Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 55 of 208
Found at i:15655069 original size:19 final size:17
Alignment explanation
Indices: 15655000--15655061 Score: 70
Period size: 19 Copynumber: 3.4 Consensus size: 17
15654990 TATATAATTT
*
15655000 TTTTCTATATTTATTATA
1 TTTT-TATATTTTTTATA
*
15655018 TTTTTATATTTTTTACGA
1 TTTTTATATTTTTTA-TA
15655036 TTTTTATAATTTTTTATAA
1 TTTTTAT-ATTTTTTAT-A
15655055 TTTTTAT
1 TTTTTAT
15655062 CATCTTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
17 10 0.26
18 12 0.32
19 16 0.42
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTTATATTTTTTATA
Found at i:15655685 original size:3 final size:3
Alignment explanation
Indices: 15655672--15655705 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
15655662 CTTAATGAAT
*
15655672 ATA AGTA ATA ATA ATA ATA ACA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15655706 GTGCATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:15656891 original size:43 final size:43
Alignment explanation
Indices: 15656827--15656912 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
15656817 TATGTGATTG
15656827 ATATTGAAATGAAAAAAATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGAAAAAAATGAGAAATGAATATGAGATGAGAAA
** * *
15656870 ATATTGAAATGGCAAATATGAGAAATGACTATGAGATGAGAAA
1 ATATTGAAATGAAAAAAATGAGAAATGAATATGAGATGAGAAA
15656913 TGATATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.22
Consensus pattern (43 bp):
ATATTGAAATGAAAAAAATGAGAAATGAATATGAGATGAGAAA
Found at i:15657355 original size:18 final size:18
Alignment explanation
Indices: 15657316--15657355 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15657306 GAGTTAAACG
* *
15657316 AATTGAGTTATTCGAGTT
1 AATTGAGTTATTCGAATC
15657334 AATTGAGTTATTCGAATC
1 AATTGAGTTATTCGAATC
15657352 AATT
1 AATT
15657356 CGAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (18 bp):
AATTGAGTTATTCGAATC
Found at i:15657970 original size:9 final size:9
Alignment explanation
Indices: 15657956--15657982 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
15657946 AATTGCACAT
15657956 TTTATATTA
1 TTTATATTA
15657965 TTTATATTA
1 TTTATATTA
15657974 TTTATATTA
1 TTTATATTA
15657983 GTGGAGTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATATTA
Found at i:15661014 original size:43 final size:41
Alignment explanation
Indices: 15660859--15661020 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 41
15660849 TGTGATTTCG
15660859 TGTAAGACCACGTCTGGGACATTGGCATCG-ACTTGAAATTTA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTACTTG--ATTTA
* * * *
15660901 CGTGTAAGACCATGTCTGGGACGTTGACATCGTACATGATTTCA
1 --TGTAAGACCACGTCTGGGACATTGGCATCGTACTTGATTT-A
** ** * *
15660945 TGTAAGACCTTGTCTAAGACAGTGGCATCGATATTTGATTATA
1 TGTAAGACCACGTCTGGGACATTGGCATCG-TACTTGATT-TA
* *
15660988 TGTAAGACCACGTCTGGGACAATGGCATTGTAC
1 TGTAAGACCACGTCTGGGACATTGGCATCGTAC
15661021 GAACTGTGGA
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.27
43 36 0.38
44 29 0.31
45 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTACTTGATTTA
Found at i:15664223 original size:23 final size:24
Alignment explanation
Indices: 15664176--15664222 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
15664166 TAAAAGAATT
* * *
15664176 TAGATTTTTGAAAAATTTTAAAAA
1 TAGAATTTTCAAAAATTATAAAAA
15664200 TAGAATTTTCAAAAATTATAAAA
1 TAGAATTTTCAAAAATTATAAAA
15664223 TTATAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (24 bp):
TAGAATTTTCAAAAATTATAAAAA
Found at i:15665376 original size:19 final size:19
Alignment explanation
Indices: 15665343--15665390 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
15665333 TAAACAATTC
15665343 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
15665360 AA-AATATTAAATTTAATTT
1 AATAATA-TAAATTTAATAT
15665379 AATAATATAAAT
1 AATAATATAAAT
15665391 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 4 0.15
17 6 0.23
19 12 0.46
20 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:15665910 original size:9 final size:9
Alignment explanation
Indices: 15665892--15665928 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
15665882 TATAGTTTGA
*
15665892 TATTCAAAT
1 TATTCGAAT
15665901 TATTCGAAT
1 TATTCGAAT
*
15665910 TATTCGAGT
1 TATTCGAAT
15665919 TATTCGAAT
1 TATTCGAAT
15665928 T
1 T
15665929 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:15666157 original size:29 final size:30
Alignment explanation
Indices: 15666091--15666147 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
15666081 CATGCAAACT
15666091 ATTTTTTTTCATAATTTTATATATTTTTTAC
1 ATTTTTTTTCA-AATTTTATATATTTTTTAC
*
15666122 TTTTTTTTTC-AATTTTATA-ATTTTTT
1 ATTTTTTTTCAAATTTTATATATTTTTT
15666148 GTAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 9 0.36
31 9 0.36
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (30 bp):
ATTTTTTTTCAAATTTTATATATTTTTTAC
Found at i:15666203 original size:41 final size:39
Alignment explanation
Indices: 15666127--15666241 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 39
15666117 TTTACTTTTT
** * *
15666127 TTTTCAATTTTATAATTTTTTGTAATTTTTTATATTCTA
1 TTTTCAATTTTATAATTTTTAATAAATTTTAATATTCTA
*
15666166 TTTTCAATTTTATACTATTTTTAATAAATTTTAATATTTTGA
1 TTTTCAATTTTATA--ATTTTTAATAAATTTTAATATTCT-A
*
15666208 TTTTTGGC-ATTTTATAATTTTTAA-AAATTCTAAT
1 -TTTT--CAATTTTATAATTTTTAATAAATTTTAAT
15666242 TTTTTATAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
39 14 0.22
41 28 0.44
42 9 0.14
43 4 0.06
44 8 0.12
45 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (39 bp):
TTTTCAATTTTATAATTTTTAATAAATTTTAATATTCTA
Found at i:15666339 original size:20 final size:19
Alignment explanation
Indices: 15666302--15666338 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15666292 TTTAAAAAAT
15666302 TTTTAAAAATTCTATTTTG
1 TTTTAAAAATTCTATTTTG
*
15666321 TTTTGAAAATTCTATTTT
1 TTTTAAAAATTCTATTTT
15666339 TAAACAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTAAAAATTCTATTTTG
Found at i:15666686 original size:22 final size:23
Alignment explanation
Indices: 15666655--15666698 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
15666645 CGTATAGATC
15666655 TATATCATTTTAT-TTATAAATTG
1 TATATCA-TTTATGTTATAAATTG
15666678 TATAT-ATTTATGTTATAAATT
1 TATATCATTTATGTTATAAATT
15666699 ATAAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (23 bp):
TATATCATTTATGTTATAAATTG
Found at i:15667461 original size:19 final size:19
Alignment explanation
Indices: 15667426--15667463 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15667416 AAAAATAATA
*
15667426 TAAAATAATTTTTAAAATT
1 TAAAATAATTTTAAAAATT
15667445 TAAAAT-ATTTATAAAAATT
1 TAAAATAATTT-TAAAAATT
15667464 CCAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATAATTTTAAAAATT
Found at i:15667919 original size:2 final size:2
Alignment explanation
Indices: 15667869--15667901 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
15667859 TGCCCACCCC
*
15667869 TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15667902 CATTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15670736 original size:18 final size:20
Alignment explanation
Indices: 15670695--15670736 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
15670685 TCTTTTAACA
**
15670695 AAAATTACAAAATAATTTTT
1 AAAATTACAAAATAATTTAC
15670715 AAAATTA-AAAAT-ATTTAC
1 AAAATTACAAAATAATTTAC
15670733 AAAA
1 AAAA
15670737 ATTCTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTACAAAATAATTTAC
Found at i:15670737 original size:19 final size:21
Alignment explanation
Indices: 15670692--15670739 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
15670682 CTCTCTTTTA
15670692 ACAAAAATTACAAAATAATTT
1 ACAAAAATTACAAAATAATTT
**
15670713 -TTAAAATTA-AAAAT-ATTT
1 ACAAAAATTACAAAATAATTT
15670731 ACAAAAATT
1 ACAAAAATT
15670740 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (21 bp):
ACAAAAATTACAAAATAATTT
Found at i:15671393 original size:13 final size:13
Alignment explanation
Indices: 15671372--15671402 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15671362 TTCAAAAAAT
*
15671372 AAAAAATATAGAG
1 AAAATATATAGAG
15671385 AAAATATATAGAG
1 AAAATATATAGAG
15671398 AAAAT
1 AAAAT
15671403 TATTAAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (13 bp):
AAAATATATAGAG
Found at i:15672338 original size:2 final size:2
Alignment explanation
Indices: 15672322--15672375 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
15672312 GTTATACCTC
*
15672322 AT AT CT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15672363 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
15672376 AGAAATAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15675048 original size:9 final size:9
Alignment explanation
Indices: 15675034--15675064 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15675024 GTTAAACGAA
15675034 TCGAGTTAT
1 TCGAGTTAT
*
15675043 TCGAGTTAA
1 TCGAGTTAT
15675052 TCGAGTTAT
1 TCGAGTTAT
15675061 TCGA
1 TCGA
15675065 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15675387 original size:19 final size:20
Alignment explanation
Indices: 15675347--15675387 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
15675337 CAAAAACCCT
*
15675347 CAAAATCTTTTATTTTCCCC
1 CAAAATCTTTTATCTTCCCC
15675367 CAAAAT-TTTTA-CTTCCTCC
1 CAAAATCTTTTATCTTCC-CC
15675386 CA
1 CA
15675388 CTTTTCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (20 bp):
CAAAATCTTTTATCTTCCCC
Found at i:15678114 original size:22 final size:22
Alignment explanation
Indices: 15678085--15678156 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
15678075 AGCAATTATC
15678085 CAACATTTAGACAACATTTAAT
1 CAACATTTAGACAACATTTAAT
* * *
15678107 TAACATTTGGACAGCATTTAAT
1 CAACATTTAGACAACATTTAAT
* * * * *
15678129 CAACAATTGGACAGCAATCAAT
1 CAACATTTAGACAACATTTAAT
15678151 CAACAT
1 CAACAT
15678157 CATTTAATCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (22 bp):
CAACATTTAGACAACATTTAAT
Found at i:15678161 original size:36 final size:36
Alignment explanation
Indices: 15678121--15678192 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
15678111 ATTTGGACAG
*
15678121 CATTTAATCAACAATTGGACAGCAATCAATCAACAT
1 CATTTAATCAACAATTGGACAGCAATAAATCAACAT
15678157 CATTTAATCAACAATTGGACAGCAATAAATCAACAT
1 CATTTAATCAACAATTGGACAGCAATAAATCAACAT
15678193 TTGGATAGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.25
Consensus pattern (36 bp):
CATTTAATCAACAATTGGACAGCAATAAATCAACAT
Found at i:15678187 original size:22 final size:22
Alignment explanation
Indices: 15678157--15678458 Score: 365
Period size: 22 Copynumber: 13.7 Consensus size: 22
15678147 CAATCAACAT
15678157 CATTTAATCAACAATTGGACAG
1 CATTTAATCAACAATTGGACAG
* * * *
15678179 CAATAAATCAACATTTGGATAG
1 CATTTAATCAACAATTGGACAG
*
15678201 CATTTAATCAACAATTGGACAA
1 CATTTAATCAACAATTGGACAG
* * * *
15678223 CATTCAATCAATATTTGGACAA
1 CATTTAATCAACAATTGGACAG
*
15678245 CATTTAATCAACAATTGGATAG
1 CATTTAATCAACAATTGGACAG
15678267 CATTTAATCAACAATTGGACAG
1 CATTTAATCAACAATTGGACAG
*
15678289 TA-TTAATTCAACAATTGGACAG
1 CATTTAA-TCAACAATTGGACAG
15678311 CATTTAATCAACAATTGGACAG
1 CATTTAATCAACAATTGGACAG
* * *
15678333 CATTCAATCAATATTTGGACAG
1 CATTTAATCAACAATTGGACAG
*
15678355 CATTTAATCAACAATTGGACGG
1 CATTTAATCAACAATTGGACAG
* *
15678377 CATTAAATCAAC-ATCTGGACAA
1 CATTTAATCAACAAT-TGGACAG
*
15678399 CATTTAATCAACAATTGGACAA
1 CATTTAATCAACAATTGGACAG
* * * * *
15678421 CATTCAATTAATATTTAGACAG
1 CATTTAATCAACAATTGGACAG
15678443 CATTTAATCAACAATT
1 CATTTAATCAACAATT
15678459 TTTACTTCAA
Statistics
Matches: 235, Mismatches: 41, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
21 6 0.03
22 223 0.95
23 6 0.03
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (22 bp):
CATTTAATCAACAATTGGACAG
Found at i:15679314 original size:43 final size:42
Alignment explanation
Indices: 15679244--15679350 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
15679234 CAATGCTAAC
* * * * * *
15679244 GTCCCAGAC-GTGGTCTTTCATGTAATCAAATAACGATACCACT
1 GTCCCAGACAG-GGTCTTACACGCAATCAAAT-ACAACACCAAT
* *
15679287 GTCCCAGACAGGGTCTTACACGCAATCATATACAACGCCAAT
1 GTCCCAGACAGGGTCTTACACGCAATCAAATACAACACCAAT
*
15679329 GTCCCAGACATGGTCTTACACG
1 GTCCCAGACAGGGTCTTACACG
15679351 TAAATCTCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
42 28 0.52
43 25 0.46
44 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGCAATCAAATACAACACCAAT
Found at i:15685366 original size:22 final size:22
Alignment explanation
Indices: 15685340--15685411 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
15685330 AGCAATTATC
*
15685340 CAACATTCAGACAGCATTTAAT
1 CAACATTCAGACAACATTTAAT
* **
15685362 TAACATTTGGACAACATTTAAT
1 CAACATTCAGACAACATTTAAT
* * *
15685384 CAACAATT-GGACAACAATCAAT
1 CAAC-ATTCAGACAACATTTAAT
15685406 CAACAT
1 CAACAT
15685412 CATTTAATCA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 2 0.05
22 37 0.88
23 3 0.07
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.26
Consensus pattern (22 bp):
CAACATTCAGACAACATTTAAT
Found at i:15685417 original size:36 final size:36
Alignment explanation
Indices: 15685376--15685447 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
15685366 ATTTGGACAA
*
15685376 CATTTAATCAACAATTGGACAACAATCAATCAACAT
1 CATTTAATCAACAATTGGACAACAATAAATCAACAT
*
15685412 CATTTAATCAACAATTGGACAACATTAAATCAACAT
1 CATTTAATCAACAATTGGACAACAATAAATCAACAT
15685448 TTGGAGAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (36 bp):
CATTTAATCAACAATTGGACAACAATAAATCAACAT
Found at i:15685442 original size:22 final size:22
Alignment explanation
Indices: 15685412--15685601 Score: 229
Period size: 22 Copynumber: 8.6 Consensus size: 22
15685402 CAATCAACAT
15685412 CATTTAATCAACAATTGGACAA
1 CATTTAATCAACAATTGGACAA
* * * *
15685434 CATTAAATCAACATTTGGAGAG
1 CATTTAATCAACAATTGGACAA
* *
15685456 CATTTAATCAACAATTCGACAG
1 CATTTAATCAACAATTGGACAA
* *
15685478 CA-TTAATTCAACATTTGAACAA
1 CATTTAA-TCAACAATTGGACAA
15685500 CATTTAATCAACAATTGGACAA
1 CATTTAATCAACAATTGGACAA
* *
15685522 CATTAAATCAACATTTGGACAA
1 CATTTAATCAACAATTGGACAA
*
15685544 CATTTAATCAACAATTAGACAA
1 CATTTAATCAACAATTGGACAA
* * * *
15685566 CATTCAATCAATATTTGGACAG
1 CATTTAATCAACAATTGGACAA
15685588 CATTTAATCAACAA
1 CATTTAATCAACAA
15685602 ATTTTACTTC
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
21 4 0.03
22 131 0.94
23 4 0.03
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.28
Consensus pattern (22 bp):
CATTTAATCAACAATTGGACAA
Found at i:15685470 original size:44 final size:44
Alignment explanation
Indices: 15685412--15685601 Score: 290
Period size: 44 Copynumber: 4.3 Consensus size: 44
15685402 CAATCAACAT
* *
15685412 CATTTAATCAACAATTGGACAACATTAAATCAACATTTGGAGAG
1 CATTTAATCAACAATTGGACAACATTAAATCAACATTTGGACAA
* * * *
15685456 CATTTAATCAACAATTCGACAGCATTAATTCAACATTTGAACAA
1 CATTTAATCAACAATTGGACAACATTAAATCAACATTTGGACAA
15685500 CATTTAATCAACAATTGGACAACATTAAATCAACATTTGGACAA
1 CATTTAATCAACAATTGGACAACATTAAATCAACATTTGGACAA
* * * *
15685544 CATTTAATCAACAATTAGACAACATTCAATCAATATTTGGACAG
1 CATTTAATCAACAATTGGACAACATTAAATCAACATTTGGACAA
15685588 CATTTAATCAACAA
1 CATTTAATCAACAA
15685602 ATTTTACTTC
Statistics
Matches: 132, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 132 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.28
Consensus pattern (44 bp):
CATTTAATCAACAATTGGACAACATTAAATCAACATTTGGACAA
Found at i:15685500 original size:11 final size:10
Alignment explanation
Indices: 15685486--15685569 Score: 60
Period size: 11 Copynumber: 7.7 Consensus size: 10
15685476 AGCATTAATT
15685486 CAACATTTGAA
1 CAACATTT-AA
15685497 CAACATTTAA
1 CAACATTTAA
**
15685507 TCAACAATTGGA
1 -CAAC-ATTTAA
*
15685519 CAACATTAAA
1 CAACATTTAA
*
15685529 TCAACATTTGGA
1 -CAACATTT-AA
15685541 CAACATTTAA
1 CAACATTTAA
*
15685551 TCAACAATTAGA
1 -CAACATTTA-A
15685563 CAACATT
1 CAACATT
15685570 CAATCAATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
10 7 0.12
11 45 0.78
12 6 0.10
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.27
Consensus pattern (10 bp):
CAACATTTAA
Found at i:15685626 original size:66 final size:65
Alignment explanation
Indices: 15685415--15685626 Score: 185
Period size: 66 Copynumber: 3.2 Consensus size: 65
15685405 TCAACATCAT
* * * * *
15685415 TTAATCAACAATTGGACAACATTAAATCAACATTTGGAGAGCATTTAATCAACAATTCGACAGC-
1 TTAATCCA-AATTAGACAACATTAAATCAACATTTGGACAGCATTTAATCAACAATTTGACAACA
15685479 A
65 A
* * * * * *
15685480 TTAATTCAACATTTGAACAACATTTAATCAACAATTGGACAACATTAAATCAAC-ATTTGGACAA
1 TTAATCCAA-ATTAG-ACAACATTAAATCAACATTTGGACAGCATTTAATCAACAATTT-GACAA
*
15685544 CAT
63 CAA
* * * * **
15685547 TTAATCAACAATTAGACAACATTCAATCAATATTTGGACAGCATTTAATCAACAAATTTTACTTC
1 TTAATCCA-AATTAGACAACATTAAATCAACATTTGGACAGCATTTAATCAAC-AATTTGACAAC
15685612 AA
64 AA
*
15685614 TTAAGCCAAATTA
1 TTAATCCAAATTA
15685627 TATAATCAAT
Statistics
Matches: 115, Mismatches: 25, Indels: 13
0.75 0.16 0.08
Matches are distributed among these distances:
64 1 0.01
65 13 0.11
66 76 0.66
67 20 0.17
68 5 0.04
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (65 bp):
TTAATCCAAATTAGACAACATTAAATCAACATTTGGACAGCATTTAATCAACAATTTGACAACAA
Found at i:15685789 original size:2 final size:2
Alignment explanation
Indices: 15685782--15685809 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15685772 TAATCATACC
15685782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15685810 CTTTGCTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15686505 original size:42 final size:43
Alignment explanation
Indices: 15686447--15686555 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 43
15686437 ACGATAACAC
*
15686447 TGTCCCAGACAGGGTCTTACACGT-AAT-C-ATATACGACGCCAA
1 TGTCCCAGACATGGTCTTACACGTAAATCCGA-AT-CGACGCCAA
* *
15686489 TGTCCCAGACATGGTCTTAAACGTAAATCGCGAATCGAGGCCAA
1 TGTCCCAGACATGGTCTTACACGTAAATC-CGAATCGACGCCAA
* *
15686533 CGTCCCAGACGTGGTCTTACACG
1 TGTCCCAGACATGGTCTTACACG
15686556 ATGTCAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
42 22 0.39
43 3 0.05
44 28 0.49
45 3 0.05
46 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGTAAATCCGAATCGACGCCAA
Found at i:15687880 original size:16 final size:16
Alignment explanation
Indices: 15687859--15687892 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
15687849 TCAACCCCAA
15687859 AATAATGGAGGCTTCG
1 AATAATGGAGGCTTCG
15687875 AATAATGGAGGCTTCG
1 AATAATGGAGGCTTCG
15687891 AA
1 AA
15687893 CTTCAGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (16 bp):
AATAATGGAGGCTTCG
Found at i:15703783 original size:23 final size:23
Alignment explanation
Indices: 15703735--15703783 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
15703725 ATATTATAAT
* * *
15703735 ATTACTTATATTCAGTATGTATC
1 ATTACTGATATTCAATATGTAGC
15703758 ATTACTGATATTCAAATATG-AGC
1 ATTACTGATATTC-AATATGTAGC
15703781 ATT
1 ATT
15703784 CATCTTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (23 bp):
ATTACTGATATTCAATATGTAGC
Found at i:15704129 original size:26 final size:24
Alignment explanation
Indices: 15704100--15704161 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 24
15704090 TTGTTTTCAT
15704100 ATTTTAAATATATTATTTTATTTAAA
1 ATTTTAAATATA-TATTTTA-TTAAA
15704126 ATTTAGTAAATATATATTTTATTAAA
1 ATTT--TAAATATATATTTTATTAAA
*
15704152 ATTTCAAATA
1 ATTTTAAATA
15704162 GAAATAATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.15
26 13 0.39
27 7 0.21
28 8 0.24
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
ATTTTAAATATATATTTTATTAAA
Found at i:15704148 original size:27 final size:27
Alignment explanation
Indices: 15704104--15704155 Score: 88
Period size: 26 Copynumber: 1.9 Consensus size: 27
15704094 TTTCATATTT
15704104 TAAATATATTATTTTATTTAAAATTTAG
1 TAAATATATTATTTTA-TTAAAATTTAG
15704132 TAAATATA-TATTTTATTAAAATTT
1 TAAATATATTATTTTATTAAAATTT
15704156 CAAATAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 9 0.38
27 7 0.29
28 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
TAAATATATTATTTTATTAAAATTTAG
Found at i:15708438 original size:21 final size:20
Alignment explanation
Indices: 15708414--15708466 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
15708404 AAAGTAGTTT
* * *
15708414 AAATTAATAATATTATTACAA
1 AAATTAA-AAAATTATAAAAA
15708435 AAATGTAAAAAATTATAAAAA
1 AAAT-TAAAAAATTATAAAAA
15708456 AAATTATAAAA
1 AAATTA-AAAA
15708467 CTTTCTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATTAAAAAATTATAAAAA
Found at i:15708458 original size:12 final size:12
Alignment explanation
Indices: 15708441--15708466 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15708431 ACAAAAATGT
15708441 AAAAAATTATAA
1 AAAAAATTATAA
15708453 AAAAAATTATAA
1 AAAAAATTATAA
15708465 AA
1 AA
15708467 CTTTCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAAATTATAA
Found at i:15708516 original size:22 final size:22
Alignment explanation
Indices: 15708473--15708524 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
15708463 AAAACTTTCT
**
15708473 TTTAAAATATATTTTATAAAAA
1 TTTAAAATATATACTATAAAAA
15708495 TTTAAAATATATAACTAT-AAAA
1 TTTAAAATATAT-ACTATAAAAA
15708517 TTCTAAAA
1 TT-TAAAA
15708525 AGGTATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATATATACTATAAAAA
Found at i:15708625 original size:20 final size:20
Alignment explanation
Indices: 15708567--15708617 Score: 79
Period size: 18 Copynumber: 2.6 Consensus size: 20
15708557 TTAAATACCT
15708567 TTTTCAATTTTTATAAA--A
1 TTTTCAATTTTTATAAATTA
15708585 TTTTCAATTTTTATAAATTA
1 TTTTCAATTTTTATAAATTA
*
15708605 TTTTGAATTTTTA
1 TTTTCAATTTTTA
15708618 AATTTTATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 17 0.57
20 13 0.43
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTCAATTTTTATAAATTA
Found at i:15710996 original size:22 final size:22
Alignment explanation
Indices: 15710971--15711013 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15710961 GAAATACCCT
* *
15710971 AGAAAAAGTATAGAAAACTAAG
1 AGAAAAACTAGAGAAAACTAAG
*
15710993 AGAAAACCTAGAGAAAACTAA
1 AGAAAAACTAGAGAAAACTAA
15711014 ATCTAAAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.09, G:0.16, T:0.12
Consensus pattern (22 bp):
AGAAAAACTAGAGAAAACTAAG
Found at i:15720511 original size:41 final size:41
Alignment explanation
Indices: 15720466--15720611 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
15720456 ACAAATTCAA
* *
15720466 CGGCACATAGCCCGCTAGACTTATAGCCTGATTCAGATCAC
1 CGGCACATAGCCTGCTAGACTTATAACCTGATTCAGATCAC
* **
15720507 CGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGATCAC
1 CGGCACATAGCCTGCTAGACTTATAACCTGATTCAGATCAC
* **
15720548 CGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGATCAC
1 CGGCACATAGCCTGCTAGACTTATAACCTGATTCAGATCAC
15720589 CGGCA-ATTAGCCTGCTAGACTTA
1 CGGCACA-TAGCCTGCTAGACTTA
15720612 AAGTCTGAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (41 bp):
CGGCACATAGCCTGCTAGACTTATAACCTGATTCAGATCAC
Found at i:15720926 original size:2 final size:2
Alignment explanation
Indices: 15720919--15720958 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
15720909 ATACCTGTAC
*
15720919 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT A- ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
15720959 TCGAACCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:15721307 original size:17 final size:16
Alignment explanation
Indices: 15721272--15721326 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 16
15721262 GAGTTTATAC
15721272 ATATATATACCTACAT
1 ATATATATACCTACAT
* *
15721288 ATATATATTCGCTCCAT
1 ATATATATAC-CTACAT
*
15721305 ATATATATA--TATAT
1 ATATATATACCTACAT
15721319 ATATATAT
1 ATATATAT
15721327 TATACATTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 11 0.33
16 9 0.27
17 13 0.39
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (16 bp):
ATATATATACCTACAT
Found at i:15721447 original size:12 final size:12
Alignment explanation
Indices: 15721402--15721454 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
15721392 AATAACTTTT
**
15721402 ATATATATATGT
1 ATATATATATAC
*
15721414 ATATATATTCTAGC
1 ATATATA-TATA-C
15721428 ATTATATATATAC
1 A-TATATATATAC
15721441 ATATATATATAC
1 ATATATATATAC
15721453 AT
1 AT
15721455 GCTTATTCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 20 0.59
13 4 0.12
14 4 0.12
15 6 0.18
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (12 bp):
ATATATATATAC
Found at i:15726650 original size:11 final size:11
Alignment explanation
Indices: 15726577--15726652 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
15726567 ATTCCAAAAA
*
15726577 TAATATTATTT
1 TAATATTAATT
15726588 TAATAGTTTAATAT
1 TAATA--TTAAT-T
15726602 TAA-ATTAAATT
1 TAATATT-AATT
*
15726613 TAATACTTATTT
1 TAATA-TTAATT
*
15726625 TAATAGT-ATT
1 TAATATTAATT
15726635 T--TATTAATT
1 TAATATTAATT
15726644 TAATATTAA
1 TAATATTAA
15726653 AGTGATTATC
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 18 0.35
12 12 0.24
13 7 0.14
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:15726660 original size:20 final size:18
Alignment explanation
Indices: 15726578--15726684 Score: 67
Period size: 19 Copynumber: 5.8 Consensus size: 18
15726568 TTCCAAAAAT
* *
15726578 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
* *
15726597 AATATTAAATTAA-ATTT
1 AATATTAATTTAATATTA
* *
15726614 AATACTTATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
15726633 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
15726652 AAGTGATT-ATCTTAATATTA
1 AA-T-ATTAAT-TTAATATTA
15726672 AAT-TTAATTTAAT
1 AATATTAATTTAAT
15726685 GTTTATCTTG
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
17 14 0.20
18 10 0.14
19 29 0.42
20 16 0.23
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:15726971 original size:59 final size:61
Alignment explanation
Indices: 15726895--15727020 Score: 238
Period size: 59 Copynumber: 2.1 Consensus size: 61
15726885 TTTTAGAGAT
15726895 ATTTTTTGATTTACAACTTGACTCAAAAGTTTAGAAAAATTACAAAATTACCCCATT-G-A
1 ATTTTTTGATTTACAACTTGACTCAAAAGTTTAGAAAAATTACAAAATTACCCCATTGGTA
15726954 ATTTTTTGATTTACAACTTGACTCAAAAGTTTAGAAAAATTACAAAATTACCCCATTGGTA
1 ATTTTTTGATTTACAACTTGACTCAAAAGTTTAGAAAAATTACAAAATTACCCCATTGGTA
15727015 ATTTTT
1 ATTTTT
15727021 GTGAAATTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
59 57 0.88
60 1 0.02
61 7 0.11
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (61 bp):
ATTTTTTGATTTACAACTTGACTCAAAAGTTTAGAAAAATTACAAAATTACCCCATTGGTA
Found at i:15738592 original size:24 final size:24
Alignment explanation
Indices: 15738546--15738592 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15738536 CTTCTATTAA
*
15738546 TTATTATAAATTTTAATGATTTTT
1 TTATTATAAATTTTAATCATTTTT
*
15738570 TTATTATAAATTTTTATC-TTTTT
1 TTATTATAAATTTTAATCATTTTT
15738593 AATAATTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATTATAAATTTTAATCATTTTT
Found at i:15739051 original size:14 final size:15
Alignment explanation
Indices: 15739032--15739061 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15739022 TTTTGTTATT
15739032 AAACGGTTA-TTCCA
1 AAACGGTTATTTCCA
15739046 AAACGGTTATTTCCA
1 AAACGGTTATTTCCA
15739061 A
1 A
15739062 GCGTACATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (15 bp):
AAACGGTTATTTCCA
Found at i:15739706 original size:26 final size:26
Alignment explanation
Indices: 15739657--15739707 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
15739647 ACCGATGTCG
* *
15739657 CAGCATAGCTGCCAGCAGTAAAAATA
1 CAGCAGAGCTGCCAACAGTAAAAATA
* *
15739683 CAGCAGAGCTGCCAATAGTCAAAAT
1 CAGCAGAGCTGCCAACAGTAAAAAT
15739708 GGCTAAGAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.16
Consensus pattern (26 bp):
CAGCAGAGCTGCCAACAGTAAAAATA
Found at i:15739828 original size:32 final size:32
Alignment explanation
Indices: 15739756--15740024 Score: 233
Period size: 32 Copynumber: 8.4 Consensus size: 32
15739746 CAGAATGGTT
* * *
15739756 ACAAGCCATAAGT-ACAGTAATGTGATTGGCAC
1 ACAA-CCATCAGTAACAGTAATATGATCGGCAC
* *
15739788 A-AAGCCATCAGTAGCAGTGATATGATCGGCAC
1 ACAA-CCATCAGTAACAGTAATATGATCGGCAC
* * *
15739820 ACAACCATCAGTAACGGTAACATGATCAGCAC
1 ACAACCATCAGTAACAGTAATATGATCGGCAC
*
15739852 A-AAGCCATCAGTAACAGTGATATGATCGGCAC
1 ACAA-CCATCAGTAACAGTAATATGATCGGCAC
* *
15739884 ACAGCCATCAGTAACAGTAAAATGATCGGCAC
1 ACAACCATCAGTAACAGTAATATGATCGGCAC
* ** **
15739916 ACAGCCATTGGTAATGGTAATATGATCGGCAC
1 ACAACCATCAGTAACAGTAATATGATCGGCAC
* * * * *
15739948 AAAACCATCAGTAACGGTACTATAATCGACAC
1 ACAACCATCAGTAACAGTAATATGATCGGCAC
* * * *
15739980 A-AATCCATCAGTAACGGTACTACGGTCGGCAC
1 ACAA-CCATCAGTAACAGTAATATGATCGGCAC
15740012 A-AAGCCATCAGTA
1 ACAA-CCATCAGTA
15740025 GCATCGCAGC
Statistics
Matches: 197, Mismatches: 35, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
31 14 0.07
32 180 0.91
33 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (32 bp):
ACAACCATCAGTAACAGTAATATGATCGGCAC
Found at i:15739885 original size:64 final size:63
Alignment explanation
Indices: 15739784--15740024 Score: 263
Period size: 64 Copynumber: 3.8 Consensus size: 63
15739774 AATGTGATTG
*
15739784 GCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATC
1 GCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATC
* * *
15739847 AGCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAGCCATCAGTAACAGTAAAATGATC
1 -GCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATC
* ** ** * * *
15739911 GGCACACAGCCATTGGTAATGGTAATATGATCGGCACAAAACCATCAGTAACGGT-ACTATAATC
1 -GCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAACCATCAGTAACGGTAAC-ATGATC
* * * *
15739975 GACACAAATCCATCAGTAACGGT-ACTACGGTCGGCACA-AAGCCATCAGTA
1 G-CACAAAGCCATCAGTAACAGTGA-TATGATCGGCACACAA-CCATCAGTA
15740025 GCATCGCAGC
Statistics
Matches: 150, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
63 5 0.03
64 145 0.97
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (63 bp):
GCACAAAGCCATCAGTAACAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATC
Found at i:15739935 original size:96 final size:95
Alignment explanation
Indices: 15739758--15739994 Score: 278
Period size: 96 Copynumber: 2.5 Consensus size: 95
15739748 GAATGGTTAC
* * * * * *
15739758 AAGCCATAAGT-ACAGTAATGTGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
1 AAGCCATCAGTAACAGT-ATATGATCGGCACAAAGCCATCAGTAACAGTAAAATGATCGGCACAC
15739822 AACCATCAGTAACGGTAACATGATCAGCACA
65 AACCATCAGTAACGGTAACATGATCAGCACA
*
15739853 AAGCCATCAGTAACAGTGATATGATCGGCACACAGCCATCAGTAACAGTAAAATGATCGGCACAC
1 AAGCCATCAGTAACAGT-ATATGATCGGCACAAAGCCATCAGTAACAGTAAAATGATCGGCACAC
* ** * * *
15739918 AGCCATTGGTAATGGTAATATGATCGGCACA
65 AACCATCAGTAACGGTAACATGATCAGCACA
* * * * *
15739949 AAACCATCAGTAACGGTACTATAATCGACACAAATCCATCAGTAAC
1 AAGCCATCAGTAACAGTA-TATGATCGGCACAAAGCCATCAGTAAC
15739995 GGTACTACGG
Statistics
Matches: 120, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
95 11 0.09
96 109 0.91
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (95 bp):
AAGCCATCAGTAACAGTATATGATCGGCACAAAGCCATCAGTAACAGTAAAATGATCGGCACACA
ACCATCAGTAACGGTAACATGATCAGCACA
Found at i:15740009 original size:96 final size:96
Alignment explanation
Indices: 15739785--15740024 Score: 266
Period size: 96 Copynumber: 2.5 Consensus size: 96
15739775 ATGTGATTGG
* * * * *
15739785 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATCAGC
1 CACAAAGCCATCAGTAACAGTAAAACGATCGGCACACAGCCATCAGTAACGGTAACATGATCAGC
* * *
15739850 ACAAAGCCATCAGTAACAGTGATATGATCGG
66 ACAAAACCATCAGTAACAGTGATATAATCGA
* * ** * * *
15739881 CACACAGCCATCAGTAACAGTAAAATGATCGGCACACAGCCATTGGTAATGGTAATATGATCGGC
1 CACAAAGCCATCAGTAACAGTAAAACGATCGGCACACAGCCATCAGTAACGGTAACATGATCAGC
*
15739946 ACAAAACCATCAGTAACGGT-ACTATAATCGA
66 ACAAAACCATCAGTAACAGTGA-TATAATCGA
* * ** * *
15739977 CACAAATCCATCAGTAACGGTACTACGGTCGGCACAAAGCCATCAGTA
1 CACAAAGCCATCAGTAACAGTAAAACGATCGGCACACAGCCATCAGTA
15740025 GCATCGCAGC
Statistics
Matches: 119, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
95 1 0.01
96 118 0.99
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.18
Consensus pattern (96 bp):
CACAAAGCCATCAGTAACAGTAAAACGATCGGCACACAGCCATCAGTAACGGTAACATGATCAGC
ACAAAACCATCAGTAACAGTGATATAATCGA
Found at i:15740197 original size:24 final size:23
Alignment explanation
Indices: 15740170--15740251 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 23
15740160 CCATGCTCAG
15740170 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAA-CACAGACA
* **
15740194 AATCAGTCATACCAAACATTGACA
1 AATCAGTCAT-TCAAACACAGACA
* * *
15740218 AATCAGTCATTTAACCATAGACA
1 AATCAGTCATTCAAACACAGACA
* *
15740241 AAACAATCATT
1 AATCAGTCATT
15740252 TAACCTCGAG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 18 0.38
24 26 0.54
25 4 0.08
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.23
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:15740347 original size:53 final size:53
Alignment explanation
Indices: 15740273--15740407 Score: 157
Period size: 54 Copynumber: 2.5 Consensus size: 53
15740263 GGCAAAAATA
* * * **
15740273 GTCA-TTTACCTACCAGAGCATTACGGTCATTTTACCCTATAG-GGGATTACG
1 GTCATTTTACCTACAAGGGCATTACGGTCATTTTACCCTACAGAGAAATTACG
*
15740324 GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGAGAAATTACG
1 GTCATTTTA-CCTACAAGGGCATTACGGTCATTTTACCCTACAGAGAAATTACG
* * *
15740378 GTTATTTTATCCTACAGGGGTATTACGGTC
1 GTCATTTTA-CCTACAAGGGCATTACGGTC
15740408 CAAATATTGA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 4 0.06
52 4 0.06
53 30 0.43
54 32 0.46
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (53 bp):
GTCATTTTACCTACAAGGGCATTACGGTCATTTTACCCTACAGAGAAATTACG
Found at i:15740355 original size:27 final size:27
Alignment explanation
Indices: 15740273--15740407 Score: 134
Period size: 27 Copynumber: 5.1 Consensus size: 27
15740263 GGCAAAAATA
* *
15740273 GTCA-TTTA-CCTACCAGAGCATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
* *
15740298 GTCATTTTACCCTA-TAGGGGATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
15740324 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
* **
15740351 ATCATTTTACCCTAC-AGAGAAATTACG
1 GTCATTTTACCCTACAAG-GGCATTACG
* * * *
15740378 GTTATTTTATCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
15740405 GTC
1 GTC
15740408 CAAATATTGA
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
25 4 0.04
26 29 0.32
27 56 0.62
28 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGCATTACG
Found at i:15740403 original size:54 final size:53
Alignment explanation
Indices: 15740273--15740404 Score: 151
Period size: 53 Copynumber: 2.5 Consensus size: 53
15740263 GGCAAAAATA
* * * * **
15740273 GTCA-TTTA-CCTACCAGAGCATTACGGTCATTTTACCCTATAGGGGATTACG
1 GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGAAATTACG
15740324 GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGAGAAATTACG
1 GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAG-GAAATTACG
* * * *
15740378 GTTATTTTATCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
15740405 GTCCAAATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 4 0.06
52 4 0.06
53 30 0.44
54 30 0.44
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (53 bp):
GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGAAATTACG
Found at i:15747442 original size:13 final size:13
Alignment explanation
Indices: 15747424--15747453 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15747414 TATAGAATTA
*
15747424 TAAAATATTTTCT
1 TAAAATATTTTAT
15747437 TAAAATATTTTAT
1 TAAAATATTTTAT
15747450 TAAA
1 TAAA
15747454 TTCAAACTTT
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:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAAATATTTTAT
Found at i:15747536 original size:45 final size:44
Alignment explanation
Indices: 15747483--15747580 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
15747473 TTTGGTTCGT
15747483 TGTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAA
* *
15747528 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAA
*
15747572 TGGAATGGA
1 TGTAATGGA
15747581 GGTGTAATAG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
43 1 0.02
44 24 0.49
45 24 0.49
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAA
Found at i:15750927 original size:14 final size:14
Alignment explanation
Indices: 15750908--15750935 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15750898 AGCAGAAATC
15750908 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
15750922 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
15750936 GAAATGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:15750935 original size:19 final size:18
Alignment explanation
Indices: 15750911--15750955 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
15750901 AGAAATCTGG
15750911 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
15750930 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
15750947 AGAAAAGAA
1 AGAAAAGAA
15750956 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:15752562 original size:15 final size:15
Alignment explanation
Indices: 15752514--15752563 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
15752504 ATCATGTTTA
*
15752514 CACTTTCATTTTGAT
1 CACTTTCATTTTGGT
15752529 CAC--TCAACTTTTAGGT
1 CACTTTC-A-TTTT-GGT
15752545 CACTTTCATTTTGGT
1 CACTTTCATTTTGGT
15752560 CACT
1 CACT
15752564 AAAAAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 2 0.07
14 1 0.03
15 14 0.48
16 9 0.31
17 1 0.03
18 2 0.07
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (15 bp):
CACTTTCATTTTGGT
Found at i:15753371 original size:30 final size:29
Alignment explanation
Indices: 15753345--15753404 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
15753335 AGAATTGGAT
* *
15753345 CAAATTAAAATTTCATGTATAAAATTGCA
1 CAAAATAAAAGTTCATGTATAAAATTGCA
* *
15753374 CAAAATCAAAGTTCATGTATACAATTGCA
1 CAAAATAAAAGTTCATGTATAAAATTGCA
15753403 CA
1 CA
15753405 TTAAACCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (29 bp):
CAAAATAAAAGTTCATGTATAAAATTGCA
Found at i:15757220 original size:29 final size:29
Alignment explanation
Indices: 15757165--15757243 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
15757155 AATTGAATTG
*
15757165 AATCAAAATCCATGTATAAAATCACACAA
1 AATCAAAATCCATATATAAAATCACACAA
* ** * *
15757194 AATCAAAGTCCATATATAGCATTACACATTG
1 AATCAAAATCCATATATAAAATCACACA--A
*
15757225 AATCAAAATTCATATATAA
1 AATCAAAATCCATATATAA
15757244 TTTTGATATT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 23 0.59
31 16 0.41
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.27
Consensus pattern (29 bp):
AATCAAAATCCATATATAAAATCACACAA
Found at i:15770885 original size:106 final size:107
Alignment explanation
Indices: 15770634--15770946 Score: 373
Period size: 106 Copynumber: 2.9 Consensus size: 107
15770624 TAAATAAGGA
* * *
15770634 AATGTTTTGCGTTTGGAAAATCGAGAAAACGTGTCCTAACGTGCTGGGTTTCGATTTTTTTTCGT
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGA---TTTCTCGT
* * * *
15770699 TCGACCAAATAGCTAAAATATCCTTTTAAACTTTTAAAATAAGAC
63 TCGACCAAATAGCTAAAATATCCTTTCAAAATTTCAAAACAAGAC
* ** * * *
15770744 AATATTCCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATTACTCGTTTG
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
** * *
15770809 ACCAAATAG-TTGAATATCCTTTCAAAATTTCAAAACGAGGC
66 ACCAAATAGCTAAAATATCCTTTCAAAATTTCAAAACAAGAC
* *
15770850 AATGTTTTGCATTTGGAAATTCGAGAGAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
* *
15770915 ACTAAATAGC-CAAATATCCTCTT--AAATTTCAA
66 ACCAAATAGCTAAAATATCCT-TTCAAAATTTCAA
15770947 TCTATGTCGT
Statistics
Matches: 173, Mismatches: 28, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
105 9 0.05
106 97 0.56
107 19 0.11
110 48 0.28
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (107 bp):
AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
ACCAAATAGCTAAAATATCCTTTCAAAATTTCAAAACAAGAC
Found at i:15772478 original size:7 final size:7
Alignment explanation
Indices: 15772466--15772510 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
15772456 CCAAGAATAA
15772466 TTCATGT
1 TTCATGT
15772473 TTCATGTT
1 TTCATG-T
15772481 TTCATGT
1 TTCATGT
**
15772488 TTCATAC
1 TTCATGT
*
15772495 TGCATGT
1 TTCATGT
15772502 TTCATGT
1 TTCATGT
15772509 TT
1 TT
15772511 TCTTCTGTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.56
Consensus pattern (7 bp):
TTCATGT
Found at i:15772796 original size:37 final size:37
Alignment explanation
Indices: 15772754--15772863 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
15772744 TTTATGTGTT
*
15772754 AAAGACTTATGAAATATTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
*
15772791 AAAGACTTATGTAATATTTTTAGTTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
* * *
15772828 AAAGACTTGTGTAATTTTTTTAATTATATAGTGATT
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATT
15772864 TAAATCGGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.46
Consensus pattern (37 bp):
AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
Found at i:15772802 original size:20 final size:20
Alignment explanation
Indices: 15772777--15772840 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
15772767 ATATTTTTAA
15772777 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
* ***
15772797 TTATGTAAT-ATTTTTAG--
1 TTATGTAGTGATTCAAAGAC
15772814 TTATGTAGTGATTCAAAGAC
1 TTATGTAGTGATTCAAAGAC
*
15772834 TTGTGTA
1 TTATGTA
15772841 ATTTTTTTAA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 5 0.16
20 14 0.44
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (20 bp):
TTATGTAGTGATTCAAAGAC
Found at i:15772880 original size:9 final size:9
Alignment explanation
Indices: 15772863--15772946 Score: 125
Period size: 9 Copynumber: 9.4 Consensus size: 9
15772853 ATATAGTGAT
15772863 TTAAATCGG
1 TTAAATCGG
*
15772872 TTAAGTCGG
1 TTAAATCGG
*
15772881 TTAAATCGA
1 TTAAATCGG
*
15772890 TTAAGTCGG
1 TTAAATCGG
15772899 TTAAATCGG
1 TTAAATCGG
15772908 TTAAATCGG
1 TTAAATCGG
15772917 TT-AATCGG
1 TTAAATCGG
*
15772925 TTAAATAGG
1 TTAAATCGG
15772934 TTAAATCGG
1 TTAAATCGG
15772943 TTAA
1 TTAA
15772947 TTTTTAACCA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
8 8 0.12
9 58 0.88
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (9 bp):
TTAAATCGG
Found at i:15772935 original size:26 final size:26
Alignment explanation
Indices: 15772866--15772947 Score: 128
Period size: 26 Copynumber: 3.1 Consensus size: 26
15772856 TAGTGATTTA
* *
15772866 AATCGGTTAAGTCGGTTAAATCGATT
1 AATCGGTTAAATCGGTTAAATCGGTT
15772892 AAGTCGGTTAAATCGGTTAAATCGGTT
1 AA-TCGGTTAAATCGGTTAAATCGGTT
*
15772919 AATCGGTTAAATAGGTTAAATCGGTT
1 AATCGGTTAAATCGGTTAAATCGGTT
15772945 AAT
1 AAT
15772948 TTTTAACCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
26 28 0.54
27 24 0.46
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (26 bp):
AATCGGTTAAATCGGTTAAATCGGTT
Found at i:15775845 original size:18 final size:18
Alignment explanation
Indices: 15775811--15775844 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15775801 AAAATAGGAA
*
15775811 AAAAAGGAAGAAGAAAAT
1 AAAAAGAAAGAAGAAAAT
15775829 AAAAAGAAAG-AGAAAA
1 AAAAAGAAAGAAGAAAA
15775845 AGGAGAGGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (18 bp):
AAAAAGAAAGAAGAAAAT
Found at i:15776685 original size:6 final size:7
Alignment explanation
Indices: 15776654--15776691 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
15776644 ACAAAAACAA
15776654 AAAAGATG
1 AAAA-ATG
*
15776662 AAAAACG
1 AAAAATG
15776669 -AAAATG
1 AAAAATG
15776675 AAAAATG
1 AAAAATG
15776682 AAAAATG
1 AAAAATG
15776689 AAA
1 AAA
15776692 TAGTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
6 5 0.19
7 18 0.67
8 4 0.15
ACGTcount: A:0.71, C:0.03, G:0.16, T:0.11
Consensus pattern (7 bp):
AAAAATG
Found at i:15778067 original size:44 final size:44
Alignment explanation
Indices: 15778013--15778824 Score: 572
Period size: 44 Copynumber: 18.7 Consensus size: 44
15778003 GTCATCTTAA
* * *
15778013 CCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
** *
15778056 TTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* * * * ** * *
15778100 GCAAAT-CTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCA
1 CCAGATCCT-ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* * *
15778144 CCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
** * *
15778187 TTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATACG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* * ** * *
15778231 GC-GAATCTCATAT-T-CCTAAGCAGTAGTGAAGCAGATTTAAGCCA
1 CCAG-ATC-C-TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* * * * * *
15778275 CCAG-TTCTATCTCCTTAAACAGTAGTGGAGCAGGTCAAAGATG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
**
15778318 TTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* * * * * ** * *
15778362 GC-GAAT-CTCACCTTCCTAAACAGTAGTGAAGCAGATTTAAGCCA
1 CCAG-ATCCT-ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
15778406 CCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* * * * ** * *
15778449 GC-GAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCA
1 CCAG-ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* *
15778493 CCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
** * * * *
15778536 GTAGATCCTATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
**
15778580 GTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* * * * * * ** *
15778624 GC-GAATCTTATCTTCCTAAGCGGCAGTGAAGCAGATTTAA-ACCA
1 CCAG-ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CG
* * *
15778668 CCAG-TTCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CG
* * * * * *
15778712 -TAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGACCG--CA-T
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
* * * **
15778752 CAAGTAT--TATCTCCCTAAGCAGTAGCGGAGCAGA-CAAAAGAAA
1 CCAG-ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGACG
* *
15778795 CCA-ATCCTATCTCCCTGAGCAGCAGTGGAG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAG
15778825 TAGGTTGAAG
Statistics
Matches: 591, Mismatches: 146, Indels: 64
0.74 0.18 0.08
Matches are distributed among these distances:
39 1 0.00
40 25 0.04
41 7 0.01
42 7 0.01
43 175 0.30
44 368 0.62
45 5 0.01
46 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.23
Consensus pattern (44 bp):
CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
Found at i:15778171 original size:87 final size:87
Alignment explanation
Indices: 15778061--15778738 Score: 671
Period size: 87 Copynumber: 7.8 Consensus size: 87
15778051 AGATGTTAGA
* *
15778061 TCCTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACGGCAAATCTCATCTTCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAG
15778126 TGAAGCAGATTTAAGCCACCAG
66 TGAAGCAGATTTAAGCCACCAG
* * * ** * *
15778148 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAG
* ** * ** * *
15778213 TGGAGCAGATCGAATACGGCGAA
66 TGAAGCAGATTTAA-GCCACCAG
* ** * ** ** *
15778236 TCTCATAT-T-CCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTTC-TATC-TCCTTAAACAG
1 TC-C-TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCC-TAAGCAG
* * ** *****
15778297 TAGTGGAGCAGGTCAAAGATGTTAG
63 TAGTGAAGCAGATTTAAGCCACCAG
* * * *
15778322 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTCACCTTCCTAAACAGTA
1 -TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTA
15778387 GTGAAGCAGATTTAAGCCACCAG
65 GTGAAGCAGATTTAAGCCACCAG
*
15778410 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAG
15778475 TGAAGCAGATTTAAGCCACCAG
66 TGAAGCAGATTTAAGCCACCAG
* * * * * **
15778497 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCCCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAG
* * ** *****
15778562 TGGAGCAGGTCAAAGATGGTAG
66 TGAAGCAGATTTAAGCCACCAG
* * *
15778584 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCGGCA
1 -TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTA
*
15778649 GTGAAGCAGATTTAAACCACCAG
65 GTGAAGCAGATTTAAGCCACCAG
* * ** * * *
15778672 TTCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAG
15778737 TG
66 TG
15778739 GAGTAGACCG
Statistics
Matches: 474, Mismatches: 107, Indels: 20
0.79 0.18 0.03
Matches are distributed among these distances:
85 3 0.01
86 6 0.01
87 333 0.70
88 124 0.26
89 5 0.01
90 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (87 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCTAAGCAGTAG
TGAAGCAGATTTAAGCCACCAG
Found at i:15778247 original size:131 final size:131
Alignment explanation
Indices: 15778012--15778741 Score: 1009
Period size: 131 Copynumber: 5.6 Consensus size: 131
15778002 AGTCATCTTA
15778012 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
1 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
* *
15778077 AGTAGTGGAGCAGACCGAAGACGGCAAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
15778142 C
131 C
*
15778143 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCTTATCTCCCTAAGC
1 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
* *
15778208 AGTAGTGGAGCAGATCGAATACGGCGAATCTCATATTCCTAAGCAGTAGTGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
15778273 C
131 C
* * *
15778274 ACCAGTTCTATCTCCTTAAACAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
1 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
* *
15778339 AGTAGTGGAGCAGATCGAAGACGGCGAATCTCACCTTCCTAAACAGTAGTGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
15778404 C
131 C
* * * ** * *
15778405 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-GCGAATCTTATCTTCCTAAG
1 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAG-ATCCTATCTCCCTAAG
* ** ** * * * * * **
15778469 CAGTAGTGAAGCAGATTTAAG-CCACCAGTC-CTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAA
65 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTC-ATCTTCCTAAGCAGTAGTGAAGCAGATTTAA
**
15778532 GAT
129 GCC
*** * *
15778535 GGTAGATCCTATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAG
1 ACCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAG
* * * *
15778600 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCGGCAGTGAAGCAGATTTAAA
65 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG
15778665 CC
130 CC
* * *
15778667 ACCAGTTCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT-TGTAGATCTTATCTCCCTAAG
1 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGT-TAGATCCTATCTCCCTAAG
15778731 CAGTAGTGGAG
65 CAGTAGTGGAG
15778742 TAGACCGCAT
Statistics
Matches: 516, Mismatches: 76, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
129 1 0.00
130 33 0.06
131 450 0.87
132 32 0.06
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (131 bp):
ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
C
Found at i:15778484 original size:262 final size:260
Alignment explanation
Indices: 15778012--15778872 Score: 1058
Period size: 262 Copynumber: 3.3 Consensus size: 260
15778002 AGTCATCTTA
15778012 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
1 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
* *
15778077 AGTAGTGGAGCAGACCGAAGACGGCAAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
*
15778142 CACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCTTATCTCCCTAAG
131 CACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATG-TAGATCTTATCTCCCTAAG
* ** * **
15778207 CAGTAGTGGAGCAGATCGAATACGGCGAATCTCATAT-T-CCTAAGCAGTAGTGAAGCAGATTTA
195 CAGTAGTGAAGCAGATCGAA-ACCACCAATC-C-TATCTCCCTAAGCAGTAGTGAAGCAGATCGA
*
15778270 AGCC
257 AGAC
* * *
15778274 ACCAGTTCTATCTCCTTAAACAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
1 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
* *
15778339 AGTAGTGGAGCAGATCGAAGACGGCGAATCTCACCTTCCTAAACAGTAGTGAAGCAGATTTAAGC
66 AGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
* * ** *
15778404 CACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAG
131 CACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGTAG-ATCTTATCTCCCTAAG
** * * * *
15778469 CAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGA
195 CAGTAGTGAAGCAGATCGAAACCACCAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGA
*
15778534 T
260 C
*** * *
15778535 GGTAGATCCTATCCCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAG
1 ACCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAG
* * * *
15778600 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCGGCAGTGAAGCAGATTTAAA
65 CAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG
*
15778665 CCACCAGTTCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAA
130 CCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGA-TGTAGATCTTATCTCCCTAA
* * * * ** * * *
15778730 GCAGTAGTGGAGTAGACCG----CATCAAGTATTATCTCCCTAAGCAGTAGCGGAGCAGA-CAAA
194 GCAGTAGTGAAGCAGATCGAAACCACCAA-TCCTATCTCCCTAAGCAGTAGTGAAGCAGATC-GA
*
15778790 AGAA
257 AGAC
* * * * ** *
15778794 ACCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAT-TGTAGATCTTATCT--CTAAG
1 ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGT-TAGATCCTATCTCCCTAAG
* *
15778856 CAATAGTAGAGCAGATC
65 CAGTAGTGGAGCAGATC
15778873 ACATCCAGTC
Statistics
Matches: 517, Mismatches: 74, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
256 20 0.04
258 48 0.09
259 34 0.07
260 2 0.00
261 31 0.06
262 380 0.74
263 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (260 bp):
ACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGACGGCGAATCTCATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
CACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGTAGATCTTATCTCCCTAAGC
AGTAGTGAAGCAGATCGAAACCACCAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGAC
Found at i:15778606 original size:218 final size:218
Alignment explanation
Indices: 15778061--15778622 Score: 702
Period size: 218 Copynumber: 2.6 Consensus size: 218
15778051 AGATGTTAGA
** * * * *
15778061 TCCTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACGGCAAAT-CTCATCTTCCTAAGCAGTA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCT-ATCTCCCTAAGCAGTA
* ** * * ***
15778125 GTGAAGCAGATTTAAGCCAC-CAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGT
65 GTGGAGCAGATCAAAG--ACGGAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAC
* * *
15778188 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATACGGCGAATCTCATATTCCTAAGCA
128 CAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATATTCCTAAGCA
15778253 GTAGTGAAGCAGATTTAAGCCACCAG
193 GTAGTGAAGCAGATTTAAGCCACCAG
* * * * *
15778279 TTCTATCTCCTTAAACAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
* * * * * * ** *
15778344 TGGAGCAGATCGAAGACGGCGAAT-CTCACCTTCCTAAACAGTAGTGAAGCAGATTTAAGCCACC
66 TGGAGCAGATCAAAGACGGAG-ATCCT-ATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACACC
* *
15778408 AG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
129 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATATTCCTAAGCAG
15778472 TAGTGAAGCAGATTTAAGCCACCAG
194 TAGTGAAGCAGATTTAAGCCACCAG
*
15778497 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCCCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
* * *
15778562 TGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
66 TGGAGCAGATCAAAGACGG-AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
15778623 GGCGAATCTT
Statistics
Matches: 288, Mismatches: 49, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
216 2 0.01
217 1 0.00
218 252 0.88
219 33 0.11
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (218 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
TGGAGCAGATCAAAGACGGAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACACCAG
ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTCATATTCCTAAGCAGTA
GTGAAGCAGATTTAAGCCACCAG
Found at i:15780417 original size:20 final size:20
Alignment explanation
Indices: 15780392--15780438 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
15780382 GATATTTGTT
15780392 TTTATATTGATATT-ACTA-TA
1 TTTATATT-ATATTGA-TATTA
15780412 TTTATATTATATTGATATTA
1 TTTATATTATATTGATATTA
15780432 TTTATAT
1 TTTATAT
15780439 CTTTCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATATTATATTGATATTA
Found at i:15781297 original size:106 final size:107
Alignment explanation
Indices: 15781046--15781358 Score: 373
Period size: 106 Copynumber: 2.9 Consensus size: 107
15781036 TAAATAAGGA
* * *
15781046 AATGTTTTGCGTTTGGAAAATCGAGAAAACGTGTCCTAACGTGCTGGGTTTCGATTTTTTTTCGT
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGA---TTTCTCGT
* * * *
15781111 TCGACCAAATAGCTAAAATATCCTTTTAAACTTTTAAAATAAGAC
63 TCGACCAAATAGCTAAAATATCCTTTCAAAATTTCAAAACAAGAC
* ** * * *
15781156 AATATTCCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATTACTCGTTTG
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
** * *
15781221 ACCAAATAG-TTGAATATCCTTTCAAAATTTCAAAACGAGGC
66 ACCAAATAGCTAAAATATCCTTTCAAAATTTCAAAACAAGAC
* *
15781262 AATGTTTTGCATTTGGAAATTCGAGAGAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
* *
15781327 ACTAAATAGC-CAAATATCCTCTT--AAATTTCAA
66 ACCAAATAGCTAAAATATCCT-TTCAAAATTTCAA
15781359 TCTATGTCGT
Statistics
Matches: 173, Mismatches: 28, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
105 9 0.05
106 97 0.56
107 19 0.11
110 48 0.28
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (107 bp):
AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
ACCAAATAGCTAAAATATCCTTTCAAAATTTCAAAACAAGAC
Found at i:15784105 original size:22 final size:21
Alignment explanation
Indices: 15784052--15784105 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
15784042 ATTAAATATG
*
15784052 ATTAAAATAAAAATAATAGAA
1 ATTAAATTAAAAATAATAGAA
**
15784073 A-TAGCTGTAAAAATAAATAGAA
1 ATTAAAT-TAAAAAT-AATAGAA
15784095 ATTAAATTAAA
1 ATTAAATTAAA
15784106 TCGAATAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
20 2 0.08
21 8 0.32
22 12 0.48
23 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
ATTAAATTAAAAATAATAGAA
Found at i:15787815 original size:22 final size:23
Alignment explanation
Indices: 15787762--15787817 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
15787752 CCCGTTTTTA
* *
15787762 ATTAAAATTAAAATTATATTTTT
1 ATTAAAATTAAAACTATATTATT
* *
15787785 AATAAAATTGAAACTA-ATTATT
1 ATTAAAATTAAAACTATATTATT
15787807 ATTAAAATTAA
1 ATTAAAATTAA
15787818 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTATT
Found at i:15787858 original size:16 final size:16
Alignment explanation
Indices: 15787806--15787860 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
15787796 AACTAATTAT
15787806 TATTAAA-ATTAATTG
1 TATTAAATATTAATTG
* *
15787821 TTAGTAAAATCATTAAAT-
1 -TA-TTAAAT-ATTAATTG
15787839 TATTAAATATTAATTG
1 TATTAAATATTAATTG
15787855 TATTAA
1 TATTAA
15787861 TTGTTGTAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 6 0.19
16 13 0.42
17 6 0.19
19 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (16 bp):
TATTAAATATTAATTG
Found at i:15790648 original size:13 final size:14
Alignment explanation
Indices: 15790624--15790667 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 14
15790614 AATCATATAT
15790624 TTTATGTTTAAATA
1 TTTATGTTTAAATA
15790638 TTTAT-TTTAAA-A
1 TTTATGTTTAAATA
*
15790650 ATTATGTTTAAATA
1 TTTATGTTTAAATA
15790664 TTTA
1 TTTA
15790668 CTCGGCTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 12 0.46
14 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (14 bp):
TTTATGTTTAAATA
Found at i:15795165 original size:18 final size:19
Alignment explanation
Indices: 15795144--15795183 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
15795134 ATCTTTCTTT
15795144 TCTCTCAACTCTCTTAA-C
1 TCTCTCAACTCTCTTAAGC
* *
15795162 TCTCTCAATTTTCTTAAGC
1 TCTCTCAACTCTCTTAAGC
15795181 TCT
1 TCT
15795184 TGTTCTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.20, C:0.33, G:0.03, T:0.45
Consensus pattern (19 bp):
TCTCTCAACTCTCTTAAGC
Found at i:15799230 original size:23 final size:23
Alignment explanation
Indices: 15799199--15799249 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
15799189 ACCTACTTTC
* * *
15799199 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTTGAGATA
15799222 TTACAGTAGTAATTTTTGAGATA
1 TTACAGTAGTAATTTTTGAGATA
15799245 TTACA
1 TTACA
15799250 ACTACGCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTTGAGATA
Found at i:15802176 original size:21 final size:21
Alignment explanation
Indices: 15802150--15802202 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
15802140 AACGGTGGCG
*
15802150 GTGAGATTAGTTACTATAGCA
1 GTGAGATTAGATACTATAGCA
* * *
15802171 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTATAGCA
15802192 GTGAGATTAGA
1 GTGAGATTAGA
15802203 AACAGCGGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTATAGCA
Found at i:15802982 original size:113 final size:113
Alignment explanation
Indices: 15802784--15803011 Score: 420
Period size: 113 Copynumber: 2.0 Consensus size: 113
15802774 AGAATATATC
* *
15802784 CCCATACCTATTTCAAATATACGCCGAAACATGTAATTTACAGTAAAACAAGAGTCCAGGTAGCA
1 CCCATACCTATTCCAAATATACGCCAAAACATGTAATTTACAGTAAAACAAGAGTCCAGGTAGCA
15802849 TATATTACAGTTCTTAATACAATATATGATTACTATCAGTATGTTGTG
66 TATATTACAGTTCTTAATACAATATATGATTACTATCAGTATGTTGTG
* *
15802897 CCCATACCTATTCCAAATATATGCCAAAACATGTAATTTACGGTAAAACAAGAGTCCAGGTAGCA
1 CCCATACCTATTCCAAATATACGCCAAAACATGTAATTTACAGTAAAACAAGAGTCCAGGTAGCA
15802962 TATATTACAGTTCTTAATACAATATATGATTACTATCAGTATGTTGTG
66 TATATTACAGTTCTTAATACAATATATGATTACTATCAGTATGTTGTG
15803010 CC
1 CC
15803012 ATGATTGAAG
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (113 bp):
CCCATACCTATTCCAAATATACGCCAAAACATGTAATTTACAGTAAAACAAGAGTCCAGGTAGCA
TATATTACAGTTCTTAATACAATATATGATTACTATCAGTATGTTGTG
Found at i:15809427 original size:100 final size:100
Alignment explanation
Indices: 15809055--15809620 Score: 656
Period size: 100 Copynumber: 5.7 Consensus size: 100
15809045 TTGCGGCCTC
* * * * ** *
15809055 AATTGCAATGTCAGGG-ATCACGATTCGCAGTCGTAGCTTTAATCTTTTCCACTGCACTACTAGG
1 AATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACTACCAGG
15809119 GAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTT
66 GAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTT
* * *
15809154 AATTGCAATGTCGGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCT-CCAG
1 AATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCA-CTACCAG
* ** ** *
15809217 GAAAGTAAGATTCGTCGTTACGACTTCAATCTTTTT
65 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTT
* ** * * *
15809253 AATTGCAATGTCGGGGAA-CAAGATTCGCCATTTTAGCTTCAATCTGTTCAACTGCAAC-ACCAG
1 AATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGC-ACTACCAG
* * * * *
15809316 GGAAGTAAGATTCGCCATTGCGACTTCAATCTTTTA
65 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTT
* * * * * * * *
15809352 AAATGAAATATCAGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCTCCTCTGTACTGCCAGG
1 AATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACTACCAGG
* *
15809417 GAAGTGAGATTCACCGTTGTGGCTTCAATCTTTTA
66 GAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTT
* * * * * *
15809452 AATTGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCATTGTACTACCAGA
1 AATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACTACCAGG
*
15809517 GAAGTGAGATTCACCGTTGTGGCTTCAATCTTTTT
66 GAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTT
* **
15809552 AATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGCACTGTCAGG
1 AATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACTACCAGG
15809617 GAAG
66 GAAG
15809621 ATAACTTCAT
Statistics
Matches: 403, Mismatches: 58, Indels: 11
0.85 0.12 0.02
Matches are distributed among these distances:
99 183 0.45
100 220 0.55
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (100 bp):
AATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCACTACCAGG
GAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTT
Found at i:15809577 original size:50 final size:50
Alignment explanation
Indices: 15809055--15809597 Score: 285
Period size: 50 Copynumber: 10.9 Consensus size: 50
15809045 TTGCGGCCTC
* * * * * * * *
15809055 AATTGCAATGTCAGGG-ATCACGATTCGCAGTCGTAGCTTTAATCTTTTC
1 AATTGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTT
* * * * *
15809104 CACTGCACTA-CTAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTT
1 AATTGCAATATC-AGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTT
* * * ** *
15809154 AATTGCAATGTCGGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATC
1 AATTGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTT
* * * * * **
15809203 CACTGC-ATCTCCAGGAAAGTAAGATTCGTCG-T-TACGACTTCAATCTTTTT
1 AATTGCAATAT-CAGGGAAGCAAGATTCACCGTTGTA-G-CTTCAATCTTTTT
* * * * * * *
15809253 AATTGCAATGTCGGGGAA-CAAGATTCGCCATTTTAGCTTCAATCTGTTC
1 AATTGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTT
* * * * * * * *
15809302 AACTGCAACACCAGGGAAGTAAGATTCGCCATTG-CGACTTCAATCTTTTA
1 AATTGCAATATCAGGGAAGCAAGATTCACCGTTGTAG-CTTCAATCTTTTT
* * ** * * **
15809352 AAATGAAATATCAGGGAAGCAAGATTTGCCGTCGTAGCTTTAATC-TGCT
1 AATTGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTT
** * * ** ** * *
15809401 CCTCTGTACTGCCAGGGAAGTGAGATTCACCGTTGTGGCTTCAATCTTTTA
1 AAT-TGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTT
* * ** *
15809452 AATTGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTC
1 AATTGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTT
* * * * * ** *
15809502 CATTGTACTACCAGAGAAGTGAGATTCACCGTTGTGGCTTCAATCTTTTT
1 AATTGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTT
* * * *
15809552 AATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCT
1 AATTGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
15809598 GCTCCACTGC
Statistics
Matches: 356, Mismatches: 123, Indels: 29
0.70 0.24 0.06
Matches are distributed among these distances:
48 6 0.02
49 81 0.23
50 260 0.73
51 9 0.03
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (50 bp):
AATTGCAATATCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTT
Found at i:15809959 original size:24 final size:24
Alignment explanation
Indices: 15809905--15809962 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
15809895 TGGATTGCCC
15809905 CCACTGTAATCTTCAAAGCTCAAT
1 CCACTGTAATCTTCAAAGCTCAAT
** * * *
15809929 CTGCTGTAATCTTCAAGGTTCAGT
1 CCACTGTAATCTTCAAAGCTCAAT
15809953 CCACTGTAAT
1 CCACTGTAAT
15809963 TTTGGGACAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGCTCAAT
Found at i:15810851 original size:5 final size:5
Alignment explanation
Indices: 15810841--15810896 Score: 62
Period size: 5 Copynumber: 11.4 Consensus size: 5
15810831 CCTTGGCCTA
* * *
15810841 TTCTT TTCTT TTCTT TT-TT CAT-TT TTCTT TTCGT TTCTT TTCTT TTCGT
1 TTCTT TTCTT TTCTT TTCTT -TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
15810890 TTCTT TT
1 TTCTT TT
15810897 TTCAGTGAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
4 3 0.07
5 40 0.93
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TTCTT
Found at i:15824079 original size:23 final size:23
Alignment explanation
Indices: 15824052--15824127 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
15824042 AGTGTTATTG
*
15824052 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
15824075 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15824098 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
15824121 ATTAGTG
1 ATCAGTG
15824128 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:15828711 original size:19 final size:20
Alignment explanation
Indices: 15828689--15828742 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
15828679 TTAAAATTTT
15828689 AAAAATATTTAAAAATC-CA
1 AAAAATATTTAAAAATCTCA
*
15828708 AAAAAAATTATAAAAAATCTCA
1 AAAAATATT-T-AAAAATCTCA
*
15828730 AAATATA-TTAAAA
1 AAAAATATTTAAAA
15828743 CTTAAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 12 0.41
20 2 0.07
21 8 0.28
22 7 0.24
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATATTTAAAAATCTCA
Found at i:15828759 original size:17 final size:18
Alignment explanation
Indices: 15828710--15828760 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
15828700 AAAATCCAAA
15828710 AAAAATTATAAAAAATCT
1 AAAAATTATAAAAAATCT
* * *
15828728 CAAAATATATTAAAACT-T
1 AAAAAT-TATAAAAAATCT
15828746 AAAAATTATAAAAAA
1 AAAAATTATAAAAAA
15828761 AACATTATCT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
17 7 0.27
18 11 0.42
19 8 0.31
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATTATAAAAAATCT
Found at i:15828920 original size:19 final size:19
Alignment explanation
Indices: 15828896--15828953 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
15828886 AAAAAAATTA
15828896 AAAATTTTATGGATTTTTT
1 AAAATTTTATGGATTTTTT
*
15828915 AAAATTTTAGGGATTTCTTT
1 AAAATTTTATGGATTT-TTT
** * *
15828935 GCATTTTTATGAATTTTTT
1 AAAATTTTATGGATTTTTT
15828954 TGATGTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (19 bp):
AAAATTTTATGGATTTTTT
Found at i:15829215 original size:9 final size:9
Alignment explanation
Indices: 15829203--15829227 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15829193 TTTTTTTAGT
15829203 TTTTTAAAA
1 TTTTTAAAA
15829212 TTTTTAAAA
1 TTTTTAAAA
15829221 TTTTTAA
1 TTTTTAA
15829228 GTGAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:15832117 original size:19 final size:20
Alignment explanation
Indices: 15832085--15832123 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
15832075 TTAAATATAA
15832085 ATTTTGCAACTTTTACAAAAT
1 ATTTTGCAACTTTTA-AAAAT
15832106 ATTTTG-AA-TTTTAAAAAT
1 ATTTTGCAACTTTTAAAAAT
15832124 TTTAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 2 0.11
21 6 0.33
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (20 bp):
ATTTTGCAACTTTTAAAAAT
Found at i:15836372 original size:23 final size:23
Alignment explanation
Indices: 15836324--15836387 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
15836314 ATTTCTATCT
*
15836324 TTTTTTG-TCCATATAATTTGAA
1 TTTTTTGATCCCTATAATTTGAA
15836346 -TTTTTGATCCCTATAATTCT-AA
1 TTTTTTGATCCCTATAATT-TGAA
* *
15836368 TTTTTTGATTCCAATAATTT
1 TTTTTTGATCCCTATAATTT
15836388 CACCCAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.17
22 13 0.36
23 17 0.47
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (23 bp):
TTTTTTGATCCCTATAATTTGAA
Found at i:15836551 original size:13 final size:13
Alignment explanation
Indices: 15836512--15836555 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
15836502 TTTAAATAAA
15836512 CAATTAATAGAAT
1 CAATTAATAGAAT
*
15836525 CAGTTAATCA-AAT
1 CAATTAAT-AGAAT
15836538 CAATTAATAGAAT
1 CAATTAATAGAAT
15836551 CAATT
1 CAATT
15836556 GGTCAAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 1 0.04
13 25 0.93
14 1 0.04
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (13 bp):
CAATTAATAGAAT
Found at i:15843880 original size:23 final size:21
Alignment explanation
Indices: 15843840--15843888 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
15843830 AAGTCAATTT
15843840 TTTTTTATTTTTCCTTTTTGTC
1 TTTTTTATTTTTCC-TTTTGTC
*
15843862 TATTTTTATTTTAT-GTTTTGTC
1 T-TTTTTATTTT-TCCTTTTGTC
15843884 TTTTT
1 TTTTT
15843889 GTCTACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 9 0.38
23 10 0.42
24 1 0.04
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.78
Consensus pattern (21 bp):
TTTTTTATTTTTCCTTTTGTC
Found at i:15843889 original size:30 final size:27
Alignment explanation
Indices: 15843836--15843903 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 27
15843826 AACCAAGTCA
15843836 ATTTTTTTTTATTTTTCCTTTTTGTCT
1 ATTTTTTTTTATTTTTCCTTTTTGTCT
*
15843863 ATTTTTATTTTATGTTTTGTCTTTTTGTCT
1 ATTTTT-TTTTAT-TTTT-CCTTTTTGTCT
* *
15843893 ACTTTTGTTTA
1 ATTTTTTTTTA
15843904 CAACTAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.17
28 6 0.17
29 8 0.23
30 15 0.43
ACGTcount: A:0.10, C:0.09, G:0.07, T:0.74
Consensus pattern (27 bp):
ATTTTTTTTTATTTTTCCTTTTTGTCT
Found at i:15848685 original size:99 final size:99
Alignment explanation
Indices: 15848575--15848776 Score: 341
Period size: 99 Copynumber: 2.0 Consensus size: 99
15848565 CTCAACCTCA
* * *
15848575 ACTACCTCAGAATCCCAACTCCATCGAAACTCTACCACACAACCGAGCAAAAATAACATCCATGC
1 ACTACCTCAGAATCCCAACTCCACCAAAACTCTACCACACAACCGAGCAAAAATAACATCCACGC
15848640 TCGCGCAGGGATCCAAACACAATACCTCCAACAC
66 TCGCGCAGGGATCCAAACACAATACCTCCAACAC
* * *
15848674 ACTACCTCAGAATCCCAACTCCACCAAAACTCTATCATACAACCGAGTAAAAATAACATCCACGC
1 ACTACCTCAGAATCCCAACTCCACCAAAACTCTACCACACAACCGAGCAAAAATAACATCCACGC
*
15848739 TCGCGCAGGGATTCAAACACAATACCTCCAACAC
66 TCGCGCAGGGATCCAAACACAATACCTCCAACAC
15848773 ACTA
1 ACTA
15848777 ACTCCCTTAC
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.39, C:0.36, G:0.09, T:0.15
Consensus pattern (99 bp):
ACTACCTCAGAATCCCAACTCCACCAAAACTCTACCACACAACCGAGCAAAAATAACATCCACGC
TCGCGCAGGGATCCAAACACAATACCTCCAACAC
Found at i:15849206 original size:32 final size:32
Alignment explanation
Indices: 15849166--15849244 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
15849156 AATGTAAATT
**
15849166 ATTAATTTATTATATTT-TAAGTAA-ATTTTTA
1 ATTAATTTATTATATTTATAA-TAATATTTAAA
* *
15849197 TTGTAATTTATAATATTTATAATAATATTTAAA
1 AT-TAATTTATTATATTTATAATAATATTTAAA
15849230 ATTAATTTATTATAT
1 ATTAATTTATTATAT
15849245 AAAATAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
31 1 0.03
32 29 0.74
33 9 0.23
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (32 bp):
ATTAATTTATTATATTTATAATAATATTTAAA
Found at i:15851292 original size:2 final size:2
Alignment explanation
Indices: 15851285--15851310 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15851275 CCTCACTTTA
15851285 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15851311 TCCATTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15853474 original size:32 final size:29
Alignment explanation
Indices: 15853438--15853511 Score: 69
Period size: 32 Copynumber: 2.4 Consensus size: 29
15853428 AAAACATAGC
15853438 AATTAAAAAAATTATATTTTAAAAAACAAAAA
1 AATTAAAAAAATT-T-TTTTAAAAAAC-AAAA
* **
15853470 AATTATGAAAATATTTTTTTAAAATTCAAAA
1 AATTA--AAAAAATTTTTTTAAAAAACAAAA
15853501 AA-TAAAAAAAT
1 AATTAAAAAAAT
15853512 ATAAAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
28 6 0.17
30 2 0.06
31 6 0.17
32 14 0.39
33 1 0.03
34 7 0.19
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (29 bp):
AATTAAAAAAATTTTTTTAAAAAACAAAA
Found at i:15856836 original size:43 final size:43
Alignment explanation
Indices: 15856771--15856900 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 43
15856761 TAGGATCTCC
*
15856771 GATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATT
1 GATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATT
* * *
15856814 GACT-TGTGTTTACGTGTAAGACC-CTGTATGGGACAG-TGACATC
1 GA-TATGTGTTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATT
* * *
15856857 GATATGTGATTACATGTAAGACCACGTCTTGGACGTTGGCATT
1 GATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATT
15856900 G
1 G
15856901 TACGAGCTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
42 3 0.04
43 65 0.92
44 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
GATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATT
Found at i:15862131 original size:31 final size:31
Alignment explanation
Indices: 15862096--15862783 Score: 355
Period size: 31 Copynumber: 22.4 Consensus size: 31
15862086 ATATATATTG
* *
15862096 ATATACGAACCAAATTCAGCAATGTATATCT
1 ATATACGAATCAAATTCAGCAATGTATATCC
* * * *
15862127 ATATACAAATC-AATTCGGCAACGTATAACC
1 ATATACGAATCAAATTCAGCAATGTATATCC
* * *
15862157 ATATACGAAACAAGTTCGGCAATGTATAAT-C
1 ATATACGAATCAAATTCAGCAATGTAT-ATCC
** * * *
15862188 ATATAAAAATTAAATTCAGTAATGTATAACC
1 ATATACGAATCAAATTCAGCAATGTATATCC
*
15862219 ATATACGAATC-AATTCGGCAACT-TATATCC
1 ATATACGAATCAAATTCAGCAA-TGTATATCC
* * *
15862249 ATATAC-AATTCAATTTCAACAATGTATAACC
1 ATATACGAA-TCAAATTCAGCAATGTATATCC
* * * * *
15862280 A-AGTACAAATTAATTTTAGCAATATATAAT-C
1 ATA-TACGAATCAAATTCAGCAATGTAT-ATCC
* * **
15862311 ATATACAAATC-AATTCGGCAACCTATATCC
1 ATATACGAATCAAATTCAGCAATGTATATCC
* * *
15862341 ATATAC-AATTCAATTTCAACAATGTATAACC
1 ATATACGAA-TCAAATTCAGCAATGTATATCC
* * * * * *
15862372 ATATACAAATTAATTTCAGAAATGTACAACC
1 ATATACGAATCAAATTCAGCAATGTATATCC
*
15862403 ATATACGAATC-AATTCGGCAACT-TATATCC
1 ATATACGAATCAAATTCAGCAA-TGTATATCC
* *
15862433 ATATAC-AATTCAATTTCAGCAATGTATAACC
1 ATATACGAA-TCAAATTCAGCAATGTATATCC
* * ** * *
15862464 ATATACAAATTAGTTTCAGCAATGTACAAT-T
1 ATATACGAATCAAATTCAGCAATGTA-TATCC
* * *
15862495 ATATACAAATC-AATTCGGC-ATCTTATATCC
1 ATATACGAATCAAATTCAGCAAT-GTATATCC
* * *
15862525 ATATAC-AATTCAATTTCAACAATGTATAACC
1 ATATACGAA-TCAAATTCAGCAATGTATATCC
* * * *
15862556 ATGTACAAATTAATTTCAGCAATGTATAAT-C
1 ATATACGAATCAAATTCAGCAATGTAT-ATCC
* *
15862587 ATATACAAATC-AATTCGGCAACT-TATATCC
1 ATATACGAATCAAATTCAGCAA-TGTATATCC
* * *
15862617 ATATAC-AATTCAATTTCAACAATGTATAACC
1 ATATACGAA-TCAAATTCAGCAATGTATATCC
* * * *
15862648 ATGTACAAATTAATTTCAGCAATGTATAAT-C
1 ATATACGAATCAAATTCAGCAATGTAT-ATCC
* * *
15862679 AGATACAAATC-AATTCGGCAACT-TATATCC
1 ATATACGAATCAAATTCAGCAA-TGTATATCC
* * *
15862709 ATATAC-AATTCAATTTCAACAATGTATAACC
1 ATATACGAA-TCAAATTCAGCAATGTATATCC
* * * * *
15862740 ATATACAAATTAATTTCAGTAATGTACAAT-C
1 ATATACGAATCAAATTCAGCAATGTA-TATCC
*
15862771 ATATACAAATCAA
1 ATATACGAATCAA
15862784 TTCGACAACT
Statistics
Matches: 506, Mismatches: 109, Indels: 84
0.72 0.16 0.12
Matches are distributed among these distances:
29 22 0.04
30 145 0.29
31 318 0.63
32 21 0.04
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.31
Consensus pattern (31 bp):
ATATACGAATCAAATTCAGCAATGTATATCC
Found at i:15862253 original size:92 final size:92
Alignment explanation
Indices: 15862110--15862839 Score: 1079
Period size: 92 Copynumber: 7.9 Consensus size: 92
15862100 ACGAACCAAA
* * * *
15862110 TTCAGCAATGTAT-ATCTATATACAAATCAATTCGGCAACGTATAACCATATACGAA-ACAAGTT
1 TTCAGCAATGTATAATC-ATATACAAATCAATTCGGCAACTTATATCCATATAC-AATTCAATTT
** * * *
15862173 CGGCAATGTATAATCATATAAAAATTAAA
64 CAACAATGTATAACCATATACAAATTAAT
* * *
15862202 TTCAGTAATGTATAACCATATACGAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
1 TTCAGCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
15862267 ACAATGTATAACCA-AGTACAAATTAAT
66 ACAATGTATAACCATA-TACAAATTAAT
* * *
15862294 TTTAGCAATATATAATCATATACAAATCAATTCGGCAACCTATATCCATATACAATTCAATTTCA
1 TTCAGCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
15862359 ACAATGTATAACCATATACAAATTAAT
66 ACAATGTATAACCATATACAAATTAAT
* * * *
15862386 TTCAGAAATGTACAACCATATACGAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
1 TTCAGCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
* *
15862451 GCAATGTATAACCATATACAAATTAGT
66 ACAATGTATAACCATATACAAATTAAT
* * *
15862478 TTCAGCAATGTACAATTATATACAAATCAATTCGGCATCTTATATCCATATACAATTCAATTTCA
1 TTCAGCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
*
15862543 ACAATGTATAACCATGTACAAATTAAT
66 ACAATGTATAACCATATACAAATTAAT
15862570 TTCAGCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
1 TTCAGCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
*
15862635 ACAATGTATAACCATGTACAAATTAAT
66 ACAATGTATAACCATATACAAATTAAT
*
15862662 TTCAGCAATGTATAATCAGATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
1 TTCAGCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
15862727 ACAATGTATAACCATATACAAATTAAT
66 ACAATGTATAACCATATACAAATTAAT
* * * * * * *
15862754 TTCAGTAATGTACAATCATATACAAATCAATTCGACAACTCATATCCATATGCAAATCAATTTCG
1 TTCAGCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
* * *
15862819 ATAATGTATAACTATAAACAA
66 ACAATGTATAACCATATACAA
15862840 TTCGAATTTG
Statistics
Matches: 583, Mismatches: 51, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
91 3 0.01
92 577 0.99
93 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.31
Consensus pattern (92 bp):
TTCAGCAATGTATAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
ACAATGTATAACCATATACAAATTAAT
Found at i:15862863 original size:26 final size:25
Alignment explanation
Indices: 15862834--15862884 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
15862824 GTATAACTAT
* *
15862834 AAACAATTCGAATTTGGCAATATATA
1 AAACAA-TCAAATTTGGAAATATATA
*
15862860 AAACAATCAAATTTGGAAATGTATA
1 AAACAATCAAATTTGGAAATATATA
15862885 TCTATAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (25 bp):
AAACAATCAAATTTGGAAATATATA
Found at i:15865201 original size:23 final size:22
Alignment explanation
Indices: 15865130--15865238 Score: 116
Period size: 23 Copynumber: 5.0 Consensus size: 22
15865120 CCTGATCAGT
15865130 ATACGACACAT-AAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
****
15865151 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATAAAGTGCCTGA
15865171 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
*
15865193 GATACGACACATAAAGTGCTTGA
1 -ATACGACACATAAAGTGCCTGA
* *
15865216 TGTATGACACATAAAGTGCCTGA
1 -ATACGACACATAAAGTGCCTGA
15865239 TCGACAAAGC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
20 10 0.14
21 21 0.29
22 1 0.01
23 40 0.56
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:15865500 original size:36 final size:37
Alignment explanation
Indices: 15865446--15865522 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
15865436 AAATTCATAT
* *
15865446 TTCAATTCAATTTCACTTTTTCACTTTCAA-TCACAA
1 TTCAATTCAATTTCACTTTTCCACTTTCAAGTCAAAA
*
15865482 TTCAATTCAAATTT-ACTTTTCCATTTTCAAGTCAAAA
1 TTCAATTC-AATTTCACTTTTCCACTTTCAAGTCAAAA
15865519 TTCA
1 TTCA
15865523 TTTTAATTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 22 0.61
37 14 0.39
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.44
Consensus pattern (37 bp):
TTCAATTCAATTTCACTTTTCCACTTTCAAGTCAAAA
Found at i:15867107 original size:13 final size:13
Alignment explanation
Indices: 15867082--15867120 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
15867072 TATTATTTTT
15867082 TAATTTT-AAATA
1 TAATTTTAAAATA
15867094 TAATTTTAAAATA
1 TAATTTTAAAATA
15867107 TACA-TTTAAAATA
1 TA-ATTTTAAAATA
15867120 T
1 T
15867121 TATAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 17 0.68
14 1 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTTTAAAATA
Found at i:15867148 original size:85 final size:86
Alignment explanation
Indices: 15867050--15867225 Score: 336
Period size: 86 Copynumber: 2.1 Consensus size: 86
15867040 GGAGCCACTC
15867050 TAAATGGCACCACCAAATAAAATATTA-TTTTTTAATTTTAAATATAATTTTAAAATATACATTT
1 TAAATGGCACCACCAAATAAAATATTATTTTTTTAATTTTAAATATAATTTTAAAATATACATTT
15867114 AAAATATTATAAAACAAATAA
66 AAAATATTATAAAACAAATAA
*
15867135 TAAATGGCTCCACCAAATAAAATATTATTTTTTTAATTTTAAATATAATTTTAAAATATACATTT
1 TAAATGGCACCACCAAATAAAATATTATTTTTTTAATTTTAAATATAATTTTAAAATATACATTT
15867200 AAAATATTATAAAACAAATAA
66 AAAATATTATAAAACAAATAA
15867221 TAAAT
1 TAAAT
15867226 TTGAAAGGTC
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
85 26 0.29
86 63 0.71
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (86 bp):
TAAATGGCACCACCAAATAAAATATTATTTTTTTAATTTTAAATATAATTTTAAAATATACATTT
AAAATATTATAAAACAAATAA
Found at i:15867193 original size:13 final size:13
Alignment explanation
Indices: 15867168--15867206 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
15867158 ATTATTTTTT
15867168 TAATTTT-AAATA
1 TAATTTTAAAATA
15867180 TAATTTTAAAATA
1 TAATTTTAAAATA
15867193 TACA-TTTAAAATA
1 TA-ATTTTAAAATA
15867206 T
1 T
15867207 TATAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 17 0.68
14 1 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTTTAAAATA
Found at i:15867290 original size:13 final size:12
Alignment explanation
Indices: 15867272--15867304 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
15867262 ATGTTTTATA
15867272 ATATTAAAAAATT
1 ATATTAAAAAA-T
15867285 ATATTAAAAAAT
1 ATATTAAAAAAT
15867297 AT-TTAAAA
1 ATATTAAAA
15867305 CATACATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.30
12 3 0.15
13 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATATTAAAAAAT
Found at i:15867331 original size:13 final size:13
Alignment explanation
Indices: 15867297--15867333 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15867287 ATTAAAAAAT
* *
15867297 ATTTAAAACATAC
1 ATTTAAAATATAA
15867310 ATTTAAAATATAA
1 ATTTAAAATATAA
15867323 ATTTAAAATAT
1 ATTTAAAATAT
15867334 TATAAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTAAAATATAA
Found at i:15867359 original size:36 final size:35
Alignment explanation
Indices: 15867292--15867360 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
15867282 ATTATATTAA
* * *
15867292 AAAATATTTAAAACATACATTTAAAATATAAATTT
1 AAAATATTTAAAACATACAATAAAAAAATAAATTT
15867327 AAAATATTATAAAAC-TAACAATAAAAAAATAAAT
1 AAAATATT-TAAAACAT-ACAATAAAAAAATAAAT
15867361 AAAACAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 9 0.31
36 20 0.69
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (35 bp):
AAAATATTTAAAACATACAATAAAAAAATAAATTT
Done.