Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 73
Found at i:9468755 original size:13 final size:13
Alignment explanation
Indices: 9468722--9468780 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
9468712 GGCAAAAACA
9468722 AAAAAGAAAAGAAG
1 AAAAA-AAAAGAAG
*
9468736 CAAAAAAGAAGAAG
1 -AAAAAAAAAGAAG
*
9468750 AAAAAAAAAGAAC
1 AAAAAAAAAGAAG
*
9468763 AAAAATCAAA-AAG
1 AAAAA-AAAAGAAG
9468776 AAAAA
1 AAAAA
9468781 GGGACAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
13 23 0.61
14 10 0.26
15 5 0.13
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:9468776 original size:26 final size:28
Alignment explanation
Indices: 9468722--9468781 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 28
9468712 GGCAAAAACA
* *
9468722 AAAAAGAAAAGAAGCAAAAAAGAAGAAG
1 AAAAAGAAAAGAAGCAAAAAACAAAAAG
*
9468750 AAAAA-AAAAGAA-CAAAAATCAAAAAG
1 AAAAAGAAAAGAAGCAAAAAACAAAAAG
9468776 AAAAAG
1 AAAAAG
9468782 GGACAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 16 0.57
27 7 0.25
28 5 0.18
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (28 bp):
AAAAAGAAAAGAAGCAAAAAACAAAAAG
Found at i:9470510 original size:106 final size:106
Alignment explanation
Indices: 9470391--9471653 Score: 1936
Period size: 106 Copynumber: 11.9 Consensus size: 106
9470381 CGAGATAACA
* * *
9470391 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-AGACTTCCCAAATTCAGAGCC
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACA-ACTTCCCAATTTCAGAGCC
*
9470455 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACA
65 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
9470497 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
9470562 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * *
9470603 CAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAATAAATAATTTCCTAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
9470668 ATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
9470709 CAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
9470774 ATTTCAACTTCATAGTGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
9470815 TAAGTTCAACTTCACGATGAAGGGACCGCTGATTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
9470880 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
9470921 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
9470986 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * * *
9471027 CAAGTTCAACTTCATGAAGAATGGACCGCTGGTTGTCAACAAACAATTTCCAAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
9471092 ATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
9471133 CAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
9471198 ATTTCAACTTCACAGTGAAGGATATTGGACTCTAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
**
9471239 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTTAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
9471304 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
9471345 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * *
9471410 ATTTCAACTTCACATCGAAGGATATTGGACTCGAGACAATG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * *
9471451 CAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTTCGGAGTCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * *
9471516 ATTTCAACTTCACAACAAAGGATATTGGACTCGAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * * * *
9471557 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCGATTCCAGAGCTA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
9471622 ATTTTAACTTCAC-GACGGAGGATATTGGACTC
66 ATTTCAACTTCACAG-CGAAGGATATTGGACTC
9471654 GGAACAAGGC
Statistics
Matches: 1064, Mismatches: 91, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
106 1063 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:9472422 original size:37 final size:37
Alignment explanation
Indices: 9472369--9472473 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
9472359 CCTTTTCGTC
*
9472369 CTACTAGGATTCAAACTCCTAAAAATAGGATATAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
9472406 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
9472443 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
9472474 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:9473015 original size:17 final size:18
Alignment explanation
Indices: 9472974--9473015 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9472964 ATATATTATA
9472974 TTTTTT-TTTATCTATGT
1 TTTTTTATTTATCTATGT
**
9472991 TTACTTATTTA-CTATGT
1 TTTTTTATTTATCTATGT
9473008 TTTTTTAT
1 TTTTTTAT
9473016 ATTTTCCTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTTTTATTTATCTATGT
Found at i:9473139 original size:13 final size:13
Alignment explanation
Indices: 9473107--9473163 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
9473097 ATTATATGTA
*
9473107 TATTTATTTTTCATT
1 TATTTATTATT-A-T
9473122 TATTTATTATTAT
1 TATTTATTATTAT
9473135 TATTT-TTATTTAT
1 TATTTATTA-TTAT
9473148 TATTTTATTA-TAT
1 TA-TTTATTATTAT
9473161 TAT
1 TAT
9473164 ACATACATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
12 4 0.11
13 17 0.45
14 4 0.11
15 13 0.34
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTATTATTAT
Found at i:9473142 original size:19 final size:18
Alignment explanation
Indices: 9473120--9473233 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 18
9473110 TTATTTTTCA
9473120 TTTATTTATTATTATTATT
1 TTTATTTATTATT-TTATT
9473139 TTTATTTATTATTTTATT
1 TTTATTTATTATTTTATT
** *
9473157 ATATTATACATACATTTTTATAT
1 -T-TTATTTAT-TA-TTTTAT-T
*
9473180 TTATATTT-TTATATTTATA
1 TT-TATTTATTAT-TTTATT
9473199 TTT-TTTATTATTTTATT
1 TTTATTTATTATTTTATT
9473216 TATACTATTTATTATTTT
1 T-T--TATTTATTATTTT
9473234 CATTATTTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
17 9 0.12
18 11 0.15
19 17 0.23
20 13 0.17
21 14 0.19
22 10 0.13
23 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTTATTATTTTATT
Found at i:9473155 original size:21 final size:21
Alignment explanation
Indices: 9473110--9473244 Score: 79
Period size: 21 Copynumber: 6.4 Consensus size: 21
9473100 ATATGTATAT
9473110 TTATTTTTCATTTATTTATTATTA
1 TTATTTTT-ATTTA-TTATT-TTA
9473134 TTATTTTTATTTATTATTTTA
1 TTATTTTTATTTATTATTTTA
* ** *
9473155 TTA-TATTATACATACATTTT-
1 TTATTTTTATTTAT-TATTTTA
*
9473175 TATATTTATATTT-TTATATTTA
1 T-TATTTTTATTTATTAT-TTTA
9473197 -TA--TTT-TTTATTATTTTA
1 TTATTTTTATTTATTATTTTA
**
9473214 TT-TATACTATTTATTATTTTCA
1 TTAT-TTTTATTTATTATTTT-A
9473236 TTATTTTTA
1 TTATTTTTA
9473245 GTTTCTTTTC
Statistics
Matches: 84, Mismatches: 14, Indels: 28
0.67 0.11 0.22
Matches are distributed among these distances:
17 7 0.08
18 7 0.08
20 13 0.15
21 28 0.33
22 15 0.18
23 6 0.07
24 8 0.10
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (21 bp):
TTATTTTTATTTATTATTTTA
Found at i:9473173 original size:51 final size:51
Alignment explanation
Indices: 9473118--9473244 Score: 136
Period size: 51 Copynumber: 2.5 Consensus size: 51
9473108 ATTTATTTTT
9473118 CATTTATTTATTATTATTATTTTTATTTAT-TATTTTATTATATTATACATA
1 CATTTATTTATT-TTATTATTTTTATTTATATATTTTATTATATTATACATA
* * * **
9473169 CATTT-TTATATTTATATT-TTTATATTTATATTTTTTATTATTTTATTTATA
1 CATTTATT-TATTT-TATTATTTTTATTTATATATTTTATTATATTATACATA
9473220 CTATTTA-TTATTTTCATTATTTTTA
1 C-ATTTATTTATTTT-ATTATTTTTA
9473245 GTTTCTTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
50 14 0.22
51 39 0.62
52 10 0.16
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (51 bp):
CATTTATTTATTTTATTATTTTTATTTATATATTTTATTATATTATACATA
Found at i:9473187 original size:14 final size:15
Alignment explanation
Indices: 9473170--9473233 Score: 71
Period size: 14 Copynumber: 4.3 Consensus size: 15
9473160 TTATACATAC
9473170 ATTTTTA-TATTTAT
1 ATTTTTACTATTTAT
9473184 ATTTTTA-TATTTAT
1 ATTTTTACTATTTAT
*
9473198 ATTTTTTATTATTT-T
1 A-TTTTTACTATTTAT
*
9473213 ATTTATACTATTTATT
1 ATTTTTACTATTTA-T
9473229 ATTTT
1 ATTTT
9473234 CATTATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
14 25 0.58
15 8 0.19
16 10 0.23
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTTACTATTTAT
Found at i:9473225 original size:30 final size:30
Alignment explanation
Indices: 9473082--9473242 Score: 104
Period size: 30 Copynumber: 5.3 Consensus size: 30
9473072 CTATGATTAC
*
9473082 TATT-TTTTAATTAATATTATATGTATATTTATT
1 TATTATTTT-ATTTATATTAT-T-TATATTT-TT
*
9473115 T-TTCA-TTTATTTATTATTA-TTATTTTTATT
1 TATT-ATTTTATTTA-TATTATTTATATTT-TT
** *
9473145 TATTATTTTA-TTATATTATACATACATTTT
1 TATTATTTTATTTATATTATTTATA-TTTTT
*
9473175 TA-TATTTATATTTTTA-TATTTATATTTTT
1 TATTATTT-TATTTATATTATTTATATTTTT
*
9473204 TATTATTTTATTTATACTATTTAT-TATTTT
1 TATTATTTTATTTATATTATTTATAT-TTTT
*
9473234 CATTATTTT
1 TATTATTTT
9473243 TAGTTTCTTT
Statistics
Matches: 104, Mismatches: 12, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
29 24 0.23
30 52 0.50
31 13 0.12
32 6 0.06
33 9 0.09
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.68
Consensus pattern (30 bp):
TATTATTTTATTTATATTATTTATATTTTT
Found at i:9473233 original size:59 final size:57
Alignment explanation
Indices: 9473110--9473241 Score: 128
Period size: 60 Copynumber: 2.3 Consensus size: 57
9473100 ATATGTATAT
* *
9473110 TTATTTTTCATTTATTTATTATTATTATTTTTATTTATTATTTTATTATATTATACA
1 TTATTTTTCATTTATTTATTATTATTATATTTATTTATTATTTTATTATACTATACA
* * * **
9473167 TACATTTTTATATTTATATTTTTA-TATTTATATTT-TTTATTATTTTATTTATACTATTTA
1 T-TATTTTT-CATTTAT-TTATTATTA-TTATATTTATTTATTATTTTA-TTATACTATACA
9473227 TTA-TTTTCA-TTATTT
1 TTATTTTTCATTTATTT
9473242 TTAGTTTCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
55 2 0.03
56 4 0.07
57 2 0.03
58 10 0.16
59 21 0.34
60 22 0.36
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (57 bp):
TTATTTTTCATTTATTTATTATTATTATATTTATTTATTATTTTATTATACTATACA
Found at i:9473351 original size:20 final size:19
Alignment explanation
Indices: 9473324--9473379 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
9473314 TTTTATCTTC
9473324 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
9473343 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
9473363 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
9473380 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:9475803 original size:16 final size:16
Alignment explanation
Indices: 9475782--9475814 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9475772 AAGAATCCCT
9475782 ACATTGACTATAAACA
1 ACATTGACTATAAACA
9475798 ACATTGACTATAAACA
1 ACATTGACTATAAACA
9475814 A
1 A
9475815 TTTATGCAAT
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:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (16 bp):
ACATTGACTATAAACA
Found at i:9478695 original size:58 final size:58
Alignment explanation
Indices: 9478474--9478735 Score: 229
Period size: 58 Copynumber: 4.6 Consensus size: 58
9478464 ATACTTCTAA
* * *
9478474 AAAATAAATTCAACGATTTATTTCTTTTTACAAAATAGAATCATAGT-TGATTCTCAAG
1 AAAATAAATTCAACGATTTATTTCCTTTTACAAAACAGAATCATAGTAAGATTC-CAAG
* * * *
9478532 -AAATAAATTCAACGATTTAATT-CTTTTACAAAACAGAATCATA-CAAGACTCCATG
1 AAAATAAATTCAACGATTTATTTCCTTTTACAAAACAGAATCATAGTAAGATTCCAAG
* ** ** *
9478587 AAAATAAATTTAAAAATTTATTTCCTTCGACAAAA-TGAA--ATAGTTCAAGATTTCCAAG
1 AAAATAAATTCAACGATTTATTTCCTTTTACAAAACAGAATCATAG-T-AAGA-TTCCAAG
* * * *
9478645 AAAATAAATTCAACGTTTTATTTCCATTTGCAAACCAGAATCATA-TAAGATT-CATAG
1 AAAATAAATTCAACGATTTATTTCCTTTTACAAAACAGAATCATAGTAAGATTCCA-AG
* *
9478702 AAAAATAAATTCAACAATTTATTTTCTTTT-CAAA
1 -AAAATAAATTCAACGATTTATTTCCTTTTACAAA
9478736 GTTAGAATCA
Statistics
Matches: 161, Mismatches: 31, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
54 3 0.02
55 3 0.02
56 46 0.29
57 42 0.26
58 60 0.37
59 4 0.02
61 3 0.02
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.34
Consensus pattern (58 bp):
AAAATAAATTCAACGATTTATTTCCTTTTACAAAACAGAATCATAGTAAGATTCCAAG
Found at i:9479582 original size:19 final size:20
Alignment explanation
Indices: 9479543--9479592 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
9479533 TTTTGTTATC
9479543 AAACATAATCAACATTTTTG
1 AAACATAATCAACATTTTTG
9479563 AAACATAATCAACA-TTTTG
1 AAACATAATCAACATTTTTG
*
9479582 AAACAAAATCA
1 AAACATAATCA
9479593 TTAATCAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.52, C:0.16, G:0.04, T:0.28
Consensus pattern (20 bp):
AAACATAATCAACATTTTTG
Found at i:9484256 original size:14 final size:14
Alignment explanation
Indices: 9484237--9484287 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
9484227 CGGTCAAAGG
*
9484237 GTTGACTCGGACGA
1 GTTGACTCGAACGA
** *
9484251 GTTGACTTAAATGA
1 GTTGACTCGAACGA
9484265 GTTGACTCGAACGA
1 GTTGACTCGAACGA
*
9484279 GTTAACTCG
1 GTTGACTCG
9484288 GTCGGGTCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (14 bp):
GTTGACTCGAACGA
Found at i:9485856 original size:60 final size:60
Alignment explanation
Indices: 9485787--9485923 Score: 197
Period size: 60 Copynumber: 2.3 Consensus size: 60
9485777 CGAGTAATCG
* *
9485787 TTTTGTAACTTTTTAT-GATCGAG-GGACTCAACAAAGTAATATTCTATAGTTGAAGGACTA
1 TTTTATAACTTTTTATAG-TCG-GTGGACACAACAAAGTAATATTCTATAGTTGAAGGACTA
* *
9485847 TTTTATAACTTTTGATAGTTGGTGGACACAACAAAGTAATATTCTATAGTTGAAGGACTA
1 TTTTATAACTTTTTATAGTCGGTGGACACAACAAAGTAATATTCTATAGTTGAAGGACTA
9485907 TTTTATAACATTTTTAT
1 TTTTATAAC-TTTTTAT
9485924 TTTGTTTCCA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
59 1 0.01
60 61 0.88
61 7 0.10
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (60 bp):
TTTTATAACTTTTTATAGTCGGTGGACACAACAAAGTAATATTCTATAGTTGAAGGACTA
Found at i:9491317 original size:45 final size:46
Alignment explanation
Indices: 9491224--9491329 Score: 162
Period size: 45 Copynumber: 2.3 Consensus size: 46
9491214 GATGCACTGC
*
9491224 TATGCATCGATGCACTCAGGTTTTTATGAAAACATCAAATGCATTT
1 TATGCATCGATGCACTCAGGTTGTTATGAAAACATCAAATGCATTT
* *
9491270 TATGCATCGATGCCCTCAGGGTTGTT-TG-AAACATCGAATGCATTT
1 TATGCATCGATGCACTCA-GGTTGTTATGAAAACATCAAATGCATTT
9491315 TATGCATCGATGCAC
1 TATGCATCGATGCAC
9491330 CCTTAGTGCA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 30 0.55
46 19 0.35
47 6 0.11
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (46 bp):
TATGCATCGATGCACTCAGGTTGTTATGAAAACATCAAATGCATTT
Found at i:9497127 original size:21 final size:21
Alignment explanation
Indices: 9497103--9497159 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 21
9497093 TTATGCGTAA
9497103 TGCATCGATACACTATGAATG
1 TGCATCGATACACTATGAATG
* *
9497124 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGAT--A-CACTATGAATG
9497148 TGCATCGATACA
1 TGCATCGATACA
9497160 TCATGAAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 10 0.33
22 1 0.03
23 1 0.03
24 18 0.60
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (21 bp):
TGCATCGATACACTATGAATG
Found at i:9497179 original size:45 final size:44
Alignment explanation
Indices: 9497103--9497200 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 44
9497093 TTATGCGTAA
9497103 TGCATCGATACACTATGAATGTGCATCGATGCA-TCCCTTTGAATG
1 TGCATCGATACACTATGAATGTGCATCGATGCACT-CC-TTGAATG
9497148 TGCATCGATACA-TCATGAA-GATGCA-CTGATGCACTCCTTGAATG
1 TGCATCGATACACT-ATGAATG-TGCATC-GATGCACTCCTTGAATG
9497192 TGCATCGAT
1 TGCATCGAT
9497201 GCACAATGCC
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
44 19 0.39
45 29 0.59
46 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
TGCATCGATACACTATGAATGTGCATCGATGCACTCCTTGAATG
Found at i:9499980 original size:64 final size:65
Alignment explanation
Indices: 9499866--9499989 Score: 207
Period size: 64 Copynumber: 1.9 Consensus size: 65
9499856 AATGCATTTT
*
9499866 ATGCATCGATGCACTCAGGTTTTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAAACC
1 ATGCATCGATGCACTCAGGTTGTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAAACC
*
9499931 ATGCATCGATGCCCTCAGGCTTGTT-TG-AAACATCGAATGCATTTTATGCATCGATGCAC
1 ATGCATCGATGCACTCAGG-TTGTTATGAAAACATCGAATGCATTTTATGCATCGATGCAC
9499990 CCTTAGTGCA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 32 0.57
65 20 0.36
66 4 0.07
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (65 bp):
ATGCATCGATGCACTCAGGTTGTTATGAAAACATCGAATGCATTTTATGCATCGATGCACAAACC
Found at i:9500073 original size:21 final size:21
Alignment explanation
Indices: 9500049--9500125 Score: 145
Period size: 21 Copynumber: 3.7 Consensus size: 21
9500039 TTTACACTTG
*
9500049 ATGCATTGATGCACCTTGAAT
1 ATGCATCGATGCACCTTGAAT
9500070 ATGCATCGATGCACCTTGAAT
1 ATGCATCGATGCACCTTGAAT
9500091 ATGCATCGATGCACCTTGAAT
1 ATGCATCGATGCACCTTGAAT
9500112 ATGCATCGATGCAC
1 ATGCATCGATGCAC
9500126 ACACGCTCCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCACCTTGAAT
Found at i:9513101 original size:19 final size:18
Alignment explanation
Indices: 9513077--9513127 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
9513067 ATACTCAAAA
9513077 TAATATTATTTTATAATTT
1 TAATATTATTTTAT-ATTT
* *
9513096 TAATATTAATATGATATTT
1 TAATATT-ATTTTATATTT
*
9513115 TAGTATTATTTTA
1 TAATATTATTTTA
9513128 ATAAAAATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 4 0.15
19 17 0.65
20 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
TAATATTATTTTATATTT
Found at i:9513106 original size:25 final size:27
Alignment explanation
Indices: 9513075--9513139 Score: 71
Period size: 30 Copynumber: 2.4 Consensus size: 27
9513065 AAATACTCAA
9513075 AATAATATTATTTTA-TA-ATTTTAAT
1 AATAATATTATTTTAGTATATTTTAAT
*
9513100 ATTAATATGATATTTTAGTATTATTTTAAT
1 AATAATAT--TATTTTAGTA-TATTTTAAT
*
9513130 AAAAATATTA
1 AATAATATTA
9513140 ATTATTAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 7 0.22
27 7 0.22
28 4 0.12
30 14 0.44
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
AATAATATTATTTTAGTATATTTTAAT
Found at i:9513145 original size:24 final size:25
Alignment explanation
Indices: 9513118--9513182 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 25
9513108 GATATTTTAG
9513118 TATTATTTTAATAAAA-ATATTAAT
1 TATTATTTTAATAAAATATATTAAT
** * *
9513142 TATTAACTTATTTAAAATATATTTAT
1 TATTATTTTA-ATAAAATATATTAAT
*
9513168 TAATATTTTTAATAA
1 TATTA-TTTTAATAA
9513183 TATAATATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
24 8 0.27
25 5 0.17
26 14 0.47
27 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTATTTTAATAAAATATATTAAT
Found at i:9513178 original size:12 final size:12
Alignment explanation
Indices: 9513150--9513202 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
9513140 ATTATTAACT
9513150 TATTTAA-AATA
1 TATTTAATAATA
*
9513161 TATTTATTAATA
1 TATTTAATAATA
*
9513173 TTTTTAATAATA
1 TATTTAATAATA
*
9513185 TAATATAATAATAA
1 T-ATTTAATAAT-A
9513199 TATT
1 TATT
9513203 ATTACAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 6 0.18
12 15 0.45
13 10 0.30
14 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATTTAATAATA
Found at i:9513247 original size:23 final size:23
Alignment explanation
Indices: 9513184--9513248 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
9513174 TTTTAATAAT
*
9513184 ATAATATAATAATAATATTATTACA
1 ATAATAT-ATAATATTA-TATTACA
* *
9513209 ATAATATACTCA-ATTATATTATA
1 ATAATATA-TAATATTATATTACA
*
9513232 ATAATATATGATATTAT
1 ATAATATATAATATTAT
9513249 TATATTCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.06
23 19 0.56
24 4 0.12
25 9 0.26
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (23 bp):
ATAATATATAATATTATATTACA
Found at i:9513638 original size:23 final size:21
Alignment explanation
Indices: 9513603--9513644 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
9513593 ATTCTAATAT
9513603 TTTTTAAATAATAATATTAAG
1 TTTTTAAATAATAATATTAAG
9513624 TTTTTATAATAAATAATATTA
1 TTTTTA-AAT-AATAATATTA
9513645 TTTATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTTTTAAATAATAATATTAAG
Found at i:9525112 original size:149 final size:139
Alignment explanation
Indices: 9524899--9525253 Score: 444
Period size: 149 Copynumber: 2.5 Consensus size: 139
9524889 GTTATTTGCA
* * ** * **
9524899 TTTTCTGGCATACTGCATTATTAATGACATGTTCTAAAGATTATTAATGGTTCGTTTTGACATTT
1 TTTTATGGCATCCTGCATTATTAATGACCCGTTCTGAAGATTATTAATGGCCCGTTTTGACATTT
* * *
9524964 TC-GAGAATGGTGCATTATTAGAGATGACATTTCATTGAAAAGTTGTTGAATATGA-TGATGGGA
66 TCAG-GAATGGTGCATTATTAGAGATGACATTTCACTGAAAAGTTATTGAAGATGATTGATGGG-
9525027 CACTGAAAAGCTGCTAAAAAG
129 ----G--AA-CTG---AAAAG
* * * *
9525048 TTTTGTGGCATCCTGCATTATTAATGACCCGTTTTGAAGATAACTAATGGCCCGTTTTGACATTT
1 TTTTATGGCATCCTGCATTATTAATGACCCGTTCTGAAGATTATTAATGGCCCGTTTTGACATTT
* *
9525113 TCAGGCATGGTGCATTATTAGAGATGACATTTCACTGAAAAGTTATTGAAGATGATTGATGGGGC
66 TCAGGAATGGTGCATTATTAGAGATGACATTTCACTGAAAAGTTATTGAAGATGATTGATGGGGA
9525178 ACTGAAAAG
131 ACTGAAAAG
9525187 TTTTATGGCATCCTGCATTATTAATGACCCGTTCTGAAGATTATTAATGGCCCGTTTTGACATTT
1 TTTTATGGCATCCTGCATTATTAATGACCCGTTCTGAAGATTATTAATGGCCCGTTTTGACATTT
9525252 TC
66 TC
9525254 TTGCTAAAAG
Statistics
Matches: 185, Mismatches: 19, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
139 68 0.37
142 3 0.02
143 1 0.01
145 1 0.01
149 104 0.56
150 8 0.04
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (139 bp):
TTTTATGGCATCCTGCATTATTAATGACCCGTTCTGAAGATTATTAATGGCCCGTTTTGACATTT
TCAGGAATGGTGCATTATTAGAGATGACATTTCACTGAAAAGTTATTGAAGATGATTGATGGGGA
ACTGAAAAG
Found at i:9525318 original size:14 final size:14
Alignment explanation
Indices: 9525299--9525325 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9525289 AAATCTTCAG
9525299 CAAAAACCTTTCTC
1 CAAAAACCTTTCTC
9525313 CAAAAACCTTTCT
1 CAAAAACCTTTCT
9525326 GAAGCTATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (14 bp):
CAAAAACCTTTCTC
Found at i:9527341 original size:21 final size:22
Alignment explanation
Indices: 9527302--9527354 Score: 99
Period size: 21 Copynumber: 2.5 Consensus size: 22
9527292 CAGATTGCCC
9527302 AGAGGGTACCGATACCCCCCCA
1 AGAGGGTACCGATACCCCCCCA
9527324 AGAGGGTACCGATA-CCCCCCA
1 AGAGGGTACCGATACCCCCCCA
9527345 AGAGGGTACC
1 AGAGGGTACC
9527355 AAGACCCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.28, C:0.36, G:0.26, T:0.09
Consensus pattern (22 bp):
AGAGGGTACCGATACCCCCCCA
Found at i:9544680 original size:28 final size:28
Alignment explanation
Indices: 9544640--9544701 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
9544630 AATATCAATA
9544640 ATTTAACTAAACTCAAATTCATACATAT
1 ATTTAACTAAACTCAAATTCATACATAT
9544668 ATTTAACTAAACTCAAATTCATACATAT
1 ATTTAACTAAACTCAAATTCATACATAT
9544696 ATTTAA
1 ATTTAA
9544702 AACATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (28 bp):
ATTTAACTAAACTCAAATTCATACATAT
Found at i:9546578 original size:3 final size:3
Alignment explanation
Indices: 9546572--9546601 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
9546562 GAAATGGAGG
*
9546572 AGA AGA AGA ACA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
9546602 CTATGAAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:9551954 original size:19 final size:20
Alignment explanation
Indices: 9551916--9551956 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
9551906 ACGACTATAA
*
9551916 ATTTTAAATTAAAAATTATT
1 ATTTTAAATGAAAAATTATT
9551936 ATTTTAAATGAAAAA-TATT
1 ATTTTAAATGAAAAATTATT
9551955 AT
1 AT
9551957 ATTTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTTAAATGAAAAATTATT
Found at i:9551959 original size:21 final size:20
Alignment explanation
Indices: 9551916--9551968 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
9551906 ACGACTATAA
*
9551916 ATTTTAAATTAAAAATTATT
1 ATTTTAAATAAAAAATTATT
9551936 ATTTTAAATGAAAAATATTA-T
1 ATTTTAAAT-AAAAA-ATTATT
9551957 ATTTT-AATAAAA
1 ATTTTAAATAAAA
9551969 CTCGTCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.13
20 12 0.40
21 10 0.33
22 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTTAAATAAAAAATTATT
Found at i:9557735 original size:29 final size:29
Alignment explanation
Indices: 9557680--9557735 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
9557670 GAGATATAAC
*
9557680 AAAAATAAATATTTATCAAAAGTATAATA
1 AAAAATAAATATTTATCAAAAGCATAATA
*
9557709 AAAAATAAATATTTATCAAAGGCATAA
1 AAAAATAAATATTTATCAAAAGCATAA
9557736 CTAATCCAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (29 bp):
AAAAATAAATATTTATCAAAAGCATAATA
Found at i:9561087 original size:20 final size:20
Alignment explanation
Indices: 9561043--9561092 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
9561033 CTTTTTAAGC
*
9561043 CTTTAAACTCAACTACATTA
1 CTTTAAACTCAACTACATCA
*
9561063 ATTTAAA-TCAACTTACATCA
1 CTTTAAACTCAAC-TACATCA
9561083 CTTT-AACTCA
1 CTTTAAACTCA
9561093 TCTAAACATC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (20 bp):
CTTTAAACTCAACTACATCA
Found at i:9562290 original size:20 final size:20
Alignment explanation
Indices: 9562248--9562290 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9562238 GGGATGCGGT
* **
9562248 AGGACGTGGTACTCTGTGGG
1 AGGACGTGGCACTCTGTAAG
*
9562268 AGGATGTGGCACTCTGTAAG
1 AGGACGTGGCACTCTGTAAG
9562288 AGG
1 AGG
9562291 GTTATCGTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.42, T:0.23
Consensus pattern (20 bp):
AGGACGTGGCACTCTGTAAG
Found at i:9563931 original size:154 final size:154
Alignment explanation
Indices: 9563651--9563961 Score: 622
Period size: 154 Copynumber: 2.0 Consensus size: 154
9563641 TTATTTGACA
9563651 GACTTGGAGGAGCAAAGGTGTACACGAAGATGGACTTGCAAAAAGGCTACTACCAAGTTTGAATT
1 GACTTGGAGGAGCAAAGGTGTACACGAAGATGGACTTGCAAAAAGGCTACTACCAAGTTTGAATT
9563716 GCGGAAGGCGACTAGCCAAAGACTGCATGCATCACCCGATATGGGTCGTACGAGTGGTTGGTCAT
66 GCGGAAGGCGACTAGCCAAAGACTGCATGCATCACCCGATATGGGTCGTACGAGTGGTTGGTCAT
9563781 GCCCTTTGGTCTAACCAATGCACC
131 GCCCTTTGGTCTAACCAATGCACC
9563805 GACTTGGAGGAGCAAAGGTGTACACGAAGATGGACTTGCAAAAAGGCTACTACCAAGTTTGAATT
1 GACTTGGAGGAGCAAAGGTGTACACGAAGATGGACTTGCAAAAAGGCTACTACCAAGTTTGAATT
9563870 GCGGAAGGCGACTAGCCAAAGACTGCATGCATCACCCGATATGGGTCGTACGAGTGGTTGGTCAT
66 GCGGAAGGCGACTAGCCAAAGACTGCATGCATCACCCGATATGGGTCGTACGAGTGGTTGGTCAT
9563935 GCCCTTTGGTCTAACCAATGCACC
131 GCCCTTTGGTCTAACCAATGCACC
9563959 GAC
1 GAC
9563962 GACGTTTTGC
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 157 1.00
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (154 bp):
GACTTGGAGGAGCAAAGGTGTACACGAAGATGGACTTGCAAAAAGGCTACTACCAAGTTTGAATT
GCGGAAGGCGACTAGCCAAAGACTGCATGCATCACCCGATATGGGTCGTACGAGTGGTTGGTCAT
GCCCTTTGGTCTAACCAATGCACC
Found at i:9569555 original size:23 final size:23
Alignment explanation
Indices: 9569528--9569636 Score: 110
Period size: 23 Copynumber: 4.7 Consensus size: 23
9569518 TGTATTGTCT
9569528 CGAAGGATCGTGTAGAAATATCC
1 CGAAGGATCGTGTAGAAATATCC
* * *
9569551 TGAAGGATCATGTAGAAATGTCC
1 CGAAGGATCGTGTAGAAATATCC
* *
9569574 CGAAGGATCGTGTAGAAATGTCT
1 CGAAGGATCGTGTAGAAATATCC
* * *** *
9569597 CAAAGGAGCACATAGAATTATCC
1 CGAAGGATCGTGTAGAAATATCC
*
9569620 CGAAGGACCGTGTAGAA
1 CGAAGGATCGTGTAGAA
9569637 CCCTCTGCTC
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.21
Consensus pattern (23 bp):
CGAAGGATCGTGTAGAAATATCC
Found at i:9569578 original size:46 final size:46
Alignment explanation
Indices: 9569523--9569636 Score: 131
Period size: 46 Copynumber: 2.5 Consensus size: 46
9569513 CACATTGTAT
* * * **
9569523 TGTCTCGAAGGATCGTGTAGAAATATC-CTGAAGGATCATGTAGAAA
1 TGTCCCGAAGGATCGTGTAGAAATATCTC-AAAGGAGCACATAGAAA
* *
9569569 TGTCCCGAAGGATCGTGTAGAAATGTCTCAAAGGAGCACATAGAAT
1 TGTCCCGAAGGATCGTGTAGAAATATCTCAAAGGAGCACATAGAAA
* *
9569615 TATCCCGAAGGACCGTGTAGAA
1 TGTCCCGAAGGATCGTGTAGAA
9569637 CCCTCTGCTC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 57 0.98
47 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (46 bp):
TGTCCCGAAGGATCGTGTAGAAATATCTCAAAGGAGCACATAGAAA
Found at i:9569909 original size:45 final size:45
Alignment explanation
Indices: 9569825--9569910 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
9569815 GCATTGTCAT
* **
9569825 ATAGTTTATATCACATGTTCATATAATCACTTAGATCAATACCAC
1 ATAGCTTATATCACATGTTCATATAATCACACAGATCAATACCAC
* * *
9569870 ATAGCTTATATCATAT-TCTCATGTAATCACACAGGTCAATA
1 ATAGCTTATATCACATGT-TCATATAATCACACAGATCAATA
9569911 TCATATATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.03
45 33 0.97
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (45 bp):
ATAGCTTATATCACATGTTCATATAATCACACAGATCAATACCAC
Found at i:9572735 original size:13 final size:13
Alignment explanation
Indices: 9572717--9572761 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
9572707 GTCATAAATC
9572717 TATGACACGCATT
1 TATGACACGCATT
9572730 TATGACACGCATT
1 TATGACACGCATT
* *
9572743 TATGACGCACATT
1 TATGACACGCATT
9572756 TATGAC
1 TATGAC
9572762 GCTCATTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (13 bp):
TATGACACGCATT
Found at i:9572762 original size:13 final size:13
Alignment explanation
Indices: 9572726--9572768 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
9572716 CTATGACACG
* *
9572726 CATTTATGACACG
1 CATTTATGACGCA
9572739 CATTTATGACGCA
1 CATTTATGACGCA
*
9572752 CATTTATGACGCT
1 CATTTATGACGCA
9572765 CATT
1 CATT
9572769 GTGCGTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (13 bp):
CATTTATGACGCA
Found at i:9572846 original size:85 final size:84
Alignment explanation
Indices: 9572740--9572899 Score: 232
Period size: 85 Copynumber: 1.9 Consensus size: 84
9572730 TATGACACGC
* * *
9572740 ATTTATGACGCACATTTATGACGCT-CATTGTGCGTCATTGAAGACCCCGTCATAAATGAAGATG
1 ATTTATGACACACATGTATGAC-CTACATTGCGCGTCATTGAAG-CCCCGTCATAAATGAAGATG
*
9572804 ACACACATTTGTGTGTCATAA
64 ACAAACATTTGTGTGTCATAA
* * *
9572825 ATTTATGACACGCATGTATGACTTACATTGCGTGTCATTGAAGCCCCGTCATAAATGAAGATGAC
1 ATTTATGACACACATGTATGACCTACATTGCGCGTCATTGAAGCCCCGTCATAAATGAAGATGAC
9572890 AAACATTTGT
66 AAACATTTGT
9572900 ATGACTTACA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
84 32 0.48
85 35 0.52
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (84 bp):
ATTTATGACACACATGTATGACCTACATTGCGCGTCATTGAAGCCCCGTCATAAATGAAGATGAC
AAACATTTGTGTGTCATAA
Found at i:9577599 original size:30 final size:30
Alignment explanation
Indices: 9577563--9577619 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
9577553 GGTAGGTTGG
9577563 ATTGGGTCAATATCATATTGATTGATTTTA
1 ATTGGGTCAATATCATATTGATTGATTTTA
*
9577593 ATTGGGTTAATATCATATTGATTGATT
1 ATTGGGTCAATATCATATTGATTGATT
9577620 AGTTTTTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (30 bp):
ATTGGGTCAATATCATATTGATTGATTTTA
Found at i:9585133 original size:13 final size:13
Alignment explanation
Indices: 9585112--9585141 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9585102 AGAAAAGTAT
*
9585112 ATTTTTATGGAAC
1 ATTTCTATGGAAC
9585125 ATTTCTATGGAAC
1 ATTTCTATGGAAC
9585138 ATTT
1 ATTT
9585142 AGGGTTCAAA
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:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (13 bp):
ATTTCTATGGAAC
Found at i:9589144 original size:131 final size:132
Alignment explanation
Indices: 9588910--9589299 Score: 549
Period size: 131 Copynumber: 3.0 Consensus size: 132
9588900 GATTTTAAGG
*
9588910 GAGAAAACGAT-AATATCTAATTATTTCCATTCGAGAATAAATGACCTCTCATGCCTTAAA-ACA
1 GAGAAAACGATGAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGA-A
* * * * *
9588973 ATCATTTATTACTCCAATCAAAATGAAGAGACATCACTATTTCGTCTTAAAATTCAATATTGATT
65 GTCATTTATTACTCCAATCGAAATAAAGAGATATCACTATTTTGTCTTAAAATTCAATATTGATT
9589038 CGA
130 CGA
* *
9589041 GAGAAAACAATGAA-ATCTAATTATTTCCAATCGAGAATAAATGACCTCTCGTGCCTTAAAGAAG
1 GAGAAAACGATGAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGAAG
* * *
9589105 TCATTTATTACTCTAATCGAAATAAAGAGATATCACTATTTTGGCTTAAAAATCAATATTGATTC
66 TCATTTATTACTCCAATCGAAATAAAGAGATATCACTATTTTGTCTTAAAATTCAATATTGATTC
9589170 GA
131 GA
* * * *
9589172 GAG-AAA-GTTGTAATATCTAATTATTTCCAATCGAGAATAAATTACCTCTCACGCCTTAAAGCA
1 GAGAAAACGATG-AATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGAA
* * *
9589235 GTCATTTATTACTCCAACCGAAATGAAA-AGATATTACTATTTTGTCCTAAAATTCAATATTGAT
65 GTCATTTATTACTCCAATCGAAAT-AAAGAGATATCACTATTTTGTCTTAAAATTCAATATTGAT
9589299 T
129 T
9589300 TGAGTGTTAC
Statistics
Matches: 231, Mismatches: 23, Indels: 10
0.88 0.09 0.04
Matches are distributed among these distances:
129 2 0.01
130 5 0.02
131 218 0.94
132 6 0.03
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (132 bp):
GAGAAAACGATGAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGAAG
TCATTTATTACTCCAATCGAAATAAAGAGATATCACTATTTTGTCTTAAAATTCAATATTGATTC
GA
Found at i:9589775 original size:62 final size:62
Alignment explanation
Indices: 9589706--9589844 Score: 151
Period size: 62 Copynumber: 2.2 Consensus size: 62
9589696 AAAACTAATT
*
9589706 AGTGACTAAAAT-AAAATAACATAAAAGT-AACATGT-AAAAATTAAAATAAAACAAAATGCAAA
1 AGTGACTAAAATGAAAACAA-AT-AAA-TCAACATGTCAAAAATTAAAATAAAACAAAATGCAAA
* * * * * *
9589768 TAG-GACTAGAATGTAAACAAATAAATCATCATGTCAAAAATTAAAATAAAATAAAGTGTAAA
1 -AGTGACTAAAATGAAAACAAATAAATCAACATGTCAAAAATTAAAATAAAACAAAATGCAAA
9589830 AGTGACTAAAATGAA
1 AGTGACTAAAATGAA
9589845 CATTTTTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
60 1 0.02
61 11 0.17
62 44 0.70
63 7 0.11
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.22
Consensus pattern (62 bp):
AGTGACTAAAATGAAAACAAATAAATCAACATGTCAAAAATTAAAATAAAACAAAATGCAAA
Found at i:9591343 original size:24 final size:25
Alignment explanation
Indices: 9591298--9591344 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
9591288 CCTAAAGAAA
* **
9591298 AAAATATAATAATAATCTAAATACG
1 AAAATATAAAAATAATAGAAATACG
9591323 AAAATA-AAAAATAATAGAAATA
1 AAAATATAAAAATAATAGAAATA
9591345 ATAATAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAATATAAAAATAATAGAAATACG
Found at i:9591461 original size:30 final size:29
Alignment explanation
Indices: 9591422--9591491 Score: 104
Period size: 30 Copynumber: 2.4 Consensus size: 29
9591412 TATTTTAAAA
*
9591422 TTAAGATAAAAATAAAAAATAATTTTGTAG
1 TTAAAATAAAAATAAAAAATAATTTT-TAG
*
9591452 TTAAAATAAAAATAAAATATAATTTTTAG
1 TTAAAATAAAAATAAAAAATAATTTTTAG
*
9591481 TTGAAATAAAA
1 TTAAAATAAAA
9591492 TATATTTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (29 bp):
TTAAAATAAAAATAAAAAATAATTTTTAG
Found at i:9591466 original size:23 final size:23
Alignment explanation
Indices: 9591430--9591539 Score: 66
Period size: 22 Copynumber: 4.6 Consensus size: 23
9591420 AATTAAGATA
9591430 AAAATAAAAAATAATTTTGTAGTT
1 AAAAT-AAAAATAATTTTGTAGTT
*
9591454 AAAATAAAAATAAAATATAATTTTTAGTT
1 AAAATAAAAAT---A-AT--TTTGTAGTT
* *
9591483 GAAATAAAATATATTTTTG-AGTT
1 AAAATAAAA-ATAATTTTGTAGTT
* *
9591506 -AAATAAAAAT-ATTTT-TAAATG
1 AAAATAAAAATAATTTTGT-AGTT
9591527 AAAATAAAAATAA
1 AAAATAAAAATAA
9591540 AATATATATT
Statistics
Matches: 68, Mismatches: 7, Indels: 23
0.69 0.07 0.23
Matches are distributed among these distances:
20 4 0.06
21 4 0.06
22 18 0.26
23 11 0.16
24 8 0.12
26 2 0.03
27 3 0.04
29 16 0.24
30 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (23 bp):
AAAATAAAAATAATTTTGTAGTT
Found at i:9591517 original size:21 final size:22
Alignment explanation
Indices: 9591461--9591522 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 22
9591451 GTTAAAATAA
9591461 AAATAAAATATAATTTTTAGTTG
1 AAATAAAATAT-ATTTTTAGTTG
9591484 AAATAAAATATATTTTTGAGTT-
1 AAATAAAATATATTTTT-AGTTG
9591506 AAATAAAA-ATATTTTTA
1 AAATAAAATATATTTTTA
9591523 AATGAAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.03
21 8 0.21
22 14 0.37
23 15 0.39
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (22 bp):
AAATAAAATATATTTTTAGTTG
Found at i:9591531 original size:22 final size:21
Alignment explanation
Indices: 9591455--9591538 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 21
9591445 TTTGTAGTTA
9591455 AAATAAAAATAAAATATAATTTTT
1 AAAT-AAAATAAAA-AT-ATTTTT
** *
9591479 AGTTGAAATAAAATATATTTTT
1 AAATAAAATAAAA-ATATTTTT
* * *
9591501 GAGTTAAATAAAAATATTTTT
1 AAATAAAATAAAAATATTTTT
9591522 AAATGAAAATAAAAATA
1 AAAT-AAAATAAAAATA
9591539 AAATATATAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
21 10 0.20
22 26 0.53
23 11 0.22
24 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (21 bp):
AAATAAAATAAAAATATTTTT
Found at i:9591558 original size:30 final size:30
Alignment explanation
Indices: 9591506--9591574 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
9591496 TTTTTGAGTT
**
9591506 AAATAAAA-ATATTTTTAAATGAAAAT-AA
1 AAATAAAATATATTTGAAAATGAAAATGAA
9591534 AAATAAAATATATATTGAAAATGAAAATGAA
1 AAATAAAATATAT-TTGAAAATGAAAATGAA
*
9591565 AATTAAAATA
1 AAATAAAATA
9591575 AAATATACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 8 0.23
29 4 0.11
30 12 0.34
31 11 0.31
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (30 bp):
AAATAAAATATATTTGAAAATGAAAATGAA
Found at i:9591655 original size:28 final size:29
Alignment explanation
Indices: 9591600--9591660 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
9591590 GTTAAAGAAT
* *
9591600 AATATATTTTCAGTTAAAATAAGAATAAA
1 AATATATTTTCAGATAAAATAAAAATAAA
* * *
9591629 AATATATTTTTA-ATAAATTAAAAATAAG
1 AATATATTTTCAGATAAAATAAAAATAAA
9591657 AATA
1 AATA
9591661 ATATATATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (29 bp):
AATATATTTTCAGATAAAATAAAAATAAA
Found at i:9591664 original size:29 final size:32
Alignment explanation
Indices: 9591594--9591666 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 32
9591584 TTTTAAGTTA
* *
9591594 AAGAATAATATATTTTCAGTTAAAATAAGAAT
1 AAGAATAATATATTTTCAGATAAAATAAAAAT
* *
9591626 -A-AA-AATATATTTTTA-ATAAATTAAAAAT
1 AAGAATAATATATTTTCAGATAAAATAAAAAT
9591654 AAGAATAATATAT
1 AAGAATAATATAT
9591667 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
28 10 0.29
29 12 0.35
30 4 0.12
31 8 0.24
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (32 bp):
AAGAATAATATATTTTCAGATAAAATAAAAAT
Found at i:9591675 original size:87 final size:87
Alignment explanation
Indices: 9591484--9591676 Score: 198
Period size: 87 Copynumber: 2.2 Consensus size: 87
9591474 TTTTTAGTTG
* *
9591484 AAAT-AAA-ATATATTTTTGAGTTAAATAAAAATATTTTTAAATGAAAATAAAAATAAAATATAT
1 AAATAAAATATATATTTTTAAGTTAAAGAAAAATATTTTTAAATGAAAATAAAAATAAAATATAT
*
9591547 ATTGAAAATGAAAATGAAAATTA
66 ATTGAAAAT-AAAATGAAAAATA
* * * * * *
9591570 AAATAAAATATACA-TTTTAAGTTAAAGAATAATATATTTTCAGTTAAAATAAGAATAAAA-ATA
1 AAATAAAATATATATTTTTAAGTTAAAGAAAAATAT-TTTTAAATGAAAATAAAAATAAAATATA
*** *
9591633 TATTTTTAAT-AAATTAAAAATA
65 TATTGAAAATAAAATGAAAAATA
*
9591655 AGAATAATATATATATTTTTAA
1 A-AATAAAATATATATTTTTAA
9591677 TTGAATCTGA
Statistics
Matches: 87, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
85 11 0.13
86 15 0.17
87 37 0.43
88 24 0.28
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (87 bp):
AAATAAAATATATATTTTTAAGTTAAAGAAAAATATTTTTAAATGAAAATAAAAATAAAATATAT
ATTGAAAATAAAATGAAAAATA
Found at i:9597982 original size:17 final size:16
Alignment explanation
Indices: 9597942--9597984 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
9597932 GGAGCTCAAA
9597942 ATTAATGGA-AGATTT
1 ATTAATGGATAGATTT
*
9597957 ATCATATGGATAGATTT
1 ATTA-ATGGATAGATTT
9597974 ATTAGATGGAT
1 ATTA-ATGGAT
9597985 GTGAAGTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 3 0.13
16 5 0.22
17 15 0.65
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (16 bp):
ATTAATGGATAGATTT
Found at i:9598194 original size:19 final size:19
Alignment explanation
Indices: 9598170--9598215 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
9598160 GAGAGACATA
9598170 TTCAGATTCTATCAGTGAT
1 TTCAGATTCTATCAGTGAT
*
9598189 TTCAGATTCTATCGGTGAT
1 TTCAGATTCTATCAGTGAT
9598208 TTCAGATT
1 TTCAGATT
9598216 TCATTCGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.43
Consensus pattern (19 bp):
TTCAGATTCTATCAGTGAT
Found at i:9599360 original size:27 final size:27
Alignment explanation
Indices: 9599309--9599397 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
9599299 AGGCTTGGGG
* * * * *
9599309 GTATTTTAGGTTATTTCACACTTCAAGG
1 GTATTTT-GGTCATTTTACAATTCATGA
9599337 GTATTTTGGTCATTTTACAATTCATGA
1 GTATTTTGGTCATTTTACAATTCATGA
9599364 GTATTTTGGTCATTTTACAATTCATGA
1 GTATTTTGGTCATTTTACAATTCATGA
9599391 GTATTTT
1 GTATTTT
9599398 AGCCCTTTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 49 0.88
28 7 0.12
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (27 bp):
GTATTTTGGTCATTTTACAATTCATGA
Found at i:9602972 original size:191 final size:191
Alignment explanation
Indices: 9602648--9603014 Score: 734
Period size: 191 Copynumber: 1.9 Consensus size: 191
9602638 CGTCTACGTA
9602648 TCCCGCGACTCCGTTTCACAATCTTCTTGCACACCAATGCTTGTCTCGTCGGCGCCGTGTTCGCC
1 TCCCGCGACTCCGTTTCACAATCTTCTTGCACACCAATGCTTGTCTCGTCGGCGCCGTGTTCGCC
9602713 GCTGCCATCGGCCTGTTGGATTCTGGACCCAACATTTGTTTGACGAGGTGGTGGTTGTTGGAGCC
66 GCTGCCATCGGCCTGTTGGATTCTGGACCCAACATTTGTTTGACGAGGTGGTGGTTGTTGGAGCC
9602778 GTCTTTGGAAGCATTGGAAATGAGGGCACGACTCCAACAAGTGGTACCGTTTCTTGCAGAC
131 GTCTTTGGAAGCATTGGAAATGAGGGCACGACTCCAACAAGTGGTACCGTTTCTTGCAGAC
9602839 TCCCGCGACTCCGTTTCACAATCTTCTTGCACACCAATGCTTGTCTCGTCGGCGCCGTGTTCGCC
1 TCCCGCGACTCCGTTTCACAATCTTCTTGCACACCAATGCTTGTCTCGTCGGCGCCGTGTTCGCC
9602904 GCTGCCATCGGCCTGTTGGATTCTGGACCCAACATTTGTTTGACGAGGTGGTGGTTGTTGGAGCC
66 GCTGCCATCGGCCTGTTGGATTCTGGACCCAACATTTGTTTGACGAGGTGGTGGTTGTTGGAGCC
9602969 GTCTTTGGAAGCATTGGAAATGAGGGCACGACTCCAACAAGTGGTA
131 GTCTTTGGAAGCATTGGAAATGAGGGCACGACTCCAACAAGTGGTA
9603015 TCCATTCTTG
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 176 1.00
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.28
Consensus pattern (191 bp):
TCCCGCGACTCCGTTTCACAATCTTCTTGCACACCAATGCTTGTCTCGTCGGCGCCGTGTTCGCC
GCTGCCATCGGCCTGTTGGATTCTGGACCCAACATTTGTTTGACGAGGTGGTGGTTGTTGGAGCC
GTCTTTGGAAGCATTGGAAATGAGGGCACGACTCCAACAAGTGGTACCGTTTCTTGCAGAC
Found at i:9603335 original size:19 final size:20
Alignment explanation
Indices: 9603311--9603348 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9603301 GAAGTTTCAG
9603311 AGTGAAACAG-ATCCAAGAA
1 AGTGAAACAGAATCCAAGAA
*
9603330 AGTGAATCAGAATCCAAGA
1 AGTGAAACAGAATCCAAGA
9603349 GATGGAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.16, G:0.21, T:0.13
Consensus pattern (20 bp):
AGTGAAACAGAATCCAAGAA
Found at i:9604259 original size:10 final size:10
Alignment explanation
Indices: 9604244--9604270 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9604234 TTTTAACAAT
9604244 TTAAAATTGA
1 TTAAAATTGA
9604254 TTAAAATTGA
1 TTAAAATTGA
9604264 TTAAAAT
1 TTAAAAT
9604271 AGTTTATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
TTAAAATTGA
Found at i:9605707 original size:258 final size:264
Alignment explanation
Indices: 9605086--9605710 Score: 958
Period size: 265 Copynumber: 2.4 Consensus size: 264
9605076 CTTATTCATA
* *
9605086 TATTGAATAAAAATATTTTTTTATTATTTCGGGTTGGGTCGGGTTTCTAATTCATATATTCGGGT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCAGGTTTCTAATTCATATATTCGGGT
*
9605151 CGGGTCGGGTGAAACTTTATTTTGGTC---T--GGTCGATTTTTTAAGTGTGATATTTGGGTTGG
66 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGATTTTTTAAGTGTGATA-TT--GTCGG
*
9605211 GTCGAGTTCGGGTTTAGGGTGAAAAATACCTGACCCGACCCGACCCGACCCGAAAATATATATAA
128 GTCGAGGTCGGGTTTAGGGTGAAAAATA-CTGACCCGACCCGACCCGA--C-AAAATATATATAA
9605276 TTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAA
189 TTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAA
* *
9605341 GTCATTGTTTT
254 GTCACTATTTT
9605352 TATTGAATAAAAATA-TTTTTTATTATTTCGGGTCGGGTCAGGTTTCTAATTCATATATTCGGGT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCAGGTTTCTAATTCATATATTCGGGT
9605416 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGAGTTTTTTAAGTGTGATA-T-TCGGGT
66 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGA-TTTTTTAAGTGTGATATTGTCGGGT
9605479 CG-GGTCGGGTTTAGGGTG-AAAA-A-T-ACCCGACCCGACCC-A-AAAA-ATATATAATTTTAC
130 CGAGGTCGGGTTTAGGGTGAAAAATACTGACCCGACCCGACCCGACAAAATATATATAATTTTAC
9605536 CTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTTTCAATTAAGTCA
195 CTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAA--TTTTTTTCAATTAAGTCA
9605601 CTATTTT
258 CTATTTT
* *
9605608 TATTGAATAAAAATAATTTTTTTATTATTTCGGGTCGGGTCATGTTTCTAATTCATATATTCAGG
1 TATTGAATAAAAAT-ATTTTTTTATTATTTCGGGTCGGGTCAGGTTTCTAATTCATATATTCGGG
*
9605673 TCGGGTCGGGTAAAACTTTATTTTGGTCGGGTCGGGTC
65 TCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC
9605711 TCGGATGGAG
Statistics
Matches: 340, Mismatches: 9, Indels: 28
0.90 0.02 0.07
Matches are distributed among these distances:
254 59 0.17
255 4 0.01
256 37 0.11
257 1 0.00
258 83 0.24
259 1 0.00
260 14 0.04
261 1 0.00
263 1 0.00
264 4 0.01
265 89 0.26
266 22 0.06
268 1 0.00
269 1 0.00
270 6 0.02
271 16 0.05
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (264 bp):
TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCAGGTTTCTAATTCATATATTCGGGT
CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGATTTTTTAAGTGTGATATTGTCGGGTC
GAGGTCGGGTTTAGGGTGAAAAATACTGACCCGACCCGACCCGACAAAATATATATAATTTTACC
TTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACTA
TTTT
Found at i:9606052 original size:18 final size:17
Alignment explanation
Indices: 9606015--9606061 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
9606005 TATGAAATTG
*
9606015 GATTCCAATTCCTGACA
1 GATTCCAATTCCTCACA
*
9606032 GATTCAAATTCCTTCACA
1 GATTCCAATTCC-TCACA
9606050 GATTCCAATTCC
1 GATTCCAATTCC
9606062 CTCAGAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:9606572 original size:22 final size:22
Alignment explanation
Indices: 9606546--9606588 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9606536 GTTCTTAATA
9606546 TTTAATCATATTTTA-TAATTAT
1 TTTAAT-ATATTTTATTAATTAT
*
9606568 TTTAATATTTTTTATTAATTA
1 TTTAATATATTTTATTAATTA
9606589 ATATGACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTAATATATTTTATTAATTAT
Found at i:9615993 original size:83 final size:82
Alignment explanation
Indices: 9615906--9616148 Score: 210
Period size: 83 Copynumber: 2.9 Consensus size: 82
9615896 TACTACACTG
**
9615906 TTGCAGCATTCA-TGAGAAAAAAACCACTATAGGTGAACCCTATTACAACATTTGTATAAAAACA
1 TTGCAGCATT-ATTGA-AAAAATGCCACTATAGG-GAACCCTATTACAACATTTGTATAAAAAC-
9615970 CAGCTAAAGTACTAAT-T-TT
62 CAGCTAAAGTACTAATATGTT
* * * * * * * **
9615989 TTGCAACGTTTATTGAAACAATGCTACTATAGGCGAACCATATTACAACGTTTATATAAAATGGC
1 TTGCAGC-ATTATTGAAAAAATGCCACTATAGG-GAACCCTATTACAACATTTGTATAAAA-ACC
*
9616054 TGCTAAAGTACTAATATGTT
63 AGCTAAAGTACTAATATGTT
* * * *
9616074 TTG-ATG-ATTATTGAACAAATGCCACTATAGAGGAACCCTATTACGATATTTGTATAAAATGCC
1 TTGCA-GCATTATTGAAAAAATGCCACTATAG-GGAACCCTATTACAACATTTGTATAAAA-ACC
9616137 A-CTAAAGTACTA
63 AGCTAAAGTACTA
9616149 CTCTATTACA
Statistics
Matches: 128, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
82 11 0.09
83 104 0.81
84 8 0.06
85 5 0.04
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (82 bp):
TTGCAGCATTATTGAAAAAATGCCACTATAGGGAACCCTATTACAACATTTGTATAAAAACCAGC
TAAAGTACTAATATGTT
Found at i:9631039 original size:42 final size:44
Alignment explanation
Indices: 9630992--9631086 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
9630982 TTGTGCTTCA
* *
9630992 TGCATCGATACACC-T-AACAGTGCATCGATGCA-TCCTTGAATG
1 TGCATCGATACACCATGAA-AGTGCACCGATGCACGCCTTGAATG
*
9631034 TGCATCGATACACCATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
9631078 TGCATCGAT
1 TGCATCGAT
9631087 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 20 0.43
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
TGCATCGATACACCATGAAAGTGCACCGATGCACGCCTTGAATG
Found at i:9631057 original size:21 final size:21
Alignment explanation
Indices: 9630992--9631086 Score: 86
Period size: 23 Copynumber: 4.4 Consensus size: 21
9630982 TTGTGCTTCA
*
9630992 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-TG
*
9631012 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* *
9631034 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
* *
9631055 TGCACCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAATG
9631078 TGCATCGAT
1 TGCATCGAT
9631087 GCACAAGGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 17 0.28
22 13 0.22
23 19 0.32
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:9631080 original size:23 final size:23
Alignment explanation
Indices: 9631011--9631091 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 23
9631001 ACACCTAACA
*
9631011 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
9631033 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
9631054 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
9631077 GTGCATCGATGCACA
1 GTGCATCGATGCACA
9631092 AGGCCATGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 10 0.21
23 21 0.45
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:9631107 original size:43 final size:42
Alignment explanation
Indices: 9631010--9631109 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 42
9631000 TACACCTAAC
* * *
9631010 AGTGCATCGATGCATCCTTGAATGTGCATCGATACACCATGA
1 AGTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGA
* * *
9631052 AGGTGCACCGATGCACGCCTTGAATGTGCATCGATGCACAAGGCC
1 A-GTGCATCGATGCA-GCCTTGAATGTGCATCGATACACAAGG-A
9631097 A-TGCATCGATGCA
1 AGTGCATCGATGCA
9631110 TCAGTCGAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 1 0.02
43 23 0.48
44 23 0.48
45 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (42 bp):
AGTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGA
Found at i:9632685 original size:21 final size:21
Alignment explanation
Indices: 9632643--9632686 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
9632633 AACCCGGGAG
*
9632643 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
9632664 CTAGCTCTTCCCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
9632685 CT
1 CT
9632687 CCTCCTTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:9633031 original size:34 final size:35
Alignment explanation
Indices: 9632988--9633059 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
9632978 CTTGTTATGA
9632988 TTTCTTGGAT-TTTCAAACTTGGATTGTTT-TT-GATG
1 TTTCTTGGATGTTT-AAACTT-GA-TGTTTGTTGGATG
9633023 TTTC-TGGATGTTTAAACTTGATGTTTGTTGGATG
1 TTTCTTGGATGTTTAAACTTGATGTTTGTTGGATG
9633057 TTT
1 TTT
9633060 TGAACTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
32 5 0.15
33 4 0.12
34 18 0.53
35 7 0.21
ACGTcount: A:0.17, C:0.07, G:0.22, T:0.54
Consensus pattern (35 bp):
TTTCTTGGATGTTTAAACTTGATGTTTGTTGGATG
Found at i:9634231 original size:17 final size:18
Alignment explanation
Indices: 9634209--9634251 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9634199 TGTTTGAGCA
*
9634209 ATTCAAGCTT-ATTTTTC
1 ATTCAAGATTCATTTTTC
*
9634226 ATTCAATATTCATTTTTC
1 ATTCAAGATTCATTTTTC
*
9634244 TTTCAAGA
1 ATTCAAGA
9634252 ACACTTCTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTCAAGATTCATTTTTC
Found at i:9637225 original size:20 final size:21
Alignment explanation
Indices: 9637200--9637239 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9637190 TGCATCAGGG
9637200 TCTTTT-TTGAAG-CCATGAAA
1 TCTTTTGTTG-AGTCCATGAAA
9637220 TCTTTTGTTGAGTCCATGAA
1 TCTTTTGTTGAGTCCATGAA
9637240 TTCATGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (21 bp):
TCTTTTGTTGAGTCCATGAAA
Found at i:9647369 original size:21 final size:20
Alignment explanation
Indices: 9647337--9647376 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9647327 TAAAAATAAA
9647337 AATGGAAAATATATGATTTT
1 AATGGAAAATATATGATTTT
* *
9647357 AATGAGAAGATATTTGATTT
1 AATG-GAAAATATATGATTT
9647377 GACTTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (20 bp):
AATGGAAAATATATGATTTT
Found at i:9660676 original size:161 final size:161
Alignment explanation
Indices: 9660411--9660733 Score: 646
Period size: 161 Copynumber: 2.0 Consensus size: 161
9660401 TAGATGAATA
9660411 AGAGGGCATTTTGGTCCTTTAAAGGAAAATAAATTTAAAAATTAATTTTTAGTAAGGTATTAATG
1 AGAGGGCATTTTGGTCCTTTAAAGGAAAATAAATTTAAAAATTAATTTTTAGTAAGGTATTAATG
9660476 TAAGGGAAAAGGGGAAAGTAAGTCAACAAAAGTCATCTCTCTTTTCTTTTTCTTTCCCGTGGAAG
66 TAAGGGAAAAGGGGAAAGTAAGTCAACAAAAGTCATCTCTCTTTTCTTTTTCTTTCCCGTGGAAG
9660541 AGCTCTACTCCTTAGCCAAAGGTAATATTTC
131 AGCTCTACTCCTTAGCCAAAGGTAATATTTC
9660572 AGAGGGCATTTTGGTCCTTTAAAGGAAAATAAATTTAAAAATTAATTTTTAGTAAGGTATTAATG
1 AGAGGGCATTTTGGTCCTTTAAAGGAAAATAAATTTAAAAATTAATTTTTAGTAAGGTATTAATG
9660637 TAAGGGAAAAGGGGAAAGTAAGTCAACAAAAGTCATCTCTCTTTTCTTTTTCTTTCCCGTGGAAG
66 TAAGGGAAAAGGGGAAAGTAAGTCAACAAAAGTCATCTCTCTTTTCTTTTTCTTTCCCGTGGAAG
9660702 AGCTCTACTCCTTAGCCAAAGGTAATATTTC
131 AGCTCTACTCCTTAGCCAAAGGTAATATTTC
9660733 A
1 A
9660734 TTTCGCTAGC
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 162 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (161 bp):
AGAGGGCATTTTGGTCCTTTAAAGGAAAATAAATTTAAAAATTAATTTTTAGTAAGGTATTAATG
TAAGGGAAAAGGGGAAAGTAAGTCAACAAAAGTCATCTCTCTTTTCTTTTTCTTTCCCGTGGAAG
AGCTCTACTCCTTAGCCAAAGGTAATATTTC
Found at i:9661823 original size:55 final size:53
Alignment explanation
Indices: 9661717--9661840 Score: 133
Period size: 55 Copynumber: 2.3 Consensus size: 53
9661707 ATGGCACTAT
* * * ** *
9661717 ATGTGTGTGCAAAACTAAGAAATTTATAATAAGTATATGAATTTTCGTATGGGC
1 ATGTGTGTG-AAAACAAAGAAATTCATAATAAGTATATGAAATACCATATGGGC
* *
9661771 ACTGTGTGTAGAAAACAAAGAAATTCATAATAATTTTATGAAATACCATATGGGC
1 A-TGTGTGT-GAAAACAAAGAAATTCATAATAAGTATATGAAATACCATATGGGC
9661826 AT-TGTGTTGAAAACA
1 ATGTGTG-TGAAAACA
9661841 TTTTGATATT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
53 11 0.19
54 3 0.05
55 44 0.75
56 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (53 bp):
ATGTGTGTGAAAACAAAGAAATTCATAATAAGTATATGAAATACCATATGGGC
Found at i:9667963 original size:21 final size:21
Alignment explanation
Indices: 9667937--9667976 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9667927 CCCCCTTTGA
*
9667937 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
9667958 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
9667977 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:9671470 original size:55 final size:55
Alignment explanation
Indices: 9671373--9671638 Score: 383
Period size: 55 Copynumber: 4.9 Consensus size: 55
9671363 TAACTCAACA
* *
9671373 CATTGCGTGTGCAAAACTAAG-AATTCATAATAAGTTTATGAATTTCCATATGGG
1 CATTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
9671427 CATTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
1 CATTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* ** *
9671482 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATAGG
1 CATTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
9671537 CACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
1 CATTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
** * * * *
9671592 CACTACT-TGTGTAAAACTAAGAAATTCATATTGAGTTTATGAGTTTC
1 CA-TTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTC
9671639 TATATTGGCA
Statistics
Matches: 194, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
54 20 0.10
55 173 0.89
56 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (55 bp):
CATTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
Found at i:9672979 original size:30 final size:30
Alignment explanation
Indices: 9672943--9673003 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
9672933 ATTGCTCATG
*
9672943 GTGACAATTATATGTATTATCCTTAGACTT
1 GTGACAATTATATATATTATCCTTAGACTT
9672973 GTGACAATTATATATATTATCCTTAGACTT
1 GTGACAATTATATATATTATCCTTAGACTT
9673003 G
1 G
9673004 GGATCATTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (30 bp):
GTGACAATTATATATATTATCCTTAGACTT
Found at i:9676338 original size:20 final size:20
Alignment explanation
Indices: 9676313--9676390 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
9676303 ATGAAATATG
9676313 TGAAAGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
* *
9676333 TGAAAGGATTACATAAATGAATTGCA
1 TGAAAGGA-TGCAT---T-AA-GGCA
*
9676359 TGAAATGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
9676379 TGAAAGGATGCA
1 TGAAAGGATGCA
9676391 ATAAATGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
20 22 0.48
21 6 0.13
22 1 0.02
24 1 0.02
25 6 0.13
26 10 0.22
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (20 bp):
TGAAAGGATGCATTAAGGCA
Found at i:9676351 original size:46 final size:45
Alignment explanation
Indices: 9676297--9676585 Score: 287
Period size: 46 Copynumber: 6.3 Consensus size: 45
9676287 TAAAACGAGT
* *
9676297 CCATAAATGAAATATGTGAAAGGATGCATTAAGGCATGAAAGGATT
1 CCATAAATGAAAT-TATGAAAGGATGCATTAAGGCATGAAAGGATG
* *
9676343 ACATAAATG-AATTGCATGAAATGATGCATTAAGGCATGAAAGGATG
1 CCATAAATGAAATT--ATGAAAGGATGCATTAAGGCATGAAAGGATG
* * * * * * *
9676389 CAATAAATGAAATGCATGAATGGATACATTAACGCATGAATGGATA
1 CCATAAATGAAAT-TATGAAAGGATGCATTAAGGCATGAAAGGATG
* * **
9676435 CCATAAATGAAATGCATGAAAGGATGCATTAAGTCATGAAAAAATG
1 CCATAAATGAAAT-TATGAAAGGATGCATTAAGGCATGAAAGGATG
**
9676481 CCATAAATGAAATGCT-TGAAAGGACACATTAAGGCAAT-AAAGGATG
1 CCATAAATGAAAT--TATGAAAGGATGCATTAAGGC-ATGAAAGGATG
* * * *
9676527 CCATAAATTAAATTCCTGAAAGGGTGTATTAAGGCATGAAAGGATG
1 CCATAAATGAAATT-ATGAAAGGATGCATTAAGGCATGAAAGGATG
9676573 CCATAAATGAAAT
1 CCATAAATGAAAT
9676586 GTTGGGACAG
Statistics
Matches: 199, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
44 2 0.01
45 5 0.03
46 187 0.94
47 5 0.03
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAATGAAATTATGAAAGGATGCATTAAGGCATGAAAGGATG
Found at i:9676426 original size:92 final size:92
Alignment explanation
Indices: 9676297--9676586 Score: 343
Period size: 92 Copynumber: 3.2 Consensus size: 92
9676287 TAAAACGAGT
*** *
9676297 CCATAAATGAAATATGTGAAAGGATGCATTAAGGCATGAAAGGATTACATAAATGAATTGCATGA
1 CCATAAATGAAATGCATGAAAGGATACATTAAGGCATGAAAGGATTACATAAATGAATTGCATGA
*
9676362 AATGATGCATTAAGGCATGAAAGGATG
66 AAGGATGCATTAAGGCATGAAAGGATG
* * * * *
9676389 CAATAAATGAAATGCATGAATGGATACATTAACGCATGAATGGA-TACCATAAATGAAATGCATG
1 CCATAAATGAAATGCATGAAAGGATACATTAAGGCATGAAAGGATTA-CATAAATGAATTGCATG
* **
9676453 AAAGGATGCATTAAGTCATGAAAAAATG
65 AAAGGATGCATTAAGGCATGAAAGGATG
* * ** * *
9676481 CCATAAATGAAATGCTTGAAAGGACACATTAAGGCAAT-AAAGGATGCCATAAATTAAATT-CCT
1 CCATAAATGAAATGCATGAAAGGATACATTAAGGC-ATGAAAGGATTACATAAA-TGAATTGCAT
* *
9676544 GAAAGGGTGTATTAAGGCATGAAAGGATG
64 GAAAGGATGCATTAAGGCATGAAAGGATG
9676573 CCATAAATGAAATG
1 CCATAAATGAAATG
9676587 TTGGGACAGT
Statistics
Matches: 165, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
91 2 0.01
92 157 0.95
93 6 0.04
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (92 bp):
CCATAAATGAAATGCATGAAAGGATACATTAAGGCATGAAAGGATTACATAAATGAATTGCATGA
AAGGATGCATTAAGGCATGAAAGGATG
Found at i:9676452 original size:26 final size:26
Alignment explanation
Indices: 9676376--9676459 Score: 81
Period size: 26 Copynumber: 3.5 Consensus size: 26
9676366 ATGCATTAAG
* *
9676376 GCATGAAAGGATGCAATAAATGAAAT
1 GCATGAAAGGATACCATAAATGAAAT
* *
9676402 GCATGAATGGATA-CAT---T--AAC
1 GCATGAAAGGATACCATAAATGAAAT
*
9676422 GCATGAATGGATACCATAAATGAAAT
1 GCATGAAAGGATACCATAAATGAAAT
9676448 GCATGAAAGGAT
1 GCATGAAAGGAT
9676460 GCATTAAGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
20 15 0.33
21 3 0.07
22 1 0.02
24 1 0.02
25 2 0.04
26 24 0.52
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (26 bp):
GCATGAAAGGATACCATAAATGAAAT
Found at i:9676558 original size:138 final size:138
Alignment explanation
Indices: 9676297--9676586 Score: 348
Period size: 138 Copynumber: 2.1 Consensus size: 138
9676287 TAAAACGAGT
*** ** * *
9676297 CCATAAATGAAATATGTGAAAGGATGCATTAAGGCATGAAAGGATTACATAAATGAATTGCATGA
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAAAATGACATAAATGAAATGCATGA
* ** *
9676362 AATGATGCATTAAGGCATGAAAGGATGCAATAAATGAAATGCATGAATGGATACATTAACGCATG
66 AAGGACACATTAAGGCATGAAAGGATGCAATAAATGAAATGCATGAAAGGATACATTAACGCATG
*
9676427 AATGGATA
131 AAAGGATA
* * *
9676435 CCATAAATGAAATGCATGAAAGGATGCATTAAGTCATGAAAAAATGCCATAAATGAAATGCTTGA
1 CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAAAATGACATAAATGAAATGCATGA
* * * * * ** *
9676500 AAGGACACATTAAGGCAAT-AAAGGATGCCATAAATTAAATTCCTGAAAGGGTGTATTAAGGCAT
66 AAGGACACATTAAGGC-ATGAAAGGATGCAATAAATGAAATGCATGAAAGGATACATTAACGCAT
*
9676564 GAAAGGATG
130 GAAAGGATA
9676573 CCATAAATGAAATG
1 CCATAAATGAAATG
9676587 TTGGGACAGT
Statistics
Matches: 127, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
138 125 0.98
139 2 0.02
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (138 bp):
CCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAAAATGACATAAATGAAATGCATGA
AAGGACACATTAAGGCATGAAAGGATGCAATAAATGAAATGCATGAAAGGATACATTAACGCATG
AAAGGATA
Found at i:9697918 original size:19 final size:21
Alignment explanation
Indices: 9697891--9697940 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 21
9697881 ATTCAATCAT
* *
9697891 TATCAATACCAAT-AGG-GGG
1 TATCGATACCAATGAGGAAGG
*
9697910 TATCGATA-CTATGAGGAAGG
1 TATCGATACCAATGAGGAAGG
9697930 TATCGATACCA
1 TATCGATACCA
9697941 TTGGAAACAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 10 0.42
21 1 0.04
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (21 bp):
TATCGATACCAATGAGGAAGG
Found at i:9698014 original size:22 final size:19
Alignment explanation
Indices: 9697963--9698016 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 19
9697953 TGCAAAAATG
*
9697963 GTATCGATACCGTAATAGA
1 GTATCGATACCATAATAGA
9697982 GTATC-AGTACCATAGTATAGTA
1 GTATCGA-TACCATA--ATAG-A
9698004 GTATCGATACCAT
1 GTATCGATACCAT
9698017 TGTAGGGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.03
19 11 0.38
21 4 0.14
22 12 0.41
23 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (19 bp):
GTATCGATACCATAATAGA
Found at i:9698479 original size:26 final size:26
Alignment explanation
Indices: 9698443--9698865 Score: 112
Period size: 26 Copynumber: 15.2 Consensus size: 26
9698433 AACGAATCCA
*
9698443 TAAATGAAATGCATGAAAGGATGCCT
1 TAAATGAAATGCATGAAAGGATGCAT
9698469 TAAATGAAATGCATGAAAGGATGCAT
1 TAAATGAAATGCATGAAAGGATGCAT
* *
9698495 TAAGGCATGAAAGGATGCAT-TAAGTAAATGCAT
1 TAA---ATG-AA--ATGCATGAAAG--GATGCAT
* *
9698528 GAATGGATGCATTAAGGCATGAAAGGATGCCA-
1 TAA---ATG-A--AATGCATGAAAGGATG-CAT
*
9698560 TAAATGAAATACATGAAAGGATGCA-
1 TAAATGAAATGCATGAAAGGATGCAT
* *
9698585 TCAA-G----GCATAAAAGGATGCCA-
1 TAAATGAAATGCATGAAAGGATG-CAT
9698606 TAAATGAAATGCATGAAAGGATGCAT
1 TAAATGAAATGCATGAAAGGATGCAT
*
9698632 TAAGGCATGAAAGGATGCCAT-AAATGAAATGCAT
1 TAA---ATG-AA--ATG-CATGAAA-G-GATGCAT
* * *
9698666 GAAAGGATGCATTAAGGAATGAAAGGATGTCA-
1 -TAA--ATG-A--AATGCATGAAAGGATG-CAT
*
9698698 TAAATGAAATGCCTGAAAGGATGCAT
1 TAAATGAAATGCATGAAAGGATGCAT
*
9698724 T-AA-GGAAT--A--AAAGGATGTCA-
1 TAAATGAAATGCATGAAAGGATG-CAT
*
9698744 TAAATGAAATGCATGAAATGATGCAT
1 TAAATGAAATGCATGAAAGGATGCAT
9698770 TAAGGCATGAAAGGATGCCAT-AAATGGAATGCAT
1 TAA---ATG-AA--ATG-CATGAAA-GG-ATGCAT
* *
9698804 AAAAGGATGCATTAAGGCATGAAAGGATGCCA-
1 -TAA--ATG-A--AATGCATGAAAGGATG-CAT
9698836 TAAATGAAATGCATGAAAGGATGCAT
1 TAAATGAAATGCATGAAAGGATGCAT
9698862 TAAA
1 TAAA
9698866 GGCATGAAAT
Statistics
Matches: 300, Mismatches: 40, Indels: 114
0.66 0.09 0.25
Matches are distributed among these distances:
20 20 0.07
21 9 0.03
22 5 0.02
24 6 0.02
25 15 0.05
26 100 0.33
28 3 0.01
29 18 0.06
30 6 0.02
31 7 0.02
32 29 0.10
33 40 0.13
34 35 0.12
35 5 0.02
36 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (26 bp):
TAAATGAAATGCATGAAAGGATGCAT
Found at i:9698592 original size:46 final size:46
Alignment explanation
Indices: 9698453--9698892 Score: 695
Period size: 46 Copynumber: 9.6 Consensus size: 46
9698443 TAAATGAAAT
*
9698453 GCATGAAAGGATGCCTTAAATGAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
* *
9698499 GCATGAAAGGATG-CATTAA-GTAAATGCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATG-AAATGCATGAAAGGATGCATTAAG
* *
9698544 GCATGAAAGGATGCCATAAATGAAATACATGAAAGGATGCATCAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
*
9698590 GCATAAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
9698636 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
* * *
9698682 GAATGAAAGGATGTCATAAATGAAATGCCTGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
* * * *
9698728 GAATAAAAGGATGTCATAAATGAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
* *
9698774 GCATGAAAGGATGCCATAAATGGAATGCATAAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
9698820 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATT-AAG
* *
9698867 GCATGAAATGATGTCATAAATGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
9698893 TAATGAATAA
Statistics
Matches: 363, Mismatches: 27, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
44 1 0.00
45 40 0.11
46 294 0.81
47 28 0.08
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
Found at i:9698806 original size:13 final size:12
Alignment explanation
Indices: 9698774--9698867 Score: 52
Period size: 13 Copynumber: 7.8 Consensus size: 12
9698764 ATGCATTAAG
*
9698774 GCATGAAAGGAT
1 GCATAAAAGGAT
*
9698786 GCCATAAATGGAAT
1 G-CATAAAAGG-AT
9698800 GCATAAAAGGAT
1 GCATAAAAGGAT
*
9698812 GCAT-TAA-G--
1 GCATAAAAGGAT
*
9698820 GCATGAAAGGAT
1 GCATAAAAGGAT
* *
9698832 GCCATAAATGAAAT
1 G-CATAAAAG-GAT
*
9698846 GCATGAAAGGAT
1 GCATAAAAGGAT
*
9698858 GCATTAAAGG
1 GCATAAAAGG
9698868 CATGAAATGA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
8 4 0.06
9 2 0.03
10 2 0.03
11 2 0.03
12 19 0.31
13 27 0.44
14 6 0.10
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.19
Consensus pattern (12 bp):
GCATAAAAGGAT
Found at i:9704220 original size:28 final size:28
Alignment explanation
Indices: 9704169--9704300 Score: 141
Period size: 28 Copynumber: 4.8 Consensus size: 28
9704159 ATATAAAATA
9704169 TTTTTTATTATGCAGTAAGTGTGTGTGTAT
1 TTTTTTATTATGCAGTAA--GTGTGTGTAT
9704199 TTTTTTATTATGCAGTAAGTGTGTGTA-
1 TTTTTTATTATGCAGTAAGTGTGTGTAT
** * * *
9704226 TTTAATATATATTCA-T--GCGTGTG--C
1 TTTTTTAT-TATGCAGTAAGTGTGTGTAT
9704250 TTTTTTATTATGCAGTAAGTGTGTGTAT
1 TTTTTTATTATGCAGTAAGTGTGTGTAT
*
9704278 TTTTTTATTATGCAATAAGTGTG
1 TTTTTTATTATGCAGTAAGTGTG
9704301 CGTGTGTTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.06
24 7 0.08
25 6 0.07
26 6 0.07
27 7 0.08
28 36 0.42
30 18 0.21
ACGTcount: A:0.23, C:0.05, G:0.20, T:0.52
Consensus pattern (28 bp):
TTTTTTATTATGCAGTAAGTGTGTGTAT
Found at i:9704283 original size:81 final size:82
Alignment explanation
Indices: 9704169--9704360 Score: 255
Period size: 81 Copynumber: 2.3 Consensus size: 82
9704159 ATATAAAATA
*
9704169 TTTTTTATTATGCAGTAAGTGTGTGTGTATTTTTTTATTATGCAGTAAGTGT-GTGTATTTAATA
1 TTTTTTATTATGCAGTAA--GTGTGTGTATTTTTTTATTATGCAATAAGTGTCGTGTATTTAATA
*
9704233 TATATTCATGCGTG-TGC-
64 TATATTCATGCGTGATACT
*
9704250 TTTTTTATTATGCAGTAAGTGTGTGTATTTTTTTATTATGCAATAAGTGTGCGTGTGTTTAATAT
1 TTTTTTATTATGCAGTAAGTGTGTGTATTTTTTTATTATGCAATAAGTGT-CGTGTATTTAATAT
* *
9704315 ATATTTATGTGTGTATACTT
65 ATATTCATGCGTG-ATAC-T
* *
9704335 TTTTTTATTATGCAATACGTGTGTGT
1 TTTTTTATTATGCAGTAAGTGTGTGT
9704361 GTTTAATATA
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
79 31 0.32
81 41 0.42
83 2 0.02
85 24 0.24
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.52
Consensus pattern (82 bp):
TTTTTTATTATGCAGTAAGTGTGTGTATTTTTTTATTATGCAATAAGTGTCGTGTATTTAATATA
TATTCATGCGTGATACT
Found at i:9704337 original size:55 final size:53
Alignment explanation
Indices: 9704269--9704419 Score: 184
Period size: 52 Copynumber: 2.8 Consensus size: 53
9704259 ATGCAGTAAG
* **
9704269 TGTGTGTAT-TTTTTTATTATGCAATAAGTGTGCGTGTGTTTAATATATATTTA
1 TGTGTGTATCTTTTTTATTATGCAATACGTGTG-GTGTGTTTAATATATATGCA
9704322 TGTGTGTATACTTTTTTTTATTATGCAATACGTGT-GTGTGTTTAATATATATGCA
1 TGTGTGTAT-C--TTTTTTATTATGCAATACGTGTGGTGTGTTTAATATATATGCA
* *
9704377 TGTGTGTGTGC-TTTTTATTATGCAATACGTGT-GTGTATTTAAT
1 TGTGTGTAT-CTTTTTTATTATGCAATACGTGTGGTGTGTTTAAT
9704420 GTATGTATGA
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
52 31 0.35
53 9 0.10
55 27 0.31
57 21 0.24
ACGTcount: A:0.23, C:0.06, G:0.20, T:0.52
Consensus pattern (53 bp):
TGTGTGTATCTTTTTTATTATGCAATACGTGTGGTGTGTTTAATATATATGCA
Found at i:9704347 original size:57 final size:55
Alignment explanation
Indices: 9704268--9704419 Score: 188
Period size: 55 Copynumber: 2.8 Consensus size: 55
9704258 TATGCAGTAA
* * **
9704268 GTGTGTGTA-TTTTTTTATTATGCAATAAGTGTGCGTGTGTTTAATATATATTTAT
1 GTGTGTATACTTTTTTTATTATGCAATACGTGTG-GTGTGTTTAATATATATGCAT
9704323 GTGTGTATACTTTTTTTTATTATGCAATACGTGT-GTGTGTTTAATATATATGCAT
1 GTGTGTATAC-TTTTTTTATTATGCAATACGTGTGGTGTGTTTAATATATATGCAT
* * *
9704378 GTGTGTGTGC--TTTTTATTATGCAATACGTGT-GTGTATTTAAT
1 GTGTGTATACTTTTTTTATTATGCAATACGTGTGGTGTGTTTAAT
9704420 GTATGTATGA
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
52 31 0.35
55 35 0.40
57 22 0.25
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.51
Consensus pattern (55 bp):
GTGTGTATACTTTTTTTATTATGCAATACGTGTGGTGTGTTTAATATATATGCAT
Found at i:9704408 original size:25 final size:24
Alignment explanation
Indices: 9704336--9704417 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 24
9704326 TGTATACTTT
9704336 TTTTTATTATGCAATACGTGTGTG
1 TTTTTATTATGCAATACGTGTGTG
**
9704360 TGTTTAATATATATGC-ATGTGTGTGTG
1 T-TTT--TAT-TATGCAATACGTGTGTG
9704387 CTTTTTATTATGCAATACGTGTGTG
1 -TTTTTATTATGCAATACGTGTGTG
*
9704412 TATTTA
1 TTTTTA
9704418 ATGTATGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
24 11 0.23
25 15 0.32
27 15 0.32
28 6 0.13
ACGTcount: A:0.22, C:0.07, G:0.21, T:0.50
Consensus pattern (24 bp):
TTTTTATTATGCAATACGTGTGTG
Found at i:9704462 original size:26 final size:25
Alignment explanation
Indices: 9704433--9704519 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 25
9704423 TGTATGAAAT
9704433 GTGTGTGACTTATTATAATATAAAGG
1 GTGTGTGACTT-TTATAATATAAAGG
*
9704459 GTGTGTG-CTCTTT-TAATATGGAATATGT
1 GTGTGTGACT-TTTATAATAT--AA-A-GG
* *
9704487 GTGAGTGAGTTTTTATAATATAAAGG
1 GTGTGTGA-CTTTTATAATATAAAGG
9704513 GTGTGTG
1 GTGTGTG
9704520 TGTTGTTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
24 6 0.12
25 4 0.08
26 17 0.35
27 2 0.04
28 9 0.19
29 3 0.06
30 7 0.15
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.41
Consensus pattern (25 bp):
GTGTGTGACTTTTATAATATAAAGG
Found at i:9704553 original size:24 final size:25
Alignment explanation
Indices: 9704425--9704557 Score: 78
Period size: 24 Copynumber: 5.2 Consensus size: 25
9704415 TTAATGTATG
* * *
9704425 TATGAAATGTGTGTGACTTATTATAA
1 TATGAAA-GGGTGTGAGTTTTTATAA
* *
9704451 TAT-AAAGGGTGTGTGCTCTTT-TAA
1 TATGAAAGGGTGTGAG-TTTTTATAA
*
9704475 TATGGAATATGTGTGAGTGAGTTTTTATAA
1 TAT-GAA-A-G-G-GTGTGAGTTTTTATAA
* *
9704505 TAT-AAAGGGTGTGTGTGTTGT-TAA
1 TATGAAAGGGTGTGAGT-TTTTATAA
*
9704529 TATGAAA-TGTGTGAGTTTTTATAA
1 TATGAAAGGGTGTGAGTTTTTATAA
9704553 TATGA
1 TATGA
9704558 GGAGTGTGTT
Statistics
Matches: 82, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
23 3 0.04
24 39 0.48
25 13 0.16
26 6 0.07
27 2 0.02
28 3 0.04
29 5 0.06
30 11 0.13
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (25 bp):
TATGAAAGGGTGTGAGTTTTTATAA
Found at i:9704564 original size:24 final size:24
Alignment explanation
Indices: 9704491--9704565 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
9704481 ATATGTGTGA
*
9704491 GTGAGTTTTTATAATATAAAGG-GT
1 GTGAGTTTTTATAATAT-GAGGAGT
* * *
9704515 GTGTGTGTTGT-TAATATGA-AATGT
1 GTGAGT-TTTTATAATATGAGGA-GT
9704539 GTGAGTTTTTATAATATGAGGAGT
1 GTGAGTTTTTATAATATGAGGAGT
9704563 GTG
1 GTG
9704566 TTTTCGAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
23 4 0.10
24 31 0.79
25 4 0.10
ACGTcount: A:0.28, C:0.00, G:0.29, T:0.43
Consensus pattern (24 bp):
GTGAGTTTTTATAATATGAGGAGT
Found at i:9706504 original size:15 final size:15
Alignment explanation
Indices: 9706485--9706540 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
9706475 TTCATAGGGT
* *
9706485 AAGAAGACAACGTCT
1 AAGAAGAAAACGTCA
*
9706500 AAGAAGAAAACATCA
1 AAGAAGAAAACGTCA
*
9706515 AAGAATAAAACGTCA
1 AAGAAGAAAACGTCA
9706530 AAGAAAGAAAA
1 AAG-AAGAAAA
9706541 AGAAAGCATC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
15 28 0.82
16 6 0.18
ACGTcount: A:0.62, C:0.12, G:0.16, T:0.09
Consensus pattern (15 bp):
AAGAAGAAAACGTCA
Found at i:9707584 original size:18 final size:18
Alignment explanation
Indices: 9707561--9707598 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9707551 ATTAAACTTT
9707561 TTCTAACTTCTAATATGA
1 TTCTAACTTCTAATATGA
9707579 TTCTAACTTCTAATATGA
1 TTCTAACTTCTAATATGA
9707597 TT
1 TT
9707599 TAGGCAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (18 bp):
TTCTAACTTCTAATATGA
Found at i:9712594 original size:2 final size:2
Alignment explanation
Indices: 9712587--9712611 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9712577 TTAATCTACA
9712587 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
9712612 ATTTACAACA
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:9712931 original size:209 final size:212
Alignment explanation
Indices: 9712552--9712974 Score: 791
Period size: 209 Copynumber: 2.0 Consensus size: 212
9712542 TATGAGGCAT
9712552 TAAATGTGATTAGTTTGATTATTTGTTAATCTACAATATATATATATATATATATATATAATTTA
1 TAAATGTGATTAGTTTGATTATTTGTTAATCTAC-A-ATATATATATATATATATATATAATTTA
9712617 CAACATACAATCACGACACACGAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACG
64 CAACATACAATCACGACACACGAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACG
9712682 CACTGTAAGTCGTAAATGCGTGTCATAAATTTATGACACAAAAATATGTCATCTTCATTTATGAC
129 CACTGTAAGTCGTAAATGCGTGTCATAAATTTATGACACAAAAATATGTCATCTTCATTTATGAC
9712747 GGGAGCTTCAATGAACGTGC
194 GGGAGCTTCAATG-ACGTGC
9712767 TAAATGTGATTAG-TTGATTATTTGTTAATCTAC-A-ATATATATATATATATATAT-ATTTACA
1 TAAATGTGATTAGTTTGATTATTTGTTAATCTACAATATATATATATATATATATATAATTTACA
9712828 ACATACAATCACGACACACGAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACGCA
66 ACATACAATCACGACACACGAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACGCA
9712893 CTGTAAGTCGTAAATGCGTGTCATAAATTTATGACACAAAAATATGTCATCTTCATTTATGACGG
131 CTGTAAGTCGTAAATGCGTGTCATAAATTTATGACACAAAAATATGTCATCTTCATTTATGACGG
9712958 GAGCTTCAATGACGTGC
196 GAGCTTCAATGACGTGC
9712975 AATGCATGTC
Statistics
Matches: 208, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
208 6 0.03
209 148 0.71
210 20 0.10
211 1 0.00
214 20 0.10
215 13 0.06
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (212 bp):
TAAATGTGATTAGTTTGATTATTTGTTAATCTACAATATATATATATATATATATATAATTTACA
ACATACAATCACGACACACGAATGTGTGTCATCTTTTTTAATGACGTGTGCTTCAATGACACGCA
CTGTAAGTCGTAAATGCGTGTCATAAATTTATGACACAAAAATATGTCATCTTCATTTATGACGG
GAGCTTCAATGACGTGC
Found at i:9712997 original size:13 final size:13
Alignment explanation
Indices: 9712981--9713030 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
9712971 GTGCAATGCA
9712981 TGTCATAAATGTG
1 TGTCATAAATGTG
*
9712994 TGTCATAAATGCG
1 TGTCATAAATGTG
* *
9713007 TATCATAAATATG
1 TGTCATAAATGTG
*
9713020 CGTCATAAATG
1 TGTCATAAATG
9713031 CGCGTCATAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTCATAAATGTG
Found at i:9713004 original size:26 final size:26
Alignment explanation
Indices: 9712975--9713031 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
9712965 AATGACGTGC
* * *
9712975 AATGCATGTCATAAATGTGTGTCATA
1 AATGCATATCATAAATATGCGTCATA
*
9713001 AATGCGTATCATAAATATGCGTCATA
1 AATGCATATCATAAATATGCGTCATA
9713027 AATGC
1 AATGC
9713032 GCGTCATAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (26 bp):
AATGCATATCATAAATATGCGTCATA
Found at i:9713032 original size:26 final size:26
Alignment explanation
Indices: 9712983--9713032 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
9712973 GCAATGCATG
* *
9712983 TCATAAATGTGTGTCATAAATGCGTA
1 TCATAAATATGCGTCATAAATGCGTA
9713009 TCATAAATATGCGTCATAAATGCG
1 TCATAAATATGCGTCATAAATGCG
9713033 CGTCATAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (26 bp):
TCATAAATATGCGTCATAAATGCGTA
Found at i:9713035 original size:13 final size:13
Alignment explanation
Indices: 9712982--9713039 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
9712972 TGCAATGCAT
* *
9712982 GTCATAAATGTGT
1 GTCATAAATGCGC
*
9712995 GTCATAAATGCGT
1 GTCATAAATGCGC
* **
9713008 ATCATAAATATGC
1 GTCATAAATGCGC
9713021 GTCATAAATGCGC
1 GTCATAAATGCGC
9713034 GTCATA
1 GTCATA
9713040 GATTTATGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:9713038 original size:26 final size:26
Alignment explanation
Indices: 9712982--9713039 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
9712972 TGCAATGCAT
* * *
9712982 GTCATAAATGTGTGTCATAAATGCGT
1 GTCATAAATATGCGTCATAAATGCGC
*
9713008 ATCATAAATATGCGTCATAAATGCGC
1 GTCATAAATATGCGTCATAAATGCGC
9713034 GTCATA
1 GTCATA
9713040 GATTTATGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (26 bp):
GTCATAAATATGCGTCATAAATGCGC
Found at i:9713711 original size:21 final size:21
Alignment explanation
Indices: 9713681--9713722 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9713671 GTTGCAGATA
*
9713681 AGATGGTTAGTGACTCTCAAT
1 AGATGATTAGTGACTCTCAAT
9713702 AGATGATTAGTGACTCTCAAT
1 AGATGATTAGTGACTCTCAAT
9713723 GTGCATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (21 bp):
AGATGATTAGTGACTCTCAAT
Found at i:9723684 original size:30 final size:30
Alignment explanation
Indices: 9723650--9723708 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
9723640 CCTAAATTAA
9723650 TTTGATGTCATTGCTTAAATCAATTTAGTT
1 TTTGATGTCATTGCTTAAATCAATTTAGTT
*
9723680 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTAAATCAATTTAGT
9723709 AAGGTGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (30 bp):
TTTGATGTCATTGCTTAAATCAATTTAGTT
Found at i:9728004 original size:768 final size:768
Alignment explanation
Indices: 9726528--9728066 Score: 3060
Period size: 768 Copynumber: 2.0 Consensus size: 768
9726518 AACTCCAAAC
9726528 AAGTTCAGATGAATCAGGAGATCCAAATGGCGATGATGTTGAACAAAGAGTGACTCAGAATCCTT
1 AAGTTCAGATGAATCAGGAGATCCAAATGGCGATGATGTTGAACAAAGAGTGACTCAGAATCCTT
9726593 GGCAAACTGCCATGTATCATTGCTTACATCAATTTAGTTAGGTGAAAATTAGGTATTTTTCTTAT
66 GGCAAACTGCCATGTATCATTGCTTACATCAATTTAGTTAGGTGAAAATTAGGTATTTTTCTTAT
9726658 TTTTAATTTCAATGGTTTAAATTATTTTGTGGTTAATTTAATGAGTGGTTTAGATTGGTTTTTGT
131 TTTTAATTTCAATGGTTTAAATTATTTTGTGGTTAATTTAATGAGTGGTTTAGATTGGTTTTTGT
9726723 AATCTATAAATATCCCATTTGTATTTGAGTTTTATCATCCAACAATAAAAGCTTATAAGCATTTG
196 AATCTATAAATATCCCATTTGTATTTGAGTTTTATCATCCAACAATAAAAGCTTATAAGCATTTG
*
9726788 AAAACTTTCTTAAGAGTTCTTCCTCTTTTTTGTAATATTATTCTAAAGAGAGTTGTTCTTCTTCT
261 AAAACTTTCTTAAGAGTTCTTCCTCTTTTTTGTAATATTATTCTAAAGAGAGTTGCTCTTCTTCT
9726853 CGATCAATTAAAGTTTTTACTCTATTTTGATTCAACAAACTCGTCCAAATTTTTTGTACAATCTA
326 CGATCAATTAAAGTTTTTACTCTATTTTGATTCAACAAACTCGTCCAAATTTTTTGTACAATCTA
9726918 AGTGACTTAGTGCTCCATATATTCAACAATAAAAAAATATTTACATGAATACGTTAAAATTATAA
391 AGTGACTTAGTGCTCCATATATTCAACAATAAAAAAATATTTACATGAATACGTTAAAATTATAA
9726983 TTTTAGTAACAACTTATTTACTTAAGAAATTGAATAACCTATGTACGAGAGATAAGTTAAATGCC
456 TTTTAGTAACAACTTATTTACTTAAGAAATTGAATAACCTATGTACGAGAGATAAGTTAAATGCC
9727048 CCATCAACACAGATATAGAAAATGAAGACCATCACACTTACGACAGTAGAATCAGTATTCATATG
521 CCATCAACACAGATATAGAAAATGAAGACCATCACACTTACGACAGTAGAATCAGTATTCATATG
9727113 TTAATAGTATTTTAAGATGGATCGATCACTCCGTGCGTTTCTGTATCACTCCTACCGTATATGAC
586 TTAATAGTATTTTAAGATGGATCGATCACTCCGTGCGTTTCTGTATCACTCCTACCGTATATGAC
9727178 ATGATCATTGGTGAAGAGAGATAACTGTAATAACACATCTTCTAGGGTGATGATACACTCCTCAC
651 ATGATCATTGGTGAAGAGAGATAACTGTAATAACACATCTTCTAGGGTGATGATACACTCCTCAC
9727243 ACGAAAGACAAAATATGTGTCTCTGATCTTCACATCTTAGTAAGTGTAAAAAT
716 ACGAAAGACAAAATATGTGTCTCTGATCTTCACATCTTAGTAAGTGTAAAAAT
9727296 AAGTTCAGATGAATCAGGAGATCCAAATGGCGATGATGTTGAACAAAGAGTGACTCAGAATCCTT
1 AAGTTCAGATGAATCAGGAGATCCAAATGGCGATGATGTTGAACAAAGAGTGACTCAGAATCCTT
9727361 GGCAAACTGCCATGTATCATTGCTTACATCAATTTAGTTAGGTGAAAATTAGGTATTTTTCTTAT
66 GGCAAACTGCCATGTATCATTGCTTACATCAATTTAGTTAGGTGAAAATTAGGTATTTTTCTTAT
9727426 TTTTAATTTCAATGGTTTAAATTATTTTGTGGTTAATTTAATGAGTGGTTTAGATTGGTTTTTGT
131 TTTTAATTTCAATGGTTTAAATTATTTTGTGGTTAATTTAATGAGTGGTTTAGATTGGTTTTTGT
9727491 AATCTATAAATATCCCATTTGTATTTGAGTTTTATCATCCAACAATAAAAGCTTATAAGCATTTG
196 AATCTATAAATATCCCATTTGTATTTGAGTTTTATCATCCAACAATAAAAGCTTATAAGCATTTG
9727556 AAAACTTTCTTAAGAGTTCTTCCTCTTTTTTGTAATATTATTCTAAAGAGAGTTGCTCTTCTTCT
261 AAAACTTTCTTAAGAGTTCTTCCTCTTTTTTGTAATATTATTCTAAAGAGAGTTGCTCTTCTTCT
9727621 CGATCAATTAAAGTTTTTACTCTATTTTGATTCAACAAACTCGTCCAAATTTTTTGTACAATCTA
326 CGATCAATTAAAGTTTTTACTCTATTTTGATTCAACAAACTCGTCCAAATTTTTTGTACAATCTA
9727686 AGTGACTTAGTGCTCCATATATTCAACAATAAAAAAATATTTACATGAATACGTTAAAATTATAA
391 AGTGACTTAGTGCTCCATATATTCAACAATAAAAAAATATTTACATGAATACGTTAAAATTATAA
9727751 TTTTAGTAACAACTTATTTACTTAAGAAATTGAATAACCTATGTACGAGAGATAAGTTAAATGCC
456 TTTTAGTAACAACTTATTTACTTAAGAAATTGAATAACCTATGTACGAGAGATAAGTTAAATGCC
9727816 CCATCAACACAGATATAGAAAATGAAGACCATCACACTTACGACAGTAGAATCAGTATTCATATG
521 CCATCAACACAGATATAGAAAATGAAGACCATCACACTTACGACAGTAGAATCAGTATTCATATG
*
9727881 TTAATAGTATTTTTAGATGGATCGATCACTCCGTGCGTTTCTGTATCACTCCTACCGTATATGAC
586 TTAATAGTATTTTAAGATGGATCGATCACTCCGTGCGTTTCTGTATCACTCCTACCGTATATGAC
9727946 ATGATCATTGGTGAAGAGAGATAACTGTAATAACACATCTTCTAGGGTGATGATACACTCCTCAC
651 ATGATCATTGGTGAAGAGAGATAACTGTAATAACACATCTTCTAGGGTGATGATACACTCCTCAC
9728011 ACGAAAGACAAAATATGTGTCTCTGATCTTCACATCTTAGTAAGTGTAAAAAT
716 ACGAAAGACAAAATATGTGTCTCTGATCTTCACATCTTAGTAAGTGTAAAAAT
9728064 AAG
1 AAG
9728067 CAATTGTTAT
Statistics
Matches: 769, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
768 769 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (768 bp):
AAGTTCAGATGAATCAGGAGATCCAAATGGCGATGATGTTGAACAAAGAGTGACTCAGAATCCTT
GGCAAACTGCCATGTATCATTGCTTACATCAATTTAGTTAGGTGAAAATTAGGTATTTTTCTTAT
TTTTAATTTCAATGGTTTAAATTATTTTGTGGTTAATTTAATGAGTGGTTTAGATTGGTTTTTGT
AATCTATAAATATCCCATTTGTATTTGAGTTTTATCATCCAACAATAAAAGCTTATAAGCATTTG
AAAACTTTCTTAAGAGTTCTTCCTCTTTTTTGTAATATTATTCTAAAGAGAGTTGCTCTTCTTCT
CGATCAATTAAAGTTTTTACTCTATTTTGATTCAACAAACTCGTCCAAATTTTTTGTACAATCTA
AGTGACTTAGTGCTCCATATATTCAACAATAAAAAAATATTTACATGAATACGTTAAAATTATAA
TTTTAGTAACAACTTATTTACTTAAGAAATTGAATAACCTATGTACGAGAGATAAGTTAAATGCC
CCATCAACACAGATATAGAAAATGAAGACCATCACACTTACGACAGTAGAATCAGTATTCATATG
TTAATAGTATTTTAAGATGGATCGATCACTCCGTGCGTTTCTGTATCACTCCTACCGTATATGAC
ATGATCATTGGTGAAGAGAGATAACTGTAATAACACATCTTCTAGGGTGATGATACACTCCTCAC
ACGAAAGACAAAATATGTGTCTCTGATCTTCACATCTTAGTAAGTGTAAAAAT
Found at i:9731058 original size:169 final size:169
Alignment explanation
Indices: 9730779--9731118 Score: 680
Period size: 169 Copynumber: 2.0 Consensus size: 169
9730769 TAAATATGGT
9730779 ATAAATCAGCCTTAGGCTTTTACTTTGACTCAGTTTCCTCGGATCGTCGAAAAAGGTTTTTCACT
1 ATAAATCAGCCTTAGGCTTTTACTTTGACTCAGTTTCCTCGGATCGTCGAAAAAGGTTTTTCACT
9730844 CTGTGATTCACGTTGGTTACTTGTCTCCAAGGACCAATCCTTGTGACTACGCTTTGTATACTGAA
66 CTGTGATTCACGTTGGTTACTTGTCTCCAAGGACCAATCCTTGTGACTACGCTTTGTATACTGAA
9730909 TACCTAAGTACATTCCTTGATATAGATTTTGGGAAATTG
131 TACCTAAGTACATTCCTTGATATAGATTTTGGGAAATTG
9730948 ATAAATCAGCCTTAGGCTTTTACTTTGACTCAGTTTCCTCGGATCGTCGAAAAAGGTTTTTCACT
1 ATAAATCAGCCTTAGGCTTTTACTTTGACTCAGTTTCCTCGGATCGTCGAAAAAGGTTTTTCACT
9731013 CTGTGATTCACGTTGGTTACTTGTCTCCAAGGACCAATCCTTGTGACTACGCTTTGTATACTGAA
66 CTGTGATTCACGTTGGTTACTTGTCTCCAAGGACCAATCCTTGTGACTACGCTTTGTATACTGAA
9731078 TACCTAAGTACATTCCTTGATATAGATTTTGGGAAATTG
131 TACCTAAGTACATTCCTTGATATAGATTTTGGGAAATTG
9731117 AT
1 AT
9731119 CTAATCAACA
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 171 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (169 bp):
ATAAATCAGCCTTAGGCTTTTACTTTGACTCAGTTTCCTCGGATCGTCGAAAAAGGTTTTTCACT
CTGTGATTCACGTTGGTTACTTGTCTCCAAGGACCAATCCTTGTGACTACGCTTTGTATACTGAA
TACCTAAGTACATTCCTTGATATAGATTTTGGGAAATTG
Found at i:9731686 original size:20 final size:21
Alignment explanation
Indices: 9731657--9731701 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
9731647 TTAAATAAAA
9731657 ATTTAAATATTATT-TTTAAT
1 ATTTAAATATTATTATTTAAT
* *
9731677 ATTTATATATTTTTATTTAAT
1 ATTTAAATATTATTATTTAAT
9731698 ATTT
1 ATTT
9731702 TTTCCAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTAAATATTATTATTTAAT
Found at i:9732003 original size:25 final size:25
Alignment explanation
Indices: 9731956--9732004 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9731946 AAATACGGTA
**
9731956 TGAACAGTAACCTGCTATTGTACCG
1 TGAACAGTAACCTGCTACAGTACCG
9731981 TGAACAGTAACCTGCTACAGTACC
1 TGAACAGTAACCTGCTACAGTACC
9732005 TCAGCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (25 bp):
TGAACAGTAACCTGCTACAGTACCG
Found at i:9739858 original size:20 final size:20
Alignment explanation
Indices: 9739833--9739870 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9739823 ATTTTTCCTG
*
9739833 GGAAGTTACCAGTTTCTCTT
1 GGAAGTAACCAGTTTCTCTT
9739853 GGAAGTAACCAGTTTCTC
1 GGAAGTAACCAGTTTCTC
9739871 CTGTGAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
GGAAGTAACCAGTTTCTCTT
Found at i:9743175 original size:16 final size:16
Alignment explanation
Indices: 9743133--9743189 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
9743123 TTTTTACATT
*
9743133 ATATTGTAAATTAAAA
1 ATATTTTAAATTAAAA
* *
9743149 ATATATT-AATTTAAA
1 ATATTTTAAATTAAAA
* *
9743164 CTATTTTAAATTAATTA
1 ATATTTTAAATTAA-AA
9743181 ATATTTTAA
1 ATATTTTAA
9743190 TAGATAAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
15 12 0.39
16 10 0.32
17 9 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATTTTAAATTAAAA
Found at i:9744035 original size:81 final size:81
Alignment explanation
Indices: 9743937--9744099 Score: 281
Period size: 81 Copynumber: 2.0 Consensus size: 81
9743927 AGCTCAAACC
* *
9743937 CCTACCAACCCAGAACCCTTACACCAAAATAGGACAAAGCCAGATTGCACTCTATGCACAACTTC
1 CCTACCAACCCACAACCCTTACACCAAAATAGGACAAAACCAGATTGCACTCTATGCACAACTTC
*
9744002 CTATTTTCAAGCTTAA
66 CTATTATCAAGCTTAA
*
9744018 CCTACCAACCCACAACCCTTCCACCAAAATAGGACAAAACCAGATTGCACTCTATGCACAACTTC
1 CCTACCAACCCACAACCCTTACACCAAAATAGGACAAAACCAGATTGCACTCTATGCACAACTTC
*
9744083 CTATTATGAAGCTTAA
66 CTATTATCAAGCTTAA
9744099 C
1 C
9744100 ATAATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.36, C:0.33, G:0.09, T:0.21
Consensus pattern (81 bp):
CCTACCAACCCACAACCCTTACACCAAAATAGGACAAAACCAGATTGCACTCTATGCACAACTTC
CTATTATCAAGCTTAA
Found at i:9748074 original size:22 final size:21
Alignment explanation
Indices: 9748046--9748102 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
9748036 AACCAATCAT
*
9748046 GGGGGTTTTGAAACAAGGTATA
1 GGGGGTTTTGAAACAAGGCA-A
* *
9748068 GGGGGTTTTTAAACCAGGCAA
1 GGGGGTTTTGAAACAAGGCAA
*
9748089 GGGGATTTTGAAAC
1 GGGGGTTTTGAAAC
9748103 CATGCTGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
GGGGGTTTTGAAACAAGGCAA
Done.