Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002237.1 Hibiscus syriacus cultivar Beakdansim tig00004549_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 146762
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:314 original size:23 final size:22
Alignment explanation
Indices: 279--342 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 22
269 CATTATTATA
279 TGGCACTACGGTGCAATTCTACG
1 TGGCACTA-GGTGCAATTCTACG
*
302 TGGCACTCAGGTGCAATTCTATG
1 TGGCACT-AGGTGCAATTCTACG
325 TGGCACTTAGGTGCAATT
1 TGGCAC-TAGGTGCAATT
343 ATATGAGCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
23 36 0.95
24 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (22 bp):
TGGCACTAGGTGCAATTCTACG
Found at i:347 original size:23 final size:23
Alignment explanation
Indices: 270--347 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
260 CCTTATGGAC
*
270 ATTATTATATGGCAC-TACGGTGCA
1 ATTA-TATGTGGCACTTA-GGTGCA
* * *
294 ATTCTACGTGGCACTCAGGTGCA
1 ATTATATGTGGCACTTAGGTGCA
*
317 ATTCTATGTGGCACTTAGGTGCA
1 ATTATATGTGGCACTTAGGTGCA
340 ATTATATG
1 ATTATATG
348 AGCTGTGGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
23 42 0.91
24 4 0.09
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTTAGGTGCA
Found at i:4948 original size:125 final size:128
Alignment explanation
Indices: 4800--5045 Score: 288
Period size: 131 Copynumber: 1.9 Consensus size: 128
4790 AAAAGTCAAT
** * *
4800 CGGTATAATGTTAATAGGTGTAAACAT-CAAGTATTGATA-CACA-TGT-ATAAAGTATCGA-TA
1 CGGTATAATGAAAATAGGCGTAAACATACAAGTA-TCATATCACATTGTCAT-AAGTATCGATTA
* * *
4860 GAATTTCGAAACCTATTACTTT-AAGTAATAGGTAAATTAGCAATGTACACGGTAAACTTTTCTA
64 GAA-TTCGAAACATATTACTTTAAAGTAATAGGTAAATTAACAATGTACACAGTAAACTTTTCTA
4924 C
128 C
** * *
4925 CGGTATAATGAAAATAGGCGTAAATGTACAAGTATCATATTATATTGTCATAAGTATCGATTCTT
1 CGGTATAATGAAAATAGGCGTAAACATACAAGTATCATATCACATTGTCATAAGTATCGA---TT
*
4990 ATAATTCGAAACATATTACTTTAAAGTAATAGGTAAATTAACAATGTACACAGTAA
63 AGAATTCGAAACATATTACTTTAAAGTAATAGGTAAATTAACAATGTACACAGTAA
5046 TATGTTGATA
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
125 26 0.26
126 8 0.08
127 12 0.12
128 2 0.02
130 17 0.17
131 35 0.35
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (128 bp):
CGGTATAATGAAAATAGGCGTAAACATACAAGTATCATATCACATTGTCATAAGTATCGATTAGA
ATTCGAAACATATTACTTTAAAGTAATAGGTAAATTAACAATGTACACAGTAAACTTTTCTAC
Found at i:12487 original size:18 final size:18
Alignment explanation
Indices: 12447--12493 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
12437 CTACGATCAT
*
12447 TATAAATTTATTTATAAA
1 TATATATTTATTTATAAA
* *
12465 TATATTTTTATTTA-AAC
1 TATATATTTATTTATAAA
12482 TGATATATTTAT
1 T-ATATATTTAT
12494 ATAGTATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TATATATTTATTTATAAA
Found at i:14034 original size:50 final size:51
Alignment explanation
Indices: 13912--14037 Score: 120
Period size: 50 Copynumber: 2.5 Consensus size: 51
13902 GTAGCAGTAA
* * *
13912 AGCGCGCCCCCTGAC-CCGCGCTATATGCTGATTTGGCGCTACGTGGGGTAT
1 AGCGCGCCCCCTG-CTCCGCGCTATACGCTGATCTGGCGCTACGTGGGCTAT
* * *
13963 AGTGCG-CCCCTGCAT-CACGCTATACGCTGA-CTGG-GTTACACGT-GGCTAT
1 AGCGCGCCCCCTGC-TCCGCGCTATACGCTGATCTGGCGCT--ACGTGGGCTAT
14012 AGCGCGCCCCCTGCTCCGCGCTATAC
1 AGCGCGCCCCCTGCTCCGCGCTATAC
14038 CTATTTATCT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
48 2 0.03
49 15 0.25
50 39 0.64
51 5 0.08
ACGTcount: A:0.15, C:0.35, G:0.28, T:0.22
Consensus pattern (51 bp):
AGCGCGCCCCCTGCTCCGCGCTATACGCTGATCTGGCGCTACGTGGGCTAT
Found at i:14240 original size:22 final size:21
Alignment explanation
Indices: 14207--14249 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
14197 TTATAATATT
14207 TTTAATATTTTA-TTTAATTTA
1 TTTAATATTTTACTTT-ATTTA
14228 TTTAAGTATTTTACTTTATTTA
1 TTTAA-TATTTTACTTTATTTA
14250 ATATTTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 12 0.60
23 3 0.15
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTAATATTTTACTTTATTTA
Found at i:14245 original size:18 final size:17
Alignment explanation
Indices: 14219--14255 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
14209 TAATATTTTA
14219 TTTAATTTATTTAAGTAT
1 TTTAATTTATTTAA-TAT
*
14237 TTTACTTTATTTAATAT
1 TTTAATTTATTTAATAT
14254 TT
1 TT
14256 ACTAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTAATTTATTTAATAT
Found at i:16528 original size:26 final size:24
Alignment explanation
Indices: 16457--16529 Score: 64
Period size: 26 Copynumber: 3.0 Consensus size: 24
16447 TTATATTTGT
16457 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
16482 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
16504 ATACTTACTTTATTTTGTTAAATTTA
1 AT--TTACTTTATTTTGTTAAATTTA
16530 TTGGACTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 15
0.69 0.04 0.27
Matches are distributed among these distances:
22 4 0.11
23 10 0.26
24 5 0.13
25 7 0.18
26 12 0.32
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:20457 original size:22 final size:22
Alignment explanation
Indices: 20415--20457 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20405 TTTACTTTAT
*
20415 TATATTTTAGTCATTTTAATTC
1 TATATTTTAATCATTTTAATTC
20437 TATATTTTAAT-ATTTTGAATT
1 TATATTTTAATCATTTT-AATT
20458 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (22 bp):
TATATTTTAATCATTTTAATTC
Found at i:24064 original size:2 final size:2
Alignment explanation
Indices: 24059--24091 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
24049 GTACACACAC
*
24059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24092 AATAGTAATT
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:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24822 original size:2 final size:2
Alignment explanation
Indices: 24815--24842 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24805 GAAAATTTAA
24815 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
24843 CAAGAGCAGG
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:27622 original size:22 final size:21
Alignment explanation
Indices: 27595--27640 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27585 AGAGTGTTTA
*
27595 ATATATACTAAGTTTTTAGGGT
1 ATATATACTAAG-TTTTAGGAT
* *
27617 ATATATATTGAGTTTTAGGAT
1 ATATATACTAAGTTTTAGGAT
27638 ATA
1 ATA
27641 AAAAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (21 bp):
ATATATACTAAGTTTTAGGAT
Found at i:38440 original size:23 final size:23
Alignment explanation
Indices: 38414--38461 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
38404 ATAAAGTACA
*
38414 ATAACATACTAGGTAGCCCTTAT
1 ATAACATAATAGGTAGCCCTTAT
** *
38437 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCCCTTAT
38460 AT
1 AT
38462 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCCCTTAT
Found at i:38913 original size:23 final size:23
Alignment explanation
Indices: 38887--38949 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
38877 ATATAACAAC
38887 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
38910 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
38933 TACCTATTACATCATAT
1 TACCTATTACATTATAT
38950 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:39118 original size:430 final size:429
Alignment explanation
Indices: 38528--39582 Score: 1968
Period size: 430 Copynumber: 2.5 Consensus size: 429
38518 TATTACATTA
38528 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
38593 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
38658 TTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
131 TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
*
38723 TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCT
196 TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATAT
38788 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
261 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
38853 TATAAAAAGGATAGACACTTTACAATATAACAACTACCTATTACATTATATAAACGATACCTATT
326 TATAAAAAGGATAGACACTTTACAATATAACAACTACCTATTACATTATATAAACGATACCTATT
*
38918 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 ACATTATATAAGCGCTACCTATTACATCATATGTTTACC
38957 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
39022 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
39087 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
130 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
39152 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATA
195 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATA
39217 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
260 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
* *
39282 TTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
325 TTATAAAAAGGATAGACACTTTACAATATAACAACTACCTATTACATTATATAAACGATACCTAT
39347 TACATTATATAAGCGCTACCTATTACATCATATGTTTACC
390 TACATTATATAAGCGCTACCTATTACATCATATGTTTACC
*
39387 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAA
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTT-AAAGTTATGTAA
* *
39452 TTTATGTTTCAATTTTTTTAACAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTC
65 TTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
* * * *
39517 ATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTATAA-TTTAAATTT
130 ATTTGCACAAAAAATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
39581 AA
194 AA
39583 CAACATTAAC
Statistics
Matches: 611, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
429 76 0.12
430 483 0.79
431 52 0.09
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.42
Consensus pattern (429 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
TAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATAT
TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
TATAAAAAGGATAGACACTTTACAATATAACAACTACCTATTACATTATATAAACGATACCTATT
ACATTATATAAGCGCTACCTATTACATCATATGTTTACC
Found at i:39135 original size:30 final size:29
Alignment explanation
Indices: 39095--39161 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
39085 TCATTTGCAC
* * *
39095 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
39125 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
39154 AATAATAT
1 AA-AATAT
39162 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:39343 original size:23 final size:23
Alignment explanation
Indices: 39317--39379 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
39307 ATATAACCAC
39317 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
39340 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
39363 TACCTATTACATCATAT
1 TACCTATTACATTATAT
39380 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:39841 original size:34 final size:34
Alignment explanation
Indices: 39801--39866 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
39791 AAGTTGTAGA
* *
39801 TTTTGATTTCCTTTTGCTTGGCATCATATGAGAT
1 TTTTGATTTCCTTTTGCTTGGCACCAAATGAGAT
39835 TTTTGATTTCCTTTTGCTTGGCACCAAATGAG
1 TTTTGATTTCCTTTTGCTTGGCACCAAATGAG
39867 CTTTGGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.18, C:0.17, G:0.18, T:0.47
Consensus pattern (34 bp):
TTTTGATTTCCTTTTGCTTGGCACCAAATGAGAT
Found at i:40163 original size:18 final size:18
Alignment explanation
Indices: 40140--40176 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
40130 CGAAATATAT
40140 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
40158 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
40176 A
1 A
40177 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:40624 original size:21 final size:22
Alignment explanation
Indices: 40599--40650 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
40589 ATACTTTACA
*
40599 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
40622 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
40645 ATATAA
1 ATATAA
40651 GCGCAACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:40635 original size:23 final size:24
Alignment explanation
Indices: 40609--40671 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 24
40599 ATATAACCAC
40609 TACCTATTACATTATATAAACG-A
1 TACCTATTACATTATATAAACGCA
*
40632 TACCTATTACATTATATAAGCGCA
1 TACCTATTACATTATATAAACGCA
*
40656 -ACCTATTACATCATAT
1 TACCTATTACATTATAT
40672 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (24 bp):
TACCTATTACATTATATAAACGCA
Found at i:41072 original size:25 final size:25
Alignment explanation
Indices: 41015--41080 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
41005 CACTCAAAAG
*
41015 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
41040 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
41065 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
41081 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:44021 original size:183 final size:182
Alignment explanation
Indices: 43544--44032 Score: 854
Period size: 182 Copynumber: 2.7 Consensus size: 182
43534 TTAAAATTAC
*
43544 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
43609 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
43674 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
130 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
* *
43727 CGATACTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATA
1 CGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
*
43792 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGATATATTTATACCGGTTA
66 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
*
43857 TATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 TATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
43909 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTT-A-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* *
43973 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATA
64 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA
44033 ATATGTTGAA
Statistics
Matches: 291, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
182 179 0.62
183 109 0.37
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (182 bp):
CGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
TATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
Found at i:48441 original size:13 final size:13
Alignment explanation
Indices: 48425--48450 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48415 GCAATAAGTA
48425 ATATAATGATGAG
1 ATATAATGATGAG
48438 ATATAATGATGAG
1 ATATAATGATGAG
48451 TGAGTATCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
ATATAATGATGAG
Found at i:61551 original size:61 final size:61
Alignment explanation
Indices: 61481--61598 Score: 168
Period size: 61 Copynumber: 1.9 Consensus size: 61
61471 GGAATGTTCA
* *
61481 AAAAGTTTGAG-GACTAATTTAAAATGAATA-TTATAGTTTAGGGATGAAATTAAAATAAATC
1 AAAACTTTGAGAG-CTAATTTAAAAT-AATAGTCATAGTTTAGGGATGAAATTAAAATAAATC
* *
61542 AAAACTTTGAGAGCTAATTTAGAATTATAGTCATAGTTTAGGGATGAAATTAAAATA
1 AAAACTTTGAGAGCTAATTTAAAATAATAGTCATAGTTTAGGGATGAAATTAAAATA
61599 TTCAAAAGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 3 0.06
61 47 0.92
62 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (61 bp):
AAAACTTTGAGAGCTAATTTAAAATAATAGTCATAGTTTAGGGATGAAATTAAAATAAATC
Found at i:62040 original size:23 final size:23
Alignment explanation
Indices: 61998--62042 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
61988 ATCATGTTTA
61998 TAAAATTTTATTTTTAAAAAACT
1 TAAAATTTTATTTTTAAAAAACT
62021 TAAAATTATT-TTATTTAAAAAA
1 TAAAATT-TTATT-TTTAAAAAA
62043 ACTCCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAAATTTTATTTTTAAAAAACT
Found at i:65185 original size:2 final size:2
Alignment explanation
Indices: 65180--65228 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
65170 ATGGTGTGTG
65180 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65222 TA TA TA T
1 TA TA TA T
65229 GATACCAGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65322 original size:24 final size:25
Alignment explanation
Indices: 65293--65340 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
65283 ATGTTTTATT
65293 TTAAAAATAAGTAAAAT-TTAAAAA
1 TTAAAAATAAGTAAAATATTAAAAA
* *
65317 TTAAAAATAATTTAAATATTAAAA
1 TTAAAAATAAGTAAAATATTAAAA
65341 TCGTGTACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
TTAAAAATAAGTAAAATATTAAAAA
Found at i:66315 original size:2 final size:2
Alignment explanation
Indices: 66303--66331 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
66293 AATAATCCAT
66303 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66332 AAAAACTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:67481 original size:17 final size:17
Alignment explanation
Indices: 67459--67492 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
67449 TTGTTATTCC
67459 TAGAGTTCCTAAGTTCA
1 TAGAGTTCCTAAGTTCA
67476 TAGAGTTCCTAAGTTCA
1 TAGAGTTCCTAAGTTCA
67493 ATCACATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (17 bp):
TAGAGTTCCTAAGTTCA
Found at i:67490 original size:8 final size:9
Alignment explanation
Indices: 67455--67491 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
67445 CAAATTGTTA
67455 TTCCTAGAG
1 TTCCTAGAG
67464 TTCCTA-AG
1 TTCCTAGAG
*
67472 TTCATAGAG
1 TTCCTAGAG
67481 TTCCTA-AG
1 TTCCTAGAG
67489 TTC
1 TTC
67492 AATCACATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 12 0.48
9 13 0.52
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (9 bp):
TTCCTAGAG
Found at i:83237 original size:34 final size:35
Alignment explanation
Indices: 83173--83244 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
83163 CTAGTAATTT
83173 AAGTTTTGTTTTATGATATCAAAAAAACAATATTA
1 AAGTTTTGTTTTATGATATCAAAAAAACAATATTA
83208 AAGTTTTGTTTTATGATATC-AAAAAACAATATTA
1 AAGTTTTGTTTTATGATATCAAAAAAACAATATTA
83242 AAG
1 AAG
83245 CTTTCCCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 17 0.46
35 20 0.54
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.39
Consensus pattern (35 bp):
AAGTTTTGTTTTATGATATCAAAAAAACAATATTA
Found at i:90604 original size:11 final size:10
Alignment explanation
Indices: 90590--90644 Score: 69
Period size: 10 Copynumber: 5.6 Consensus size: 10
90580 CATTTTTTTA
90590 AAAAATCAAT
1 AAAAATCAAT
90600 AAAAATGCAAT
1 AAAAAT-CAAT
90611 AAAAAT-AA-
1 AAAAATCAAT
*
90619 AAAAATGAAT
1 AAAAATCAAT
*
90629 AAAATTCAAT
1 AAAAATCAAT
90639 AAAAAT
1 AAAAAT
90645 ATAATGTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
8 6 0.15
9 4 0.10
10 19 0.49
11 10 0.26
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (10 bp):
AAAAATCAAT
Found at i:90622 original size:28 final size:27
Alignment explanation
Indices: 90588--90645 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
90578 TTCATTTTTT
90588 TAAAAAATCAATAAAAATGCAATAAAAA
1 TAAAAAATCAAT-AAAATGCAATAAAAA
* *
90616 TAAAAAAATGAATAAAATTCAATAAAAA
1 T-AAAAAATCAATAAAATGCAATAAAAA
90644 TA
1 TA
90646 TAATGTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 1 0.04
28 16 0.59
29 10 0.37
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (27 bp):
TAAAAAATCAATAAAATGCAATAAAAA
Found at i:90629 original size:18 final size:21
Alignment explanation
Indices: 90590--90644 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
90580 CATTTTTTTA
90590 AAAAATCAATAAAAATGCAAT
1 AAAAATCAATAAAAATGCAAT
90611 AAAAAT-AA-AAAAATG-AAT
1 AAAAATCAATAAAAATGCAAT
*
90629 AAAATTCAATAAAAAT
1 AAAAATCAATAAAAAT
90645 ATAATGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 8 0.26
19 9 0.29
20 8 0.26
21 6 0.19
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAAATCAATAAAAATGCAAT
Found at i:90793 original size:14 final size:14
Alignment explanation
Indices: 90771--90800 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90761 TTAATTGTTG
90771 TTAAAAAATAATAA
1 TTAAAAAATAATAA
*
90785 TTAATAAATAATAA
1 TTAAAAAATAATAA
90799 TT
1 TT
90801 CATTTGATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAAAAATAATAA
Found at i:102485 original size:13 final size:14
Alignment explanation
Indices: 102469--102499 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
102459 AGGTTTAATT
102469 TATTATTTT-AAAA
1 TATTATTTTAAAAA
102482 TATTATTTTAAAAA
1 TATTATTTTAAAAA
102496 TATT
1 TATT
102500 TGAAAGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATTTTAAAAA
Found at i:102769 original size:23 final size:23
Alignment explanation
Indices: 102707--102770 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
102697 GAATAAAAAT
* *
102707 AAATAAATAATTATA-TATTTATA
1 AAATTAAT-ATTATATTATTTAAA
* *
102730 AAATTAATAGTAGATTATTTAAA
1 AAATTAATATTATATTATTTAAA
102753 AAATTAA-ATTTATATTAT
1 AAATTAATA-TTATATTAT
102771 CTATTCATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 5 0.15
23 28 0.85
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (23 bp):
AAATTAATATTATATTATTTAAA
Found at i:103859 original size:26 final size:24
Alignment explanation
Indices: 103797--103859 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
103787 CGATTTAATC
103797 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
* *
103821 AAAATATAT-TTATTAACATTTCTT
1 AAAATATATATTATTAAAATAT-TT
*
103845 ATAATATAATATTAT
1 AAAATAT-ATATTAT
103860 ATTTTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 10 0.31
24 15 0.47
25 3 0.09
26 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:103896 original size:23 final size:23
Alignment explanation
Indices: 103867--103917 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
103857 TATATTTTTA
103867 ATATTATAATAAAATAATCA-ATT
1 ATATTATAATAAAATAAT-ATATT
*
103890 ATATTATAATAATATAATATATT
1 ATATTATAATAAAATAATATATT
103913 ATATT
1 ATATT
103918 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTATAATAAAATAATATATT
Found at i:103908 original size:26 final size:26
Alignment explanation
Indices: 103845--103945 Score: 69
Period size: 26 Copynumber: 3.8 Consensus size: 26
103835 AACATTTCTT
* * * * *
103845 ATAATATAATATTATATTTTTAATATT
1 ATAATATAATAATA-AATTATATTATA
* *
103872 ATAATAAAATAATCAATTATATTATA
1 ATAATATAATAATAAATTATATTATA
* * *
103898 ATAATATAATATATTATATTTTTATTTTA
1 ATAATATAATA-A-TA-AATTATATTATA
103927 ATAATAT-ATAATAAATTAT
1 ATAATATAATAATAAATTAT
103946 TAATAAAATT
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
25 4 0.07
26 20 0.35
27 13 0.23
28 4 0.07
29 16 0.28
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (26 bp):
ATAATATAATAATAAATTATATTATA
Found at i:104018 original size:19 final size:19
Alignment explanation
Indices: 103994--104062 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
103984 ATATTATTAA
103994 ATTATTAATAATGAATAAT
1 ATTATTAATAATGAATAAT
* *
104013 ATTATTTAT-AT-ATTTAAT
1 ATTATTAATAATGA-ATAAT
*
104031 ATTAATATAATAATCGAATAAA
1 ATT-AT-TAATAAT-GAATAAT
104053 ATT-TTAATAA
1 ATTATTAATAA
104063 AGATATTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
17 1 0.03
18 9 0.23
19 16 0.41
20 4 0.10
21 2 0.05
22 6 0.15
23 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTATTAATAATGAATAAT
Found at i:104037 original size:27 final size:27
Alignment explanation
Indices: 103957--104042 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
103947 AATAAAATTT
* *
103957 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
103984 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
104011 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
104040 ATA
1 ATA
104043 ATCGAATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:108967 original size:2 final size:2
Alignment explanation
Indices: 108952--109026 Score: 134
Period size: 2 Copynumber: 37.5 Consensus size: 2
108942 AAGTCAAACA
108952 AT AT AT -T AT CAT 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
108994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109027 GGGATGGATC
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.01
2 68 0.96
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:110886 original size:3 final size:3
Alignment explanation
Indices: 110856--110911 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
110846 AAAAAATTAA
* * *
110856 AAT AA- AAT AAGT AAT AA- AAT ATT AAT AAT AAT AGT GAT AAAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
110901 AAT AAT AAT AA
1 AAT AAT AAT AA
110912 ATATAAAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.09
3 34 0.79
4 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:110900 original size:16 final size:16
Alignment explanation
Indices: 110856--110914 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
110846 AAAAAATTAA
*
110856 AATAA-AATAAGTAAT
1 AATAATAATAAATAAT
*
110871 AA-AAT-ATTAATAAT
1 AATAATAATAAATAAT
* *
110885 AATAGTGATAAATAAT
1 AATAATAATAAATAAT
110901 AATAATAATAAATA
1 AATAATAATAAATA
110915 TAAAAACTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 11 0.31
15 4 0.11
16 20 0.57
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:110917 original size:22 final size:21
Alignment explanation
Indices: 110856--110918 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
110846 AAAAAATTAA
110856 AATAA-AATAAGTAATA-AAAT
1 AATAATAATAA-TAATATAAAT
* *
110876 ATTAATAATAATAGTGATAAAT
1 AATAATAATAATAAT-ATAAAT
110898 AATAATAATAATAAATATAAA
1 AATAATAATAAT-AATATAAA
110919 AACTATATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 7 0.20
21 6 0.17
22 20 0.57
23 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AATAATAATAATAATATAAAT
Found at i:111018 original size:33 final size:33
Alignment explanation
Indices: 110950--111050 Score: 123
Period size: 33 Copynumber: 3.0 Consensus size: 33
110940 AAACCGTTTC
* * *
110950 TTTTAAAAATTATATATAAATTTCCAAAACT-TTT
1 TTTTAAAAA-AATATAT-AATTTTCAAAAATATTT
110984 TTTTAAAAAAATATATAATTTTCAAAAATATTT
1 TTTTAAAAAAATATATAATTTTCAAAAATATTT
* **
111017 TTTTTAAAAACCATATAATTTTCAAAAATATTT
1 TTTTAAAAAAATATATAATTTTCAAAAATATTT
111050 T
1 T
111051 AAAAATTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
32 11 0.18
33 40 0.67
34 9 0.15
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (33 bp):
TTTTAAAAAAATATATAATTTTCAAAAATATTT
Found at i:111098 original size:35 final size:36
Alignment explanation
Indices: 111029--111290 Score: 151
Period size: 34 Copynumber: 7.0 Consensus size: 36
111019 TTTAAAAACC
*
111029 ATATA-ATTTTCAAAAATATTTTAAAAATTATATAT
1 ATATATATTTTCAAAAATATTTTAAAAAATATATAT
*
111064 -TATATATTTTC-AAAATGTTTTTCAAAAAATTATATACT
1 ATATATATTTTCAAAAAT-ATTTT-AAAAAA-TATATA-T
* *
111102 ATATATTTATTTTC-AAAATGTTTAAAAAAAACTATATAATAT
1 ATATA--TATTTTCAAAAATATTT--TAAAAA--ATAT-ATAT
* * *
111144 ATATATATTTTCAAAAATGTTTTGAAAACTATATATT
1 ATATATATTTTCAAAAATATTTTAAAAAATATATA-T
* * * **
111181 ATATTTTTTTTGTAAAAACGTTTTAAACAAATTATATAAT
1 ATATATATTTT-CAAAAATATTTTAAA-AAA-TATAT-AT
* * *
111221 ATATAAATGTTTTC-AAAATGTTTTAAAAACTATATAT
1 ATAT--ATATTTTCAAAAATATTTTAAAAAATATATAT
* **
111258 -TATATATTTTC-AAAATGTTTTCGAAAATATATA
1 ATATATATTTTCAAAAATATTTTAAAAAATATATA
111291 AATAAATAAA
Statistics
Matches: 184, Mismatches: 22, Indels: 43
0.74 0.09 0.17
Matches are distributed among these distances:
34 35 0.19
35 10 0.05
36 11 0.06
37 21 0.11
38 18 0.10
39 12 0.07
40 32 0.17
41 27 0.15
42 14 0.08
43 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (36 bp):
ATATATATTTTCAAAAATATTTTAAAAAATATATAT
Found at i:111145 original size:40 final size:38
Alignment explanation
Indices: 111029--111277 Score: 194
Period size: 40 Copynumber: 6.6 Consensus size: 38
111019 TTTAAAAACC
* *
111029 ATATA-ATTTTCAAAAATATTTTAAAAA-T-TAT-ATAT
1 ATATATATTTTC-AAAATGTTTAAAAAACTATATAATAT
* *
111064 -TATATATTTTCAAAATGTTTTTCAAAAAATTATATACTAT
1 ATATATATTTTCAAAATG--TTT-AAAAAACTATATAATAT
*
111104 ATATTTATTTTCAAAATGTTTAAAAAAAACTATATAATAT
1 ATATATATTTTCAAAATGTTT--AAAAAACTATATAATAT
** *
111144 ATATATATTTTCAAAAATGTTTTGAAAACTATATATTAT
1 ATATATATTTTC-AAAATGTTTAAAAAACTATATAATAT
* * * * *
111183 AT-TTTTTTTGTAAAAACGTTTTAAACAAATTATATAATAT
1 ATATATATTT-TCAAAATG-TTTAAA-AAACTATATAATAT
* * *
111223 ATAAATGTTTTCAAAATGTTTTAAAAAC--TAT-ATAT
1 ATATATATTTTCAAAATGTTTAAAAAACTATATAATAT
111258 -TATATATTTTCAAAATGTTT
1 ATATATATTTTCAAAATGTTT
111278 TCGAAAATAT
Statistics
Matches: 172, Mismatches: 28, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
34 27 0.16
35 10 0.06
36 6 0.03
37 5 0.03
38 14 0.08
39 32 0.19
40 49 0.28
41 29 0.17
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (38 bp):
ATATATATTTTCAAAATGTTTAAAAAACTATATAATAT
Found at i:111217 original size:79 final size:77
Alignment explanation
Indices: 111058--111267 Score: 249
Period size: 79 Copynumber: 2.6 Consensus size: 77
111048 TTTAAAAATT
* * * * *
111058 ATATATTATATATTTTCAAAATGTTTTTCAAAAAATTATATACTATATATTTATTTTCAAAATGT
1 ATATA-TATATATTTTCAAAATG-TTTT--AAAAACTATATATTATAT-TTTTTTTTAAAAACGT
111123 TTAAAAAAAACTATATA
61 TTAAAAAAAACTATATA
* *
111140 ATATATATATATTTTCAAAAATGTTTTGAAAACTATATATTATATTTTTTTTGTAAAAACGTTTT
1 ATATATATATATTTTC-AAAATGTTTTAAAAACTATATATTATATTTTTTTT-TAAAAACGTTTA
* *
111205 AAACAAATTATATA
64 AAAAAAACTATATA
* * *
111219 ATATATAAATGTTTTCAAAATGTTTTAAAAACTATATATTATATATTTT
1 ATATATATATATTTTCAAAATGTTTTAAAAACTATATATTATATTTTTT
111268 CAAAATGTTT
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 37 0.33
79 50 0.44
81 15 0.13
82 11 0.10
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (77 bp):
ATATATATATATTTTCAAAATGTTTTAAAAACTATATATTATATTTTTTTTTAAAAACGTTTAAA
AAAAACTATATA
Found at i:112034 original size:84 final size:83
Alignment explanation
Indices: 111826--113026 Score: 1238
Period size: 84 Copynumber: 14.5 Consensus size: 83
111816 CGACAATTTT
* * * * * * ** * * *
111826 GTTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTATAAATGATGTGCCCTAGAGCTGATCGTAA
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTGAGCTGAGCGTAG
**
111891 TCGAACTCGGGGGTC--T-
65 TCGAACTCGAAGGTCTTTG
* * * *
111907 -TTGGCAGATAGCCCTTCTCGAGTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAG
111971 TCGAACTCGAAGGTCTTTG
65 TCGAACTCGAAGGTCTTTG
* * * **
111990 GTTGGCAGATAACCCTTATAGCCTTGAGTTATGCTATAAATGATGTGCCGTTGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAG
112055 TCGAACTCGAAGGTCTTTG
65 TCGAACTCGAAGGTCTTTG
* * * * * *
112074 GTTGGCAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGGTGTGTCGTTGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTGAGCTGAGCGTAG
* *
112139 TCGAACTCAAAGGTCTTTT
65 TCGAACTCGAAGGTCTTTG
* * * * *
112158 GTTGGCAGACAACCCTTGTAGAATTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAG
112223 TCGAACTCGAAGGTCTTTG
65 TCGAACTCGAAGGTCTTTG
* * *
112242 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTA
* * **
112307 ATCGAACTTGGGGGTC--T-
64 GTCGAACTCGAAGGTCTTTG
* * *
112324 -TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAG
112388 TCGAACTCGAAGGTCTTTG
65 TCGAACTCGAAGGTCTTTG
* * * *
112407 GTTGGCAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAG
* *
112472 TCGAACTCAAAGGTCTTTT
65 TCGAACTCGAAGGTCTTTG
* * * * *
112491 GTTGGCAGACAACCCTTGTAGAATTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAG
112556 TCGAACTCGAAGGTCTTTG
65 TCGAACTCGAAGGTCTTTG
* * *
112575 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTA
* * **
112640 ATCGAACTTGGGGGTC--T-
64 GTCGAACTCGAAGGTCTTTG
* * * *
112657 -TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAG
* *
112721 TTGAACTCAAAGGTCTTTG
65 TCGAACTCGAAGGTCTTTG
* * *
112740 GTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTA
* **
112805 ATCGAACTCGGGGGTCTTT-
64 GTCGAACTCGAAGGTCTTTG
* * *
112824 G-T--CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAG
* *
112886 TCAAACTCAAAGGTCTTTTG
65 TCGAACTCGAAGGTC-TTTG
** * * * * * *
112906 G-TCACAGATAACCTTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTA
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTA
* **
112970 ATCGAACTCGGGGGTC--T-
64 GTCGAACTCGAAGGTCTTTG
* * *
112987 -TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1 GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAAT
113027 AGTTTGTTTA
Statistics
Matches: 943, Mismatches: 144, Indels: 66
0.82 0.12 0.06
Matches are distributed among these distances:
79 2 0.00
80 136 0.14
81 162 0.17
82 6 0.01
83 8 0.01
84 525 0.56
85 104 0.11
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (83 bp):
GTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTG
Found at i:112405 original size:165 final size:165
Alignment explanation
Indices: 111831--113026 Score: 1429
Period size: 165 Copynumber: 7.2 Consensus size: 165
111821 ATTTTGTTGA
* * * ** * * * *
111831 CAGATAGCCCTTCTTGCCTTGAGCTATGCTATAAATGATGTGCCCTAGAGCTGATCGTAATCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
** * * * * *
111896 CTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGAGTTAAGCTATGCTGCAAATGATGTGCCGT
66 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCT
* * * **
111957 TG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
131 CGAAGCTGAGTGTAATCGAACTCGGGGGTC--T--TTGG
* * * * * * **
111995 CAGATAACCCTTATAGCCTTGAGTTATGCTATAAATGATGTGCCGTT-GAGCTGAGCGTAGTCGA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGA
* * * * * * *
112059 ACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGGTGTGTCG
65 ACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCC
* * * ***
112124 TTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGG
130 TCGAAGCTGAGTGTAATCGAACTCGGGGGTC---T-TTGG
* * * * * * * *
112163 CAGACAACCCTTGTAGAATTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
112228 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
66 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCT
*
112293 CGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGG
131 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
112328 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * * *
112393 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCGT
66 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCT
* * * ***
112458 TG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGG
131 CGAAGCTGAGTGTAATCGAACTCGGGGGTC---T-TTGG
* * * * * * * *
112496 CAGACAACCCTTGTAGAATTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
112561 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
66 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCT
*
112626 CGAAGCTGAGTGTAATCGAACTTGGGGGTCTTTGG
131 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
* *
112661 CAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTTGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
112726 CTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCT
66 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCT
*
112791 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGT
131 CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
*
112826 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* ** * * * *
112891 CTCAAAGGTCTTTTGG-TCACAGATAACCTTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCC
66 CTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCC
112955 TCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
130 TCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
112991 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
113027 AGTTTGTTTA
Statistics
Matches: 907, Mismatches: 111, Indels: 27
0.87 0.11 0.03
Matches are distributed among these distances:
164 85 0.09
165 461 0.51
166 8 0.01
167 3 0.00
168 305 0.34
169 45 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (165 bp):
CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCT
CGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
Found at i:112427 original size:333 final size:333
Alignment explanation
Indices: 111907--113026 Score: 1651
Period size: 333 Copynumber: 3.4 Consensus size: 333
111897 TCGGGGGTCT
* * * * * * *
111907 TTGGCAGATAGCCCTTCTCGAGTTAAGCTATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
** * * * * * * *
111971 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGCCTTGAGTTATGCTATAAATGATGT
66 TCGAACTCGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGT
112036 GCCGTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGCCTTG
127 GCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGCCTTG
* *
112100 AGTTATGCTGTAAATGGTGTGTCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCA
191 AGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCA
112165 GACAACCCTTGTAGAATTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACT
256 GACAACCCTTGTAGAATTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACT
112230 CGAAGGTCTTTGG
321 CGAAGGTCTTTGG
112243 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
* *
112308 TCGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
66 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCT
112373 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGCCTTGAGTTA
131 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGCCTTGAGTTA
112438 TGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAA
196 TGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAA
112503 CCCTTGTAGAATTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
261 CCCTTGTAGAATTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
112568 GTCTTTGG
326 GTCTTTGG
112576 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
*
112641 TCGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCT
66 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCT
* * * * * *
112706 TGGAGCTGAGCGTAGTTGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACTTAAGTTA
131 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGCCTTGAGTTA
* * * * * *** *
112771 TGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TTTG-T--CAGATA
196 TGCTGTAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACA
* * * * * * * * *
112832 GCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCAAA
260 ACCCTTGTAGAATTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
112897 GGTCTTTTGG
325 GGTC-TTTGG
** * * * * *
112907 -TCACAGATAACCTTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
*
112971 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
66 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAAT
113027 AGTTTGTTTA
Statistics
Matches: 726, Mismatches: 54, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
330 176 0.24
331 5 0.01
332 3 0.00
333 450 0.62
334 22 0.03
335 1 0.00
336 47 0.06
337 22 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (333 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCT
TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTATAGCCTTGAGTTA
TGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAA
CCCTTGTAGAATTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAG
GTCTTTGG
Found at i:116453 original size:18 final size:19
Alignment explanation
Indices: 116413--116457 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
116403 AGTTAATGTG
116413 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
116432 AATGCAAAGAAAATAA-AA
1 AATGCAAAGAAAATAACAA
116450 AATGCAAA
1 AATGCAAA
116458 ATGTCTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:118308 original size:22 final size:24
Alignment explanation
Indices: 118263--118322 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
118253 AATCGCAAAA
*
118263 AAAATAGAAATAATAATAACAAGT-
1 AAAA-AGAAATAAAAATAACAAGTG
* *
118287 CAAAAGAAA-AAAAATAATAAGTG
1 AAAAAGAAATAAAAATAACAAGTG
118310 AAAAAGAAATAAA
1 AAAAAGAAATAAA
118323 TAGACAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.37
23 13 0.43
24 6 0.20
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (24 bp):
AAAAAGAAATAAAAATAACAAGTG
Found at i:118406 original size:15 final size:16
Alignment explanation
Indices: 118371--118401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
118361 AGATAAAAAT
*
118371 AAAATAAAAAAAAGGA
1 AAAAGAAAAAAAAGGA
118387 AAAAGAAAAAAAAGG
1 AAAAGAAAAAAAAGG
118402 TAAAGTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAAAGGA
Found at i:119734 original size:3 final size:3
Alignment explanation
Indices: 119704--119765 Score: 65
Period size: 3 Copynumber: 20.7 Consensus size: 3
119694 AAAAAATTAA
* * *
119704 AAT AA- AAT AAGT AAT AA- AAT ATT AAT AAT AAT AGT GAT AAT AAAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
119749 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
119766 ATATAAAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 39 0.80
4 6 0.12
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:119751 original size:19 final size:19
Alignment explanation
Indices: 119708--119768 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
119698 AATTAAAATA
119708 AAATAAGTAATAA-AAT-AT
1 AAATAA-TAATAATAATAAT
* * *
119726 TAATAATAATAGTGATAAT
1 AAATAATAATAATAATAAT
119745 AAATAATAATAATAATAAT
1 AAATAATAATAATAATAAT
119764 AAATA
1 AAATA
119769 TAAAAACTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
17 5 0.14
18 7 0.20
19 23 0.66
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AAATAATAATAATAATAAT
Found at i:119841 original size:33 final size:32
Alignment explanation
Indices: 119804--119955 Score: 123
Period size: 34 Copynumber: 4.5 Consensus size: 32
119794 AAACCGTTTC
* *
119804 TTTTAAAAATTATATATAAATTTCCAAAACTAT
1 TTTTAAAAATTATATAT-AATTTTCAAAAATAT
**
119837 TTTTAAAAAAAATATATAATTTTCAAAAATATTTT
1 TTTTAAAAATTATATATAATTTTCAAAAATA---T
*
119872 TTTTAAAAA--ACCATATAATTTTCAAAAATA-
1 TTTTAAAAATTA-TATATAATTTTCAAAAATAT
*
119902 TTTTAAAAATTATATATTATATATTTTC-AAAATTT
1 TTTTAAAAA-T-TATA-TATA-ATTTTCAAAAATAT
119937 TTTTCAAAAAATTATATAT
1 TTTT--AAAAATTATATAT
119956 TATATATTTA
Statistics
Matches: 99, Mismatches: 7, Indels: 25
0.76 0.05 0.19
Matches are distributed among these distances:
30 9 0.09
32 12 0.12
33 17 0.17
34 31 0.31
35 24 0.24
36 1 0.01
37 5 0.05
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (32 bp):
TTTTAAAAATTATATATAATTTTCAAAAATAT
Found at i:119960 original size:35 final size:32
Alignment explanation
Indices: 119804--119955 Score: 114
Period size: 35 Copynumber: 4.6 Consensus size: 32
119794 AAACCGTTTC
* *
119804 TTTT-AAAAATTATATATAAATTTCCAAAACTAT
1 TTTTAAAAAATTATATAT-AATTTTCAAAA-TTT
*
119837 TTTTAAAAAA-AATATATAATTTTCAAAAATATTTT
1 TTTTAAAAAATTATATATAATTTTC--AAA-A-TTT
** * *
119872 TTTTAAAAAA--CCATATAATTTTCAAAAATA
1 TTTTAAAAAATTATATATAATTTTCAAAATTT
*
119902 TTTTAAAAATTATATATTATATATTTTCAAAATTT
1 TTTTAAAAAAT-TATA-TATA-ATTTTCAAAATTT
119937 TTTTCAAAAAATTATATAT
1 TTTT-AAAAAATTATATAT
119956 TATATATTTA
Statistics
Matches: 95, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
30 10 0.11
31 1 0.01
32 9 0.09
33 11 0.12
34 26 0.27
35 32 0.34
36 6 0.06
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (32 bp):
TTTTAAAAAATTATATATAATTTTCAAAATTT
Found at i:119985 original size:39 final size:38
Alignment explanation
Indices: 119889--120119 Score: 188
Period size: 39 Copynumber: 6.0 Consensus size: 38
119879 AAACCATATA
* *
119889 ATTTTCAAAAATATTTTAAAAATTATATA-T-TATA--T
1 ATTTTC-AAAATGTTTAAAAAATTATATATTATATATTT
*
119924 ATTTTCAAAATTTTTTTCAAAAAATTATATATTATATATTT
1 ATTTTCAAAA--TGTTT-AAAAAATTATATATTATATATTT
* * *
119965 ATTTTCAAAATGTTTAAAAAAACTATATAATATATATAT
1 ATTTTCAAAATGTTT-AAAAAATTATATATTATATATTT
**
120004 ATTTTCAAAAATGTTTTGAAAATTATATATTATAT-TTT
1 ATTTTC-AAAATGTTTAAAAAATTATATATTATATATTT
* * **
120042 -TTTGTAAAAACAT-TTTAAACAAATTATATAATATATAAAT
1 ATTT-T-CAAA-ATGTTTAAA-AAATTATATATTATATATTT
* * *
120082 GTTTTCAAAATGTTTTAAAAACTATATATTATATATTT
1 ATTTTCAAAATGTTTAAAAAATTATATATTATATATTT
120120 TCAAAATGTT
Statistics
Matches: 157, Mismatches: 24, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
34 4 0.03
35 6 0.04
36 4 0.03
37 15 0.10
38 29 0.18
39 74 0.47
40 11 0.07
41 14 0.09
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (38 bp):
ATTTTCAAAATGTTTAAAAAATTATATATTATATATTT
Found at i:120059 original size:78 final size:76
Alignment explanation
Indices: 119913--120120 Score: 240
Period size: 78 Copynumber: 2.7 Consensus size: 76
119903 TTTAAAAATT
* * *
119913 ATATATTATATATTTTCAAAATTTTTTTCAAAAAATTATATATTATATATTTATTTTCAAAATGT
1 ATATA-TATATATTTTCAAAAATGTTTT--AAAAATTATATATTATAT-TTT-TTTTAAAAATGT
119978 TTAAAAAAACTATATA
61 TTAAAAAAACTATATA
*
119994 ATATATATATATTTTCAAAAATGTTTTGAAAATTATATATTATATTTTTTTGTAAAAACAT-TTT
1 ATATATATATATTTTCAAAAATGTTTTAAAAATTATATATTATATTTTTTT-T-AAAA-ATGTTT
* *
120058 AAACAAATTATATA
63 AAAAAAACTATATA
* * * *
120072 ATATATAAATGTTTTC-AAAATGTTTTAAAAACTATATATTATATATTTT
1 ATATATATATATTTTCAAAAATGTTTTAAAAATTATATATTATATTTTTT
120121 CAAAATGTTT
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
76 3 0.03
77 34 0.30
78 49 0.43
79 2 0.02
80 20 0.18
81 5 0.04
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (76 bp):
ATATATATATATTTTCAAAAATGTTTTAAAAATTATATATTATATTTTTTTTAAAAATGTTTAAA
AAAACTATATA
Found at i:120973 original size:2 final size:2
Alignment explanation
Indices: 120955--120999 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
120945 TTTTAAGAAA
*
120955 AT AT AT -T A- AT AT CT 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
*
120995 TT AT A
1 AT AT A
121000 AATAAGATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:121245 original size:2 final size:2
Alignment explanation
Indices: 121238--121277 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
121228 TAATATTTAA
*
121238 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121278 GAATAATATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:121247 original size:14 final size:14
Alignment explanation
Indices: 121220--121286 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
121210 CGAAAAATAA
121220 ATAAATAT-TAATAT
1 ATAAATATAT-ATAT
*
121234 TTAAATATATATAT
1 ATAAATATATATAT
*
121248 ATATATATATATAT
1 ATAAATATATATAT
* *
121262 ATATATATATTTAT
1 ATAAATATATATAT
*
121276 ATGAATA-ATAT
1 ATAAATATATAT
121287 GAAAATAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
13 3 0.07
14 41 0.91
15 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (14 bp):
ATAAATATATATAT
Found at i:121286 original size:136 final size:134
Alignment explanation
Indices: 120963--121286 Score: 377
Period size: 136 Copynumber: 2.4 Consensus size: 134
120953 AAATATATTA
* *
120963 ATATCTATATATATATATATATATATATATATTTATAAATAAGATATTTATTTAATTAGAAATAT
1 ATATCTATATATATATATATATATATATATATTTAT--ATAA-ATA-ATATTTAATTAAAAATAT
* *
121028 CAGAAAAGAACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATATT
62 CAGAAAAGAACTTCTAGATGCTTTAAGACAACCCATTTCTTAATATCAAAAAATAAATAAATATT
121093 AATAAAAC
127 AATAAAAC
* * * * *
121101 ATTTCTCTAAAAATA-ATA-AAATTAATATATAATTTATA-AAATTAAAATATTT-ATTAAAAAT
1 ATATCTATATATATATATATATA-T-ATATAT-ATTTATATAAA-T--AATATTTAATTAAAAAT
* *
121162 ATCAGAAAAGGACTTCTAGATGCTTTAAGACAACCCATTTCTTAATATCGAAAAATAAATAAATA
60 ATCAGAAAAGAACTTCTAGATGCTTTAAGACAACCCATTTCTTAATATCAAAAAATAAATAAATA
*
121227 TTAATATTTAAAT
125 TTAATA---AAAC
* *
121240 ATATATATATATATATATATATATATATATATTTATATGAATAATAT
1 ATATCTATATATATATATATATATATATATATTTATATAAATAATAT
121287 GAAAATAATA
Statistics
Matches: 155, Mismatches: 19, Indels: 26
0.77 0.09 0.13
Matches are distributed among these distances:
135 1 0.01
136 85 0.55
137 10 0.06
138 26 0.17
139 27 0.17
140 4 0.03
141 2 0.01
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (134 bp):
ATATCTATATATATATATATATATATATATATTTATATAAATAATATTTAATTAAAAATATCAGA
AAAGAACTTCTAGATGCTTTAAGACAACCCATTTCTTAATATCAAAAAATAAATAAATATTAATA
AAAC
Found at i:121615 original size:66 final size:65
Alignment explanation
Indices: 121545--121685 Score: 160
Period size: 66 Copynumber: 2.1 Consensus size: 65
121535 GATTTTAACA
* * * *
121545 CTAAATATTAATAGGGGACAAAAATAAAT-TTAATAAAATTATAAGGGACTAATCATA-ATATTT
1 CTAAATATTAAT-CGGGACAAAAATAAATATTAATAAAA-CATAAGGGACTAA-AAAAGATATTT
121608 ACC
63 ACC
** * *
121611 CTAAATTATTAATCGGGATTAAAATAAATATTATTAAAACCTAAGGGACTAAAAAAGATATTTAC
1 CTAAA-TATTAATCGGGACAAAAATAAATATTAATAAAACATAAGGGACTAAAAAAGATATTTAC
121676 C
65 C
121677 CTAAATATT
1 CTAAATATT
121686 TAAGTATAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
65 6 0.09
66 43 0.67
67 15 0.23
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (65 bp):
CTAAATATTAATCGGGACAAAAATAAATATTAATAAAACATAAGGGACTAAAAAAGATATTTACC
Found at i:121833 original size:63 final size:64
Alignment explanation
Indices: 121702--121819 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 64
121692 TAGATATATT
* ** * *
121702 GTGACTAAATTATAAATAAAATTAAATTTGAATATTGAATTAAAACATATGAAAATATATTGCA
1 GTGACTAAATCATAAATAAAATTAAATTAAAAGATAGAATTAAAACATATGAAAATATATTGCA
*
121766 GTGACTAAATCAT-AATAAAA-TAAACTTAAAAGATAGAATTAAAACGTAT-AAAAT
1 GTGACTAAATCATAAATAAAATTAAA-TTAAAAGATAGAATTAAAACATATGAAAAT
121820 TTGATTTTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
62 9 0.19
63 26 0.55
64 12 0.26
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (64 bp):
GTGACTAAATCATAAATAAAATTAAATTAAAAGATAGAATTAAAACATATGAAAATATATTGCA
Found at i:128232 original size:14 final size:16
Alignment explanation
Indices: 128208--128240 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
128198 TAAATATATA
128208 TATATAATAGGGT-TT
1 TATATAATAGGGTATT
128223 TATA-AATAGGGTATT
1 TATATAATAGGGTATT
128238 TAT
1 TAT
128241 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (16 bp):
TATATAATAGGGTATT
Found at i:128331 original size:2 final size:2
Alignment explanation
Indices: 128324--128358 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
128314 TTATCCTTTC
128324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
128359 TAGCTGACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:128596 original size:13 final size:13
Alignment explanation
Indices: 128578--128630 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
128568 TGTGATGAGT
128578 ATAAAATAAAAAA
1 ATAAAATAAAAAA
128591 ATAAAAT-AAAAA
1 ATAAAATAAAAAA
**
128603 ATAATAATTAAAGTA
1 ATAA-AA-TAAAAAA
*
128618 ATAAATTAAAAAA
1 ATAAAATAAAAAA
128631 TATTGAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 9 0.28
13 14 0.44
14 2 0.06
15 7 0.22
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (13 bp):
ATAAAATAAAAAA
Found at i:128603 original size:12 final size:12
Alignment explanation
Indices: 128578--128632 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
128568 TGTGATGAGT
128578 ATAAAATAAAAAA
1 ATAAAAT-AAAAA
128591 ATAAAATAAAAA
1 ATAAAATAAAAA
*
128603 ATAATAATTAAAGTA
1 ATAA-AA-TAAA-AA
*
128618 ATAAATTAAAAA
1 ATAAAATAAAAA
128630 ATA
1 ATA
128633 TTGAAACTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
12 13 0.36
13 13 0.36
14 5 0.14
15 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:129902 original size:23 final size:21
Alignment explanation
Indices: 129859--129909 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 21
129849 CTTCTGGATC
129859 TGGGCCTTCGGGTTTGTAAA-
1 TGGGCCTTCGGGTTTGTAAAT
129879 TGGGCCTTCGGGTCCCTTGTAAAT
1 TGGGCCTTCGGGT---TTGTAAAT
129903 TGGGCCT
1 TGGGCCT
129910 GTAATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.48
23 7 0.26
24 7 0.26
ACGTcount: A:0.12, C:0.22, G:0.33, T:0.33
Consensus pattern (21 bp):
TGGGCCTTCGGGTTTGTAAAT
Found at i:129942 original size:3 final size:3
Alignment explanation
Indices: 129936--129982 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
129926 TATTATTATT
*
129936 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
129983 AATGGGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:130836 original size:42 final size:41
Alignment explanation
Indices: 130753--130849 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 41
130743 AGGTCTTATG
* * * *
130753 GATGACCCGAAGGCTTTATCATCTTGCTCGAAAGGCTTACA
1 GATGACCCGAAGGATTTAGCATCATGCTCGAAAGACTTACA
*
130794 GATGACCCGAAGGATTTAAGCATCATGCTCTAAAGACTTACA
1 GATGACCCGAAGGATTT-AGCATCATGCTCGAAAGACTTACA
*
130836 GGTGACCCGAAGGA
1 GATGACCCGAAGGA
130850 CTTACGAATC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (41 bp):
GATGACCCGAAGGATTTAGCATCATGCTCGAAAGACTTACA
Found at i:131092 original size:261 final size:264
Alignment explanation
Indices: 130533--131379 Score: 1206
Period size: 265 Copynumber: 3.2 Consensus size: 264
130523 CTTATGGATA
* * * * * *
130533 ACCCGAAGGATTTAAGCATCATGCTCGAAAGACATATAGATGGCCTGAAGGACTTACAAATTAAG
1 ACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGGCCCGAAGGACTTACGAATCAAG
* *
130598 AAACCCTCGAAAGCTTAGTTTCTTAGTTGTCAAAGAACCCTTTTGTTAGGTTTAGCTTCATTTAA
66 AAACCCTCGAAAGCTTAGTTTCTTAGTTGTCAAAGAACCCCTTTGTTAGGCTTAGCTTCATTTAA
*
130663 CAACTCTTTTGAGATAATTAGGAAACCCCTTAAAATTAGGCTTAGTTTCTAAAATCTCATTTGAA
131 CAACTCTTTTGAGATAATTAGGAAACCCCTTAAAA-TAGGCTTAGTTTTTAAAATCTCATTTGAA
* *
130728 AATATCCTGCATTGAAGGTCTTATGGATGACCCGAAGGCTTTATCATCTTGCTCGAAAGGCTTAC
195 AACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTATCATCTTGCTCGAAAGGCTTAC
130793 AGATG
260 AGATG
* * * *
130798 ACCCGAAGGATTTAAGCATCATGCTCTAAAGACTTACAGGTGACCCGAAGGACTTACGAATCAAG
1 ACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGGCCCGAAGGACTTACGAATCAAG
* * * *
130863 AAACCTTCAAAAGCTTAGTTT-TATAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTA
66 AAACCCTCGAAAGCTTAGTTTCT-TAGTTGTCAAAGAACCCCTTTGTTAGGCTTAGCTTCATTTA
* *
130927 ACAACTCTTTTGAGATAATTAGGAAACCCC-T-GAA-AGGTTTAGTTTTTAAAATCTCATTTGAA
130 ACAACTCTTTTGAGATAATTAGGAAACCCCTTAAAATAGGCTTAGTTTTTAAAATCTCATTTGAA
*
130989 AGCAT-CTAGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTATCATCTTGCTCGAAAGGCTTA
195 AACATCCT-GCACTGAAGGTCTTATGGATGACCCGAAGGCTTTATCATCTTGCTCGAAAGGCTTA
131053 CAGATG
259 CAGATG
** * * *
131059 ACCCGAAATATTTAAACATCATGCTTGAAAGACTTACAGATGGCTCAAAGGACTTACGAATCAAG
1 ACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGGCCCGAAGGACTTACGAATCAAG
* * * *
131124 AAACCCTCGAAAGCTTACTTTCTTA-TTTTCAATGAACCCCTTTATTAGGCTTAGCTTCATTTAA
66 AAACCCTCGAAAGCTTAGTTTCTTAGTTGTCAAAGAACCCCTTTGTTAGGCTTAGCTTCATTTAA
* * *
131188 CAACTCTTTTAAGATAATTAGAAAACCCCTTAAAATTAGGCTTAGTTTTTAATATCTCATTTGAA
131 CAACTCTTTTGAGATAATTAGGAAACCCCTTAAAA-TAGGCTTAGTTTTTAAAATCTCATTTGAA
* *
131253 AACATCCTGCACTGAAGGTCTTATGGAT-AGCCTGAAGGAC-TTATTATCTTGCTCGAAAGGCTT
195 AACATCCTGCACTGAAGGTCTTATGGATGA-CCCGAAGG-CTTTATCATCTTGCTCGAAAGGCTT
*
131316 ATAGATG
258 ACAGATG
* * **
131323 ACCCGAAGGATTTAAAACATCATGCTCAAAAGAATTACAGATGGCCTTAAGGACTTA
1 ACCCGAAGGATTT-AAACATCATGCTCGAAAGACTTACAGATGGCCCGAAGGACTTA
131380 TAAATTCGGG
Statistics
Matches: 518, Mismatches: 53, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
260 64 0.12
261 167 0.32
262 3 0.01
263 3 0.01
264 98 0.19
265 183 0.35
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (264 bp):
ACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACAGATGGCCCGAAGGACTTACGAATCAAG
AAACCCTCGAAAGCTTAGTTTCTTAGTTGTCAAAGAACCCCTTTGTTAGGCTTAGCTTCATTTAA
CAACTCTTTTGAGATAATTAGGAAACCCCTTAAAATAGGCTTAGTTTTTAAAATCTCATTTGAAA
ACATCCTGCACTGAAGGTCTTATGGATGACCCGAAGGCTTTATCATCTTGCTCGAAAGGCTTACA
GATG
Found at i:132508 original size:54 final size:54
Alignment explanation
Indices: 132408--132515 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
132398 TTAATCACTG
* * * * *
132408 GTTCATAAAACATTTGATAACACATTCATCATTTCCCGTGGTTTCTGCTCAGAT
1 GTTCATAAAACATTTGACAACACATTCATCATTTCCCATAGCTTCTGCCCAGAT
* * * *
132462 GTTCGTAAAACATTTTACAACACATTCATCCTTTCCTATAGCTTCTGCCCAGAT
1 GTTCATAAAACATTTGACAACACATTCATCATTTCCCATAGCTTCTGCCCAGAT
132516 TTCTCAATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (54 bp):
GTTCATAAAACATTTGACAACACATTCATCATTTCCCATAGCTTCTGCCCAGAT
Found at i:134152 original size:10 final size:10
Alignment explanation
Indices: 134117--134178 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
134107 TTGATTCAAT
134117 TTCTTTTCTT-
1 TTCTTTT-TTC
134127 TTC-TTTTTC
1 TTCTTTTTTC
134136 ATCTCTTTTTTC
1 -T-TCTTTTTTC
* *
134148 ATCTTTTTTT
1 TTCTTTTTTC
*
134158 TTCCTTTTTC
1 TTCTTTTTTC
134168 TTCTTTTTTC
1 TTCTTTTTTC
134178 T
1 T
134179 GATGAATGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 2 0.05
9 3 0.07
10 29 0.69
11 2 0.05
12 6 0.14
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:137892 original size:17 final size:16
Alignment explanation
Indices: 137870--137903 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
137860 TAAAAACAGT
137870 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
137887 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
137903 A
1 A
137904 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Done.