
6091223 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAACCGT
Found at i:6092823 original size:21 final size:18
Alignment explanation
Indices: 6092785--6092841 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
6092775 TCCTCCTCAT
*
6092785 TTCCTCCATATTTTCTTC
1 TTCCTCCATCTTTTCTTC
6092803 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
6092821 TTCCTCCCTCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
6092839 TTC
1 TTC
6092842 ATATTTTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.05, C:0.39, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:6093116 original size:15 final size:15
Alignment explanation
Indices: 6093091--6093127 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
6093081 CTTTCACCAC
6093091 TCCATCTATTTTTCCG
1 TCCA-CTATTTTTCCG
*
6093107 TCCACTATTTTTCCT
1 TCCACTATTTTTCCG
6093122 TCCACT
1 TCCACT
6093128 TCCCCCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.14, C:0.35, G:0.03, T:0.49
Consensus pattern (15 bp):
TCCACTATTTTTCCG
Found at i:6093165 original size:21 final size:21
Alignment explanation
Indices: 6093140--6093204 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
6093130 CCCCTTATGC
* *
6093140 CTCTCAACTGTCTTTTCGACT
1 CTCTCAAGTTTCTTTTCGACT
* *
6093161 CTCTCAAGTTTCTCTTCAACT
1 CTCTCAAGTTTCTTTTCGACT
6093182 CTCTCAAGTTTCTTTTCGACT
1 CTCTCAAGTTTCTTTTCGACT
6093203 CT
1 CT
6093205 TGATTGTCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.15, C:0.32, G:0.08, T:0.45
Consensus pattern (21 bp):
CTCTCAAGTTTCTTTTCGACT
Found at i:6095799 original size:112 final size:112
Alignment explanation
Indices: 6095585--6095807 Score: 338
Period size: 112 Copynumber: 2.0 Consensus size: 112
6095575 ATACTTATAT
* * *
6095585 TAAAGTATCAACACTTTCAATATATCCGGTAGCGCTTTATCGGTTTTGTCTTTTCGTGACCGGTT
1 TAAAGTATCAACACTTTCAATATATCCAGTAGCGCTTTACCGATTTTGTCTTTTCGTGACCGGTT
* * * * *
6095650 TTGTCATATTTTTACCTGTTATATCGTTGTGGGTCGATATATTTTTA
66 TTGTCATATTTTTACATGTTATATCGATATGGATCGATACATTTTTA
*
6095697 TAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTACCGATTTTGTCTTTTCGTGACCGGTT
1 TAAAGTATCAACACTTTCAATATATCCAGTAGCGCTTTACCGATTTTGTCTTTTCGTGACCGGTT
* * *
6095762 TTGTCATATTTTTACATGTTTTATTGATATGTATCGATACATTTTT
66 TTGTCATATTTTTACATGTTATATCGATATGGATCGATACATTTTT
6095808 TATTTGGATC
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 99 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (112 bp):
TAAAGTATCAACACTTTCAATATATCCAGTAGCGCTTTACCGATTTTGTCTTTTCGTGACCGGTT
TTGTCATATTTTTACATGTTATATCGATATGGATCGATACATTTTTA
Found at i:6097062 original size:21 final size:20
Alignment explanation
Indices: 6097037--6097075 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6097027 AAAGGATTAA
*
6097037 AATTTATAAATAATTTTAAAC
1 AATTTATAAA-AATATTAAAC
6097058 AATTTATAAAAATATTAA
1 AATTTATAAAAATATTAA
6097076 TATTACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTATAAAAATATTAAAC
Done.