Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 198 of 211
Found at i:58323697 original size:21 final size:21
Alignment explanation
Indices: 58323669--58323716 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
58323659 AGGGGCTAGT
*
58323669 AGTTAGGGGTCAGAGGTTTAAG
1 AGTTAGGGATCAGAGG-TTAAG
*
58323691 A-TTAGGGATTAGAGGTTAAG
1 AGTTAGGGATCAGAGGTTAAG
58323711 AGTTAG
1 AGTTAG
58323717 TGATTTAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 16 0.70
22 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.38, T:0.29
Consensus pattern (21 bp):
AGTTAGGGATCAGAGGTTAAG
Found at i:58323721 original size:21 final size:22
Alignment explanation
Indices: 58323680--58323741 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
58323670 GTTAGGGGTC
58323680 AGAGGTTTAAGATTAGGGA-TT
1 AGAGGTTTAAGATTAGGGATTT
*
58323701 AGAGG-TTAAGAGTTAGTGATTT
1 AGAGGTTTAAGA-TTAGGGATTT
58323723 AGA-GTTTAGAGATTCAGGG
1 AGAGGTTTA-AGATT-AGGG
58323742 TCGGGTTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 6 0.18
21 12 0.35
22 10 0.29
23 6 0.18
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.32
Consensus pattern (22 bp):
AGAGGTTTAAGATTAGGGATTT
Found at i:58325800 original size:13 final size:13
Alignment explanation
Indices: 58325782--58325807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58325772 TTATAAAATT
58325782 TTTACATTTTACA
1 TTTACATTTTACA
58325795 TTTACATTTTACA
1 TTTACATTTTACA
58325808 AAGCTTCAGC
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:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTACATTTTACA
Found at i:58328132 original size:43 final size:43
Alignment explanation
Indices: 58328084--58328356 Score: 330
Period size: 43 Copynumber: 6.3 Consensus size: 43
58328074 TTTTTTATGA
* * *
58328084 TCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCAGGT
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
* * *
58328127 TCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCAGGT
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
** * * * * *
58328170 TCTTTAGCGATGTTTGTGAGAAAAGCGCTGCTAAAGAACCTGA
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
* * * *
58328213 CCTTTAGCGGCGTTTGTGGGTAAAGCGCTGCTAAAGATTATGT
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
* * *
58328256 TTTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
* * * *
58328299 TCTTTAGCGGCATTTGTGGGTAAAGTGCCGTTAAAGATCATGT
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
58328342 TCTTTAGCGGCGTTT
1 TCTTTAGCGGCGTTT
58328357 TTTCAAATAA
Statistics
Matches: 196, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 196 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGT
Found at i:58331109 original size:2 final size:2
Alignment explanation
Indices: 58331102--58331134 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
58331092 GGAAACATTA
58331102 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
58331135 AACAAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58331286 original size:21 final size:22
Alignment explanation
Indices: 58331249--58331290 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
58331239 TAAATTGATT
*
58331249 CATTAAAATTGTAAAATATAAC
1 CATTAAAAATGTAAAATATAAC
58331271 CATTAAAAAT-TAAAATATAA
1 CATTAAAAATGTAAAATATAA
58331291 TTAACAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
CATTAAAAATGTAAAATATAAC
Found at i:58332217 original size:18 final size:20
Alignment explanation
Indices: 58332197--58332233 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58332187 TTTAATAATA
*
58332197 TTTTA-TAAAACAATTATAT
1 TTTTATTAAAAAAATTATAT
58332216 TTTTATTAAAAAAATTAT
1 TTTTATTAAAAAAATTAT
58332234 TATATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTATTAAAAAAATTATAT
Found at i:58354531 original size:30 final size:30
Alignment explanation
Indices: 58354495--58354559 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
58354485 TCATAATTTT
58354495 TTATATAAA-TGTTTTAAAA-ATTAAAAGAAA
1 TTATATAAACT-TTTTAAAATA-TAAAAGAAA
58354525 TTATATAAACTTTTTAAAATATAAAAGAAA
1 TTATATAAACTTTTTAAAATATAAAAGAAA
*
58354555 CTATA
1 TTATA
58354560 AATTATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (30 bp):
TTATATAAACTTTTTAAAATATAAAAGAAA
Found at i:58360285 original size:106 final size:106
Alignment explanation
Indices: 58360100--58360306 Score: 292
Period size: 106 Copynumber: 2.0 Consensus size: 106
58360090 AGTTTGGCCT
* *
58360100 TTATTATATGCTTTTTCCTGGGGTAGCTATCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
1 TTATTATATGCTTTTTCATGGGGTAGCTACCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
* *
58360165 TCCTCTTTGCTTTTGGCAAAACATAGTGATAGCTTTAGCCA
66 TCATCTTTGCTTTTGGCAAAACATAATGATAGCTTTAGCCA
*** *
58360206 TTATTATATGCTTTTTCAT-GGGTGAGCTACCATTTTGGTTAAAATTTCTT-TAACTTAATGGTC
1 TTATTATATGCTTTTTCATGGGGT-AGCTACCATTTTGGTTAAAAAAACTTAT-ACTCAATGGTC
* *
58360269 TCTTATCTTTGCTTTTGGCAAAGCATAATGATAGCTTT
64 TCTCATCTTTGCTTTTGGCAAAACATAATGATAGCTTT
58360307 GGCTGAGGCC
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
105 5 0.06
106 84 0.94
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (106 bp):
TTATTATATGCTTTTTCATGGGGTAGCTACCATTTTGGTTAAAAAAACTTATACTCAATGGTCTC
TCATCTTTGCTTTTGGCAAAACATAATGATAGCTTTAGCCA
Found at i:58375314 original size:13 final size:14
Alignment explanation
Indices: 58375291--58375319 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
58375281 TGGATTTGGG
58375291 TAAAAATATAAATT
1 TAAAAATATAAATT
58375305 TAAAAA-ATAAATT
1 TAAAAATATAAATT
58375318 TA
1 TA
58375320 GGAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TAAAAATATAAATT
Found at i:58382221 original size:13 final size:13
Alignment explanation
Indices: 58382203--58382242 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
58382193 AGTTCTTCGT
58382203 TGCTGTGGAAAAG
1 TGCTGTGGAAAAG
58382216 TGCTGTGGAAAAG
1 TGCTGTGGAAAAG
* *
58382229 TGCTTTTGAAAAG
1 TGCTGTGGAAAAG
58382242 T
1 T
58382243 TTGATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (13 bp):
TGCTGTGGAAAAG
Found at i:58386050 original size:8 final size:8
Alignment explanation
Indices: 58386039--58386082 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
58386029 TAATTCCTTA
58386039 AAAATAAT
1 AAAATAAT
58386047 AAAATAAT
1 AAAATAAT
58386055 AAAATAAT
1 AAAATAAT
58386063 AAAATAAT
1 AAAATAAT
*
58386071 -AAATGAT
1 AAAATAAT
58386078 AAAAT
1 AAAAT
58386083 TATAGACTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
7 6 0.18
8 28 0.82
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (8 bp):
AAAATAAT
Found at i:58394474 original size:3 final size:3
Alignment explanation
Indices: 58394466--58394552 Score: 70
Period size: 3 Copynumber: 28.0 Consensus size: 3
58394456 AAAATAAAAC
* * *
58394466 TAA TAA TAA TTAA TAA TGA TAA TAA TAG TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
58394512 TAA TAAA TGA TAA TACA TTAA -AA TAA TTAA CAA -AA TAA TAA
1 TAA T-AA TAA TAA TA-A -TAA TAA TAA -TAA TAA TAA TAA TAA
58394553 GATTGCTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
2 4 0.06
3 51 0.75
4 11 0.16
5 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:58395334 original size:14 final size:14
Alignment explanation
Indices: 58395315--58395341 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58395305 ATGTAAAAGA
58395315 TAAAATAAAATAAG
1 TAAAATAAAATAAG
58395329 TAAAATAAAATAA
1 TAAAATAAAATAA
58395342 ACAAGCAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
TAAAATAAAATAAG
Found at i:58396203 original size:44 final size:44
Alignment explanation
Indices: 58396139--58396932 Score: 643
Period size: 44 Copynumber: 18.2 Consensus size: 44
58396129 GTTTTTTCTG
* ***
58396139 TCTGCTCCGCTACTGCTTAGGGAGATAGGATCTAATATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* **
58396183 CCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* **** **
58396227 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * * * * *
58396270 TCTACTTCACTACTACTTAGGAAGATAAGAT-TCGCCGTCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCT-GCCATCTTTGA
***
58396314 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * **** **
58396358 CCTGCTCCACTACTGCTTAGGGAGATATGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * * * *
58396401 TCTGCTTCACTGCTGCTTAGGAAGAT-GAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATCT-GCCATCTTTGA
***
58396445 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* **
58396489 CCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* **** **
58396533 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * * * *
58396576 TCTGCTTCACTACTGCTTAGGAAGATAAGATTTGCCGTCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * *
58396620 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCAT-TTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* ** ***
58396663 TCTGCTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTCTTCTG-
1 TCTGCTCCACTACTGC-TTAGGGAGATAGGATCTGCCATCTT-TGA
* * *
58396707 TCTGCTCCACTACTTCTTAGGGAGATAAGA-CTTG--GTGC---GA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATC-TGCCAT-CTTTGA
* *
58396747 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATATTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* **** **
58396791 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
* * *
58396834 TCTGCTTCACTACTGCTTAGGAAGAT-GAGATTTGCCAT-TTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATCTGCCATCTTT-GA
* * *
58396878 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
*
58396922 CCTGCTCCACT
1 TCTGCTCCACT
58396933 GTAACCTCAG
Statistics
Matches: 597, Mismatches: 126, Indels: 54
0.77 0.16 0.07
Matches are distributed among these distances:
39 1 0.00
40 29 0.05
41 1 0.00
42 3 0.01
43 160 0.27
44 397 0.66
45 6 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGCCATCTTTGA
Found at i:58396458 original size:175 final size:173
Alignment explanation
Indices: 58396139--58396904 Score: 753
Period size: 175 Copynumber: 4.4 Consensus size: 173
58396129 GTTTTTTCTG
*
58396139 TCTGCTCCGCTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
***** ** * * * * ** * *
58396204 GAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
66 GAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATA-GATTGCCGTCTTAG
* * * * * *
58396269 ATCTACTTCACTACTACTTAGGAAGATAAGAT-TCGCCGTCTTTGA
129 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTTGA
58396314 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
* * *
58396379 GAGATATGACTGGTGGCTTAAATCTGCTTCACTGCTGCTTAGGAAGATGAGATTCGCCGTCTTCG
66 GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGAT-AGATT-GCCGTCTTAG
* **
58396444 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGA
129 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* *
58396489 CCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
*
58396554 GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTTGCCGTCTTTG
66 GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGAT-AGA-TTGCCGTCTTAG
*
58396619 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCAT-TTTAA
129 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* ** ** * * *
58396663 TCTGCTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTCTTCTG-TCTGCTCCACTACTTCTTA
1 TCTGCTCCACTACTGC-TTAGGGAGATAGGATCTAATATCTT-TGACCTGCTCCACTACTGCTTA
* * * * * * *
58396726 GGGAGATAAGACTTGGT-GC---GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATAT
64 GGGAGATAGGAC-TGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATA-GAT-TGCCGTCT
* * * ***** **
58396787 TTGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
126 TAGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* * * *** *
58396834 TCTGCTTCACTACTGCTTAGGAAGAT-GAGATTTGCCAT-TTTCGATCTGCTCCACTACTGCTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAG-GATCTAATATCTTT-GACCTGCTCCACTACTGCTTA
58396897 GGGAGATA
64 GGGAGATA
58396905 AGATCTACCA
Statistics
Matches: 505, Mismatches: 72, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
169 2 0.00
170 19 0.04
171 109 0.22
174 82 0.16
175 290 0.57
176 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (173 bp):
TCTGCTCCACTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGG
GAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAGATTGCCGTCTTAGAT
CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
Found at i:58396579 original size:131 final size:131
Alignment explanation
Indices: 58396140--58396932 Score: 719
Period size: 131 Copynumber: 6.1 Consensus size: 131
58396130 TTTTTTCTGT
* ** * * *
58396140 CTGCTCCGCTACTGCTTAGGGAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGTCTTAGATCTGCTCCACTACTGCTTAGGG
***** *
58396205 AGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAA
65 AGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTA
*
58396269 AT
130 AC
* * * * * * ** *
58396271 CTACTTCACTACTACTTAGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGTCTTAGATCTGCTCCACTACTGCTTAGGG
* * ***** *
58396336 AGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGGGAGATATGA-CTGGTGGCTTAA
65 AGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTA
*
58396400 AT
130 AC
* * * * ** *
58396402 CTGCTTCACTGCTGCTTAGGAAGAT-GAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGATAG-GACT-GGTGTCTTAGATCTGCTCCACTACTGCTTAGG
* *
58396466 GAGATAGGATCTAATATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTT
64 GAGATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTT
*
58396531 GAC
129 AAC
* * * *
58396534 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGTCTTAGATCTGCTCCACTACTGCTTAGGGA
* * ** * * *
58396599 GATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCAT-TTTAA
66 GATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTAA
*
58396663 T
131 C
* ** * * * *
58396664 CTGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCTG-TCTGCTCCACTACTTCTTAGG
1 CTGCTCCACTACTGC-TTAGGGAGATAGGACTGGTGTCTT-AGATCTGCTCCACTACTGCTTAGG
* * ** * *
58396728 GAGATAAGA-CT----TGGTGCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATATT
64 GAGATAGGATCTAACAT-CTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTT
*
58396788 TGAC
128 TAAC
* * * *
58396792 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGTCTTAGATCTGCTCCACTACTGCTTAGGGA
* ** * * *
58396857 GAT-GAGATTTGCCAT-TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTC
66 GATAG-GATCTAACATCTTT-GACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTT
*
58396920 GAC
129 AAC
58396923 CTGCTCCACT
1 CTGCTCCACT
58396933 GTAACCTCAG
Statistics
Matches: 560, Mismatches: 86, Indels: 32
0.83 0.13 0.05
Matches are distributed among these distances:
126 1 0.00
127 86 0.15
128 17 0.03
130 19 0.03
131 404 0.72
132 32 0.06
133 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGTCTTAGATCTGCTCCACTACTGCTTAGGGA
GATAGGATCTAACATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTTAA
C
Found at i:58397104 original size:44 final size:44
Alignment explanation
Indices: 58396896--58397704 Score: 285
Period size: 44 Copynumber: 18.2 Consensus size: 44
58396886 ACTACTGCTT
* * * *
58396896 AGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTGTAACCTC
1 AGGGAGATAAGAT-TACTAGCTTCAATCTGCTCCACTGTAACCTC
* * * *** * * *
58396941 AGGGAGATAAGACCTGA-AATTCTTTGGTTTACTCCACTGTAACCTT
1 AGGGAGATAAGA--TTACTA-GCTTCAATCTGCTCCACTGTAACCTC
* * * *
58396987 AGGGAGATAAGATT--T-G-TTGCGATCTACTCTACTGTAACTTC
1 AGGGAGATAAGATTACTAGCTT-CAATCTGCTCCACTGTAACCTC
* * * * * * *
58397028 AGAGAGATGAGATCCT-TTA-TTTTAATCCGCTCCACTGTAACTTC
1 AGGGAGATAAGAT--TACTAGCTTCAATCTGCTCCACTGTAACCTC
* *
58397072 AGGGAGATAGGATTACTAGCTCCAATCTGCTCCACTGTAACCTC
1 AGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTC
* * ** **
58397116 AGGGAGATAAGATCTGA-AATTCTTCGGTCCACTCCACTGTAACCTC
1 AGGGAGATAAGAT-T-ACTA-GCTTCAATCTGCTCCACTGTAACCTC
* * * * *
58397162 AGGGAGATAAGACTTGCATA--TTCAACCAGCCCCACTGTAACTTC
1 AGGGAGATAAGA-TTAC-TAGCTTCAATCTGCTCCACTGTAACCTC
* ** * * * *
58397206 AGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTC
1 AGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTC
*
58397250 AGGAAGATAAGATCT-CTAGCTTCAATCTGCTCCACTGTAACCTC
1 AGGGAGATAAGAT-TACTAGCTTCAATCTGCTCCACTGTAACCTC
* * * ** * *
58397294 AAGGAGATAAGAATTGA-AATTCTTCGGTCTACTCCACTGTAATCTC
1 AGGGAGATAAG-ATT-ACTA-GCTTCAATCTGCTCCACTGTAACCTC
* * ** * ** *
58397340 AAGGAGATAAGACCTAAAATTCTTCGGTCTACTCCACTGTAACCTC
1 AGGGAGATAAGA-TTACTA-GCTTCAATCTGCTCCACTGTAACCTC
* * * *
58397386 AGGGAGATAAGACTTGCATA--TTCAACCTGCCCCACTGTAACTTC
1 AGGGAGATAAGA-TTAC-TAGCTTCAATCTGCTCCACTGTAACCTC
* * * * * *
58397430 AGGGAAATAAGGTT-CGTGGCTTCGATCTGCTCCTCTGTAATCTC
1 AGGGAGATAAGATTAC-TAGCTTCAATCTGCTCCACTGTAACCTC
* * ** * *
58397474 AGGGAGATAAGATCTGA-AATTCTTCGGTCTACTCCACTGTAATCTC
1 AGGGAGATAAGAT-T-ACTA-GCTTCAATCTGCTCCACTGTAACCTC
* * * *
58397520 AGGGAGATAAGACTTGCATA--TTCAACCTGCCCCACTGTAACTTC
1 AGGGAGATAAGA-TTAC-TAGCTTCAATCTGCTCCACTGTAACCTC
* * ** * * ** *
58397564 AGAGAGATAAGGTTTGTGGCTTCGATCTGCTCTTCTGTAACTTC
1 AGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTC
* * * * * * * *
58397608 AGAGAGATAGGATCCT-TTA-TTTTAATCCGCTCCACTATAACTTC
1 AGGGAGATAAGAT--TACTAGCTTCAATCTGCTCCACTGTAACCTC
* * * * *
58397652 AGGGAGATAGGA-TAGT-GTCTTCGATCTGCTCCGCTGTAATCTC
1 AGGGAGATAAGATTACTAG-CTTCAATCTGCTCCACTGTAACCTC
58397695 AGGGAGATAA
1 AGGGAGATAA
58397705 AATCTCTGAC
Statistics
Matches: 573, Mismatches: 148, Indels: 88
0.71 0.18 0.11
Matches are distributed among these distances:
40 2 0.00
41 28 0.05
42 6 0.01
43 35 0.06
44 294 0.51
45 25 0.04
46 177 0.31
47 6 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTC
Found at i:58397157 original size:46 final size:46
Alignment explanation
Indices: 58396896--58397531 Score: 360
Period size: 44 Copynumber: 14.3 Consensus size: 46
58396886 ACTACTGCTT
* * *
58396896 AGGGAGATAAGATCT-ACCA-TCTTCGACCTGCTCCACTGTAACCTC
1 AGGGAGATAAGATCTGA-AATTCTTCGATCTACTCCACTGTAACCTC
* * * * *
58396941 AGGGAGATAAGACCTGAAATTCTTTGGTTTACTCCACTGTAACCTT
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * *
58396987 AGGGAGATAAGATTTG----T-TGCGATCTACTCTACTGTAACTTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * ** * ** *
58397028 AGAGAGATGAGATCCT-TTATT-TT-AATCCGCTCCACTGTAACTTC
1 AGGGAGATAAGAT-CTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * * * *
58397072 AGGGAGATAGGAT-T--ACTAGCTCCAATCTGCTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAAT-TCTTCGATCTACTCCACTGTAACCTC
* *
58397116 AGGGAGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * * * *
58397162 AGGGAGATAAGA-CTTG-CA-TATTC-AACCAGCCCCACTGTAACTTC
1 AGGGAGATAAGATC-TGAAATTCTTCGATCTA-CTCCACTGTAACCTC
* * * * * *
58397206 AGGGAGATAAGGTTTG---TGGCTTCGATCTGCTCCTCTGTAATCTC
1 AGGGAGATAAGATCTGAAAT-TCTTCGATCTACTCCACTGTAACCTC
* ** * * *
58397250 AGGAAGATAAGATCT-CTA-GCTTCAATCTGCTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * *
58397294 AAGGAGATAAGAAT-TGAAATTCTTCGGTCTACTCCACTGTAATCTC
1 AGGGAGATAAG-ATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * *
58397340 AAGGAGATAAGACCTAAAATTCTTCGGTCTACTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * * * * *
58397386 AGGGAGATAAGA-CTTG-CA-TATTCAACCTGCCCCACTGTAACTTC
1 AGGGAGATAAGATC-TGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * * * *
58397430 AGGGAAATAAGGT-TCG---TGGCTTCGATCTGCTCCTCTGTAATCTC
1 AGGGAGATAAGATCT-GAAAT-TCTTCGATCTACTCCACTGTAACCTC
* *
58397474 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAATCTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
58397520 AGGGAGATAAGA
1 AGGGAGATAAGA
58397532 CTTGCATATT
Statistics
Matches: 453, Mismatches: 103, Indels: 69
0.72 0.16 0.11
Matches are distributed among these distances:
41 29 0.06
42 3 0.01
43 5 0.01
44 207 0.46
45 29 0.06
46 177 0.39
47 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (46 bp):
AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
Found at i:58397335 original size:134 final size:135
Alignment explanation
Indices: 58397056--58397315 Score: 314
Period size: 134 Copynumber: 2.0 Consensus size: 135
58397046 ATTTTAATCC
*
58397056 GCTCCACTGTAACTTCAGGGAGAT-AGGATTACTAGCTCCAATCTGCTCCACTGTAACCTCAGGG
1 GCTCCACTGTAACTTCAGGGAGATAAGGATTACTAGCTCCAATCTGCTCCACTGTAACCTCAGGA
* ** * * *
58397120 AGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTC
66 AGATAAGATCTGAAATGCTTCAATCCACTCCACTGTAACCTCAAGGAGATAAGAATTGCAAATTC
58397185 AACCA
131 AACCA
* ** * * * * *
58397190 GCCCCACTGTAACTTCAGGGAGATAAGG-TTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGA
1 GCTCCACTGTAACTTCAGGGAGATAAGGATTACTAGCTCCAATCTGCTCCACTGTAACCTCAGGA
** **
58397254 AGATAAGATCT-CTA-GCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGAATTG-AAATTC
66 AGATAAGATCTGAAATGCTTCAATCCACTCCACTGTAACCTCAAGGAGATAAGAATTGCAAATTC
58397316 TTCGGTCTAC
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
131 5 0.05
132 35 0.33
133 1 0.01
134 62 0.58
135 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (135 bp):
GCTCCACTGTAACTTCAGGGAGATAAGGATTACTAGCTCCAATCTGCTCCACTGTAACCTCAGGA
AGATAAGATCTGAAATGCTTCAATCCACTCCACTGTAACCTCAAGGAGATAAGAATTGCAAATTC
AACCA
Found at i:58397503 original size:134 final size:134
Alignment explanation
Indices: 58397315--58397621 Score: 481
Period size: 134 Copynumber: 2.3 Consensus size: 134
58397305 AATTGAAATT
* * * * *
58397315 CTTCGGTCTACTCCACTGTAATCTCAAGGAGATAAGACCTAAAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGT
*
58397380 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAAATAAGGTTC
66 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAAATAAGGTTC
58397445 GTGG
131 GTGG
*
58397449 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGT
1 CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGT
* * *
58397514 AATCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAGATAAGGTTT
66 AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAAATAAGGTTC
58397579 GTGG
131 GTGG
* * *
58397583 CTTCGATCTGCTCTTCTGTAA-CTTCAGAGAGATAGGATC
1 CTTCGATCTGCTCCTCTGTAATC-TCAGGGAGATAAGATC
58397622 CTTTATTTTA
Statistics
Matches: 159, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
133 1 0.01
134 158 0.99
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (134 bp):
CTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGT
AACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAAATAAGGTTC
GTGG
Found at i:58397513 original size:358 final size:353
Alignment explanation
Indices: 58396900--58397603 Score: 970
Period size: 358 Copynumber: 2.0 Consensus size: 353
58396890 CTGCTTAGGG
* * * *
58396900 AGATAAGATCTACCATCTTCGACCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTT
1 AGATAAGATCTACCAGCTTCAACCTGCTCCACTGTAACCTCAAGGAGATAAGAACTGAAATTCTT
* * * * * * *
58396965 TGGTTTACTCCACTGTAACCTTAGGGAGATAAGATTTGTTGCGATCTACTCTACTGTAACTTCAG
66 CGGTCTACTCCACTGTAACCTCAAGGAGATAAGATTTCTTGCGATCTACTCCACTGTAACCTCAG
* * * * *
58397030 AGAGATGAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTCC
131 AGAGATAAGA-CCTTCATTTCAATCCGCCCCACTGTAACTTCAGGGAAATAGGATTACTAGCTCC
58397095 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACC
195 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACC
*
58397160 TCAGGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGG
260 TCAGGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGAGAGATAAGGTTTGTGG
58397225 CTTCGATCTGCTCCTCTGTAATCTCAGGA
325 CTTCGATCTGCTCCTCTGTAATCTCAGGA
* * *
58397254 AGATAAGATCT-CTAGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAGAATTGAAATTCTT
1 AGATAAGATCTACCAGCTTCAACCTGCTCCACTGTAACCTCAAGGAGATAAGAACTGAAATTCTT
* *
58397318 CGGTCTACTCCACTGTAATCTCAAGGAGATAAGACCTAAAATTCTT-CGGTCTACTCCACTGTAA
66 CGGTCTACTCCACTGTAACCTCAAGGAGATAAGA--T----TTCTTGCGATCTACTCCACTGTAA
*
58397382 CCTCAGGGAGATAAGA-CTTGCATATTCAA-CCTGCCCCACTGTAACTTCAGGGAAATAAGG-TT
125 CCTCAGAGAGATAAGACCTT-CAT-TTCAATCC-GCCCCACTGTAACTTCAGGGAAAT-AGGATT
* * * * * *
58397444 -CGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
186 AC-TAGCTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCCACTC
* *
58397508 CACTGTAATCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAGATA
250 CACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGAGAGATA
*
58397573 AGGTTTGTGGCTTCGATCTGCTCTTCTGTAA
315 AGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
58397604 CTTCAGAGAG
Statistics
Matches: 307, Mismatches: 32, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
353 75 0.24
354 11 0.04
355 1 0.00
356 3 0.01
357 5 0.02
358 205 0.67
359 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (353 bp):
AGATAAGATCTACCAGCTTCAACCTGCTCCACTGTAACCTCAAGGAGATAAGAACTGAAATTCTT
CGGTCTACTCCACTGTAACCTCAAGGAGATAAGATTTCTTGCGATCTACTCCACTGTAACCTCAG
AGAGATAAGACCTTCATTTCAATCCGCCCCACTGTAACTTCAGGGAAATAGGATTACTAGCTCCA
ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACCT
CAGGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGAGAGATAAGGTTTGTGGC
TTCGATCTGCTCCTCTGTAATCTCAGGA
Found at i:58397557 original size:224 final size:222
Alignment explanation
Indices: 58397098--58397574 Score: 670
Period size: 224 Copynumber: 2.1 Consensus size: 222
58397088 TAGCTCCAAT
* * *
58397098 CTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACCTCA
1 CTGCTCCACTGTAACCTCAAGGAGATAAGACCTAAAATTCTTCGGTCCACTCCACTGTAACCTCA
* *
58397163 GGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTT
66 GGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGGGAAATAAGGTTCGTGGCTT
** *
58397228 CGATCTGCTCCTCTGTAATCTCAGGAAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCT
131 CGATCTGCTCCTCTGTAATCTCAGGAAGATAAGATCTAAAGCTTCAATCTACTCCACTGTAACCT
**
58397293 CAAGGAGATAAGAATTGAAATTCTTCGG
196 CAAGGAGATAAGAATTGAAATTCAAC-G
* * *
58397321 TCTACTCCACTGTAATCTCAAGGAGATAAGACCTAAAATTCTTCGGTCTACTCCACTGTAACCTC
1 -CTGCTCCACTGTAACCTCAAGGAGATAAGACCTAAAATTCTTCGGTCCACTCCACTGTAACCTC
*
58397386 AGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAAATAAGGTTCGTGGCT
65 AGGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGGGAAATAAGGTTCGTGGCT
* * **
58397451 TCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAA
130 TCGATCTGCTCCTCTGTAATCTCAGGAAGATAAGATCT-AAA-GCTTCAATCTACTCCACTGTAA
* * * *
58397516 TCTCAGGGAGATAAGACTTGCATATTCAAC-
193 CCTCAAGGAGATAAGAATTG-AAATTCAACG
* *
58397546 CTGCCCCACTGTAACTTC-AGAGAGATAAG
1 CTGCTCCACTGTAACCTCAAG-GAGATAAG
58397575 GTTTGTGGCT
Statistics
Matches: 223, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
223 2 0.01
224 179 0.80
225 1 0.00
226 35 0.16
227 6 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (222 bp):
CTGCTCCACTGTAACCTCAAGGAGATAAGACCTAAAATTCTTCGGTCCACTCCACTGTAACCTCA
GGGAGATAAGACTTGCATATTCAACCAGCCCCACTGTAACTTCAGGGAAATAAGGTTCGTGGCTT
CGATCTGCTCCTCTGTAATCTCAGGAAGATAAGATCTAAAGCTTCAATCTACTCCACTGTAACCT
CAAGGAGATAAGAATTGAAATTCAACG
Found at i:58399014 original size:27 final size:28
Alignment explanation
Indices: 58398983--58399039 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
58398973 TTAGCCTCTC
58398983 CAATTTTCAATT-TTCA-TTTTC-TTTTTT
1 CAATTTTC-ATTCTT-ATTTTTCATTTTTT
58399010 CAATTTTCATTCTTATTTTTCATTTTTT
1 CAATTTTCATTCTTATTTTTCATTTTTT
58399038 CA
1 CA
58399040 GAGTGCCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 4 0.15
27 15 0.56
28 8 0.30
ACGTcount: A:0.19, C:0.16, G:0.00, T:0.65
Consensus pattern (28 bp):
CAATTTTCATTCTTATTTTTCATTTTTT
Found at i:58399034 original size:7 final size:7
Alignment explanation
Indices: 58398986--58399036 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
58398976 GCCTCTCCAA
*
58398986 TTTTCAA
1 TTTTCAT
58398993 TTTTCA-
1 TTTTCAT
*
58398999 TTTTCTT
1 TTTTCAT
*
58399006 TTTTCAA
1 TTTTCAT
58399013 TTTTCAT
1 TTTTCAT
*
58399020 TCTT-AT
1 TTTTCAT
58399026 TTTTCAT
1 TTTTCAT
58399033 TTTT
1 TTTT
58399037 TCAGAGTGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 10 0.28
7 26 0.72
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:58399036 original size:20 final size:20
Alignment explanation
Indices: 58398986--58399035 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
58398976 GCCTCTCCAA
*
58398986 TTTTCAATTTTCATTTTCTT
1 TTTTCAATTTTCATTTTCAT
58399006 TTTTCAATTTTCATTCTT-AT
1 TTTTCAATTTTCATT-TTCAT
58399026 TTTTC-ATTTT
1 TTTTCAATTTT
58399036 TTCAGAGTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 5 0.18
20 21 0.75
21 2 0.07
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTCAATTTTCATTTTCAT
Found at i:58400033 original size:12 final size:12
Alignment explanation
Indices: 58400016--58400083 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
58400006 CTTTCTTCTT
58400016 TTTTTATTTTGA
1 TTTTTATTTTGA
*
58400028 TTTTTAATTT--
1 TTTTTATTTTGA
** *
58400038 TTTTCCTTTTCA
1 TTTTTATTTTGA
58400050 TTTTTATTTTGA
1 TTTTTATTTTGA
* *
58400062 CTTTGATTTTGA
1 TTTTTATTTTGA
*
58400074 TTTTTCTTTT
1 TTTTTATTTT
58400084 TCTTCACTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
10 7 0.17
12 35 0.83
ACGTcount: A:0.13, C:0.07, G:0.06, T:0.74
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:58400047 original size:22 final size:20
Alignment explanation
Indices: 58400014--58400059 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
58400004 TTCTTTCTTC
*
58400014 TTTTTTTATTTTGATTTTTAA
1 TTTTTTTATTTTCATTTTT-A
*
58400035 TTTTTTTCCTTTTCATTTTTA
1 TTTTTTT-ATTTTCATTTTTA
58400056 TTTT
1 TTTT
58400060 GACTTTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTTTTATTTTCATTTTTA
Found at i:58404842 original size:3 final size:3
Alignment explanation
Indices: 58404834--58404926 Score: 82
Period size: 3 Copynumber: 30.0 Consensus size: 3
58404824 AAAATAAAAC
* *
58404834 TAA TAA TAA TTAA TAA TGA TAA TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
58404880 TAG TAA TAA TAAA TGA TAA TACA TTAA -AA TAA TTAA CAA -AA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TA-A -TAA TAA TAA -TAA TAA TAA TAA TAA
58404927 GATTGCTAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
2 4 0.05
3 57 0.77
4 11 0.15
5 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:58405671 original size:14 final size:14
Alignment explanation
Indices: 58405652--58405678 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58405642 ATGTAAAAGA
58405652 TAAAATAAAATAAG
1 TAAAATAAAATAAG
58405666 TAAAATAAAATAA
1 TAAAATAAAATAA
58405679 ACAAGCAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
TAAAATAAAATAAG
Found at i:58406992 original size:19 final size:19
Alignment explanation
Indices: 58406955--58406995 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
58406945 AGATTACCTG
58406955 AAAGTAATTTCCAAGAAAA
1 AAAGTAATTTCCAAGAAAA
*
58406974 AAAGTTAATTTTCAA-AAAA
1 AAAG-TAATTTCCAAGAAAA
58406993 AAA
1 AAA
58406996 AAAATTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAGTAATTTCCAAGAAAA
Found at i:58406996 original size:20 final size:19
Alignment explanation
Indices: 58406955--58406996 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
58406945 AGATTACCTG
*
58406955 AAAGTAATTTCCAAGAAAA
1 AAAGTAATTTCCAAAAAAA
*
58406974 AAAGTTAATTTTCAAAAAAA
1 AAAG-TAATTTCCAAAAAAA
58406994 AAA
1 AAA
58406997 AAATTTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAGTAATTTCCAAAAAAA
Found at i:58408547 original size:16 final size:16
Alignment explanation
Indices: 58408526--58408590 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
58408516 TTCGCTGTAT
*
58408526 TGGAATAGAGGCATAA
1 TGGAATAGAGGCGTAA
58408542 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
58408558 TGGAATAAAGGTGTAA
1 TGGAATAGAGGCGTAA
58408574 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
58408590 T
1 T
58408591 AGCAAATCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.40, C:0.05, G:0.34, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:58408939 original size:120 final size:121
Alignment explanation
Indices: 58408804--58409028 Score: 434
Period size: 120 Copynumber: 1.9 Consensus size: 121
58408794 TTAATCATAT
*
58408804 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
58408869 AAATATTCTTATATGAATTTTCTAAAATCATA-ATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTTCTAAAATCATATATATATAATACTATAAAATATAA
58408924 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
58408989 AAATATTCTTATATGAATTTTCTAAAATCATATATATATA
66 AAATATTCTTATATGAATTTTCTAAAATCATATATATATA
58409029 TAATACTACA
Statistics
Matches: 103, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
120 96 0.93
121 7 0.07
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (121 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTTCTAAAATCATATATATATAATACTATAAAATATAA
Found at i:58409154 original size:14 final size:15
Alignment explanation
Indices: 58409135--58409167 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
58409125 CATTATTCTT
*
58409135 AAAATTCAAAAA-TA
1 AAAATTAAAAAACTA
58409149 AAAATTAAAAAACTA
1 AAAATTAAAAAACTA
58409164 AAAA
1 AAAA
58409168 ATTTAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATTAAAAAACTA
Found at i:58409637 original size:58 final size:58
Alignment explanation
Indices: 58409514--58409663 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
58409504 AAAGTTGCTA
* **
58409514 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACTACCAGCATGTCAAGGATTAAATT
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
* * * *
58409572 TGTTTTGGCACCAAAAGTAAACCACAAGTCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-CAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
*
58409631 TGTTTGGGCACTAAAAGCAACCGCAA-TCACAAG
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAG
58409664 CCACAAGTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
Found at i:58412811 original size:13 final size:13
Alignment explanation
Indices: 58412793--58412830 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
58412783 TATAAATTAC
58412793 ATAATATATAAAA
1 ATAATATATAAAA
58412806 ATAATATAATATAAA
1 ATAATAT-ATA-AAA
58412821 ATAATA-ATAA
1 ATAATATATAA
58412831 TTTAAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 3 0.13
15 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATATATAAAA
Found at i:58412814 original size:18 final size:18
Alignment explanation
Indices: 58412793--58412829 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
58412783 TATAAATTAC
58412793 ATAATATATAAA-AATAAT
1 ATAATATA-AAATAATAAT
58412811 ATAATATAAAATAATAAT
1 ATAATATAAAATAATAAT
58412829 A
1 A
58412830 ATTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAATATAAAATAATAAT
Found at i:58412817 original size:16 final size:17
Alignment explanation
Indices: 58412793--58412839 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
58412783 TATAAATTAC
58412793 ATAAT-ATATAAAAATA
1 ATAATAATATAAAAATA
58412809 AT-ATAATAT-AAAATA
1 ATAATAATATAAAAATA
*
58412824 ATAATAATTTAAAAAT
1 ATAATAATATAAAAAT
58412840 CCAATCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 10 0.37
16 12 0.44
17 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATATAAAAATA
Found at i:58439984 original size:17 final size:17
Alignment explanation
Indices: 58439962--58439996 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58439952 CAATCTATAA
58439962 TGACAATGAATATATGC
1 TGACAATGAATATATGC
58439979 TGACAATGAATATATGC
1 TGACAATGAATATATGC
58439996 T
1 T
58439997 TAAATGTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (17 bp):
TGACAATGAATATATGC
Found at i:58441911 original size:13 final size:12
Alignment explanation
Indices: 58441876--58441913 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58441866 ATTAAAAAAA
58441876 TTGTTGTTTTTGT
1 TTGTTGTTTTT-T
*
58441889 TTGTTG-TTTTC
1 TTGTTGTTTTTT
58441900 TTGTTGTTTTTT
1 TTGTTGTTTTTT
58441912 TT
1 TT
58441914 TTTTTACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 6 0.27
12 10 0.45
13 6 0.27
ACGTcount: A:0.00, C:0.03, G:0.18, T:0.79
Consensus pattern (12 bp):
TTGTTGTTTTTT
Found at i:58443086 original size:20 final size:22
Alignment explanation
Indices: 58443047--58443087 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
58443037 TGTAACTTTC
*
58443047 TTTATACATTCTTTAGAATATT
1 TTTATACATTCTTTAAAATATT
58443069 TTTATA-ATT-TTTAAAATAT
1 TTTATACATTCTTTAAAATAT
58443088 ATTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTATACATTCTTTAAAATATT
Found at i:58444751 original size:2 final size:2
Alignment explanation
Indices: 58444734--58444857 Score: 125
Period size: 2 Copynumber: 65.0 Consensus size: 2
58444724 AAGAGACTAT
* * * * *
58444734 GA GA GA GG GA GG GA GA GA GA GG GA GG GA GA GA GA GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
58444776 GA GA GA GA GA GA GA GA GA GA GA -A G- GA -A GA GG GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
58444815 GA GA G- GA GA GA G- GA G- GG GA GA GA GA TA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
58444854 GA GA
1 GA GA
58444858 TTAAATGGAA
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
1 6 0.06
2 93 0.94
ACGTcount: A:0.43, C:0.00, G:0.56, T:0.01
Consensus pattern (2 bp):
GA
Found at i:58447175 original size:27 final size:27
Alignment explanation
Indices: 58447144--58447214 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
58447134 CTAAGAAATG
58447144 CCTTTGTGGCATACTCTGAAAAGAATA
1 CCTTTGTGGCATACTCTGAAAAGAATA
* * ** *
58447171 CCTTTGTGGCAAATTCTGAATGGAATG
1 CCTTTGTGGCATACTCTGAAAAGAATA
*
58447198 CCTTGGTGGCATACTCT
1 CCTTTGTGGCATACTCT
58447215 ATATGATTGC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (27 bp):
CCTTTGTGGCATACTCTGAAAAGAATA
Found at i:58449392 original size:29 final size:28
Alignment explanation
Indices: 58449360--58449421 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
58449350 AAAAAGCTGT
58449360 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** * *
58449389 TTTTTTGATTATTTACCGGAATGGTCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
58449417 TTTTT
1 TTTTT
58449422 CGAGAAATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:58449873 original size:105 final size:106
Alignment explanation
Indices: 58449751--58449951 Score: 332
Period size: 105 Copynumber: 1.9 Consensus size: 106
58449741 TCATGTAAAA
*
58449751 AATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAAAATGCTATTTGAG
1 AATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAAATGCTATTTGAG
*
58449816 AAGAAATTGTGAAATCGTGCCCTCATGGACGTGATTTTACT
66 AAGAAATTGTGAAATCGCGCCCTCATGGACGTGATTTTACT
* * *
58449857 AATAA-TTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTTTACCATAATGCTATTTGAG
1 AATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAAATGCTATTTGAG
* *
58449921 AAGAAATTGTGAAATTGCGCCCTCGTGGACG
66 AAGAAATTGTGAAATCGCGCCCTCATGGACG
58449952 CAATTTTGCT
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
105 83 0.94
106 5 0.06
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (106 bp):
AATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAAAATGCTATTTGAG
AAGAAATTGTGAAATCGCGCCCTCATGGACGTGATTTTACT
Found at i:58453092 original size:10 final size:10
Alignment explanation
Indices: 58453077--58453101 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
58453067 CAAATCTAAT
58453077 ATTATGTAAA
1 ATTATGTAAA
58453087 ATTATGTAAA
1 ATTATGTAAA
58453097 ATTAT
1 ATTAT
58453102 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:58453184 original size:29 final size:29
Alignment explanation
Indices: 58453150--58453340 Score: 274
Period size: 29 Copynumber: 6.3 Consensus size: 29
58453140 AAATTATGTA
58453150 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
58453179 AAATTAGGTTAGGGTTTAGGGTTTTAAGGTTTTTAATT
1 AAATTAGGTTAGGG-TTA--G------GGTTTTTAATT
*
58453217 AAATTAGGTTAGAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
58453246 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
58453275 AAATTAGGTTAGGGTTAGGATTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
58453304 AAATTAGGTTAGGGTTAGGGCTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
58453333 AAATTAGG
1 AAATTAGG
58453341 GTGTTTATTA
Statistics
Matches: 148, Mismatches: 5, Indels: 18
0.87 0.03 0.11
Matches are distributed among these distances:
29 116 0.78
30 3 0.02
32 1 0.01
35 1 0.01
37 3 0.02
38 24 0.16
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:58453213 original size:38 final size:37
Alignment explanation
Indices: 58453153--58453240 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 37
58453143 TTATGTAAAA
*
58453153 TTAG-GTTAGGG--TTAGGGTTTTTAATTAAATTAGG
1 TTAGAGTTAGGGTTTTAAGGTTTTTAATTAAATTAGG
*
58453187 TTAGGGTTTAGGGTTTTAAGGTTTTTAATTAAATTAGG
1 TTAGAG-TTAGGGTTTTAAGGTTTTTAATTAAATTAGG
58453225 TTAGAGTTAGGGTTTT
1 TTAGAGTTAGGGTTTT
58453241 TAATTAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
34 4 0.08
35 1 0.02
36 6 0.12
37 10 0.21
38 27 0.56
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (37 bp):
TTAGAGTTAGGGTTTTAAGGTTTTTAATTAAATTAGG
Found at i:58453243 original size:38 final size:38
Alignment explanation
Indices: 58453168--58453240 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
58453158 TTAGGGTTAG
*
58453168 GGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTAA
1 GGTTTTTAATTAAATTAGGTTAGAGTTTAGGGTTTTAA
58453206 GGTTTTTAATTAAATTAGGTTAGAG-TTAGGGTTTT
1 GGTTTTTAATTAAATTAGGTTAGAGTTTAGGGTTTT
58453241 TAATTAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 10 0.29
38 24 0.71
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (38 bp):
GGTTTTTAATTAAATTAGGTTAGAGTTTAGGGTTTTAA
Found at i:58453452 original size:25 final size:25
Alignment explanation
Indices: 58453344--58453528 Score: 83
Period size: 25 Copynumber: 7.7 Consensus size: 25
58453334 AATTAGGGTG
*
58453344 TTTATTATATCAAATAGAACTTCTAT
1 TTTATTACATCAAATA-AACTTCTAT
*
58453370 TTTATTATATCAAAT-AA-TATC-A-
1 TTTATTACATCAAATAAACT-TCTAT
** * *
58453392 -AAATAAC-TCGAAA-AAATTTCTAT
1 TTTATTACATC-AAATAAACTTCTAT
* *
58453415 GTCTATTATATCAAATAAACTTCTAT
1 -TTTATTACATCAAATAAACTTCTAT
58453441 TTTATTACATCAAAT-AA-TATC-A-
1 TTTATTACATCAAATAAACT-TCTAT
** * *
58453463 -AAATAAC-TCGAAA-AAATTTCTAT
1 TTTATTACATC-AAATAAACTTCTAT
**
58453486 GCATATTACATCAAATAAACTTCTAT
1 -TTTATTACATCAAATAAACTTCTAT
58453512 TTTATTACATCAAATAA
1 TTTATTACATCAAATAA
58453529 TAAATTTAAA
Statistics
Matches: 120, Mismatches: 19, Indels: 41
0.67 0.11 0.23
Matches are distributed among these distances:
20 4 0.03
21 21 0.17
22 4 0.03
23 4 0.03
24 8 0.07
25 42 0.35
26 37 0.31
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.39
Consensus pattern (25 bp):
TTTATTACATCAAATAAACTTCTAT
Found at i:58453453 original size:71 final size:71
Alignment explanation
Indices: 58453346--58453530 Score: 327
Period size: 71 Copynumber: 2.6 Consensus size: 71
58453336 TTAGGGTGTT
*
58453346 TATTATATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTATATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
58453411 CTATGTC-
65 CTATG-CA
58453418 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
1 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
58453483 TATGCA
66 TATGCA
*
58453489 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATA
58453531 AATTTAAATA
Statistics
Matches: 110, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
70 1 0.01
71 95 0.86
72 14 0.13
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (71 bp):
TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCA
Found at i:58454626 original size:7 final size:7
Alignment explanation
Indices: 58454616--58454640 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58454606 TTATATACAT
58454616 AATACTA
1 AATACTA
58454623 AATACTA
1 AATACTA
58454630 AATACTA
1 AATACTA
58454637 AATA
1 AATA
58454641 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:58455647 original size:22 final size:23
Alignment explanation
Indices: 58455594--58455649 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
58455584 CCCGTTTTTA
* * *
58455594 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
58455617 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
58455639 ATTAAAATTAA
1 ATTAAAATTAA
58455650 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:58455662 original size:16 final size:16
Alignment explanation
Indices: 58455625--58455664 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
58455615 TTAATAAAAT
* *
58455625 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
58455641 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
58455657 TAAAATTA
1 TAAAATTA
58455665 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:58455744 original size:59 final size:59
Alignment explanation
Indices: 58455681--58455844 Score: 310
Period size: 59 Copynumber: 2.8 Consensus size: 59
58455671 TATTAATTGC
58455681 TAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTAT
1 TAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTAT
*
58455740 TAATTGTATTAATTGTTGTAATAAAATCTAACATCTGATTAGTAAATTTATCAAATTAT
1 TAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTAT
*
58455799 TAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 TAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
58455845 ACAAACTTGA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 102 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (59 bp):
TAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTAT
Found at i:58455951 original size:22 final size:24
Alignment explanation
Indices: 58455911--58455954 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
58455901 AAATAAACTT
58455911 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
58455935 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
58455955 AATATTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:58456444 original size:29 final size:28
Alignment explanation
Indices: 58456402--58456465 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
58456392 GCCATTGATG
*
58456402 AAAATATAAAAAAAATTAAAATTATTTTT
1 AAAAAATAAAAAAAATTAAAATTA-TTTT
* *
58456431 AAAAAATATAAAAAATTTAAATTATTTT
1 AAAAAATAAAAAAAATTAAAATTATTTT
58456459 AAAAAAT
1 AAAAAAT
58456466 GAAATTGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
AAAAAATAAAAAAAATTAAAATTATTTT
Found at i:58456448 original size:20 final size:20
Alignment explanation
Indices: 58456411--58456448 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
58456401 GAAAATATAA
*
58456411 AAAAAATTAAAATTATTTTT
1 AAAAAATTAAAATAATTTTT
58456431 AAAAAATATAAAA-AATTT
1 AAAAAAT-TAAAATAATTT
58456449 AAATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATTAAAATAATTTTT
Found at i:58456576 original size:12 final size:12
Alignment explanation
Indices: 58456559--58456583 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58456549 TTTGAGAGAG
58456559 TTGGAAGGAAAT
1 TTGGAAGGAAAT
58456571 TTGGAAGGAAAT
1 TTGGAAGGAAAT
58456583 T
1 T
58456584 GAGAGGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (12 bp):
TTGGAAGGAAAT
Found at i:58458210 original size:9 final size:9
Alignment explanation
Indices: 58458196--58458220 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
58458186 TATAGTTTGA
58458196 TATTCGAAT
1 TATTCGAAT
58458205 TATTCGAAT
1 TATTCGAAT
58458214 TATTCGA
1 TATTCGA
58458221 GTTAAATTAT
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:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:58458230 original size:14 final size:14
Alignment explanation
Indices: 58458211--58458237 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58458201 GAATTATTCG
58458211 AATTATTCGAGTTA
1 AATTATTCGAGTTA
58458225 AATTATTCGAGTT
1 AATTATTCGAGTT
58458238 TTGCTCACCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (14 bp):
AATTATTCGAGTTA
Found at i:58458563 original size:20 final size:21
Alignment explanation
Indices: 58458538--58458601 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
58458528 AAATATAAAA
*
58458538 TTTGAAATTTTTATAAA-TAT
1 TTTGAAATTTTTAAAAATTAT
58458558 TTTG-AA-TTTTAAAAATTAT
1 TTTGAAATTTTTAAAAATTAT
* *
58458577 TTTTAACTTTTTAGAAAATTAT
1 TTTGAAATTTTTA-AAAATTAT
58458599 TTT
1 TTT
58458602 TATTTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 8 0.22
19 8 0.22
20 5 0.14
21 5 0.14
22 11 0.30
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTGAAATTTTTAAAAATTAT
Found at i:58458615 original size:19 final size:19
Alignment explanation
Indices: 58458545--58458615 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
58458535 AAATTTGAAA
* *
58458545 TTTTTATAAA-TATTTTGAA
1 TTTTTA-AAATTATTTTTAT
*
58458564 TTTTAAAAATTATTTTTAACT
1 TTTTTAAAATTATTTTT-A-T
*
58458585 TTTTAGAAAATTATTTTTAT
1 TTTT-TAAAATTATTTTTAT
*
58458605 TTTTTATAATT
1 TTTTTAAAATT
58458616 TTTGTTGAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.07
19 16 0.38
20 6 0.14
21 5 0.12
22 12 0.29
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTAAAATTATTTTTAT
Found at i:58461458 original size:102 final size:102
Alignment explanation
Indices: 58461282--58461479 Score: 387
Period size: 102 Copynumber: 1.9 Consensus size: 102
58461272 AAGGAGACCG
58461282 GAGTCGAGAGTTACACGGATATCTAACAAGAAGATGGGTACGGCTTTGGTTGGGAATCTTGGTAT
1 GAGTCGAGAGTTACACGGATATCTAACAAGAAGATGGGTACGGCTTTGGTTGGGAATCTTGGTAT
58461347 AGTTGCTGGCCACTAAGAGTTTGAGGTGTCAGAACCA
66 AGTTGCTGGCCACTAAGAGTTTGAGGTGTCAGAACCA
58461384 GAGTCGAGAGTTACACGGATATCTAACAAGAAGATGGGTACGGCTTTGGTTGGGAATCTTGGTAT
1 GAGTCGAGAGTTACACGGATATCTAACAAGAAGATGGGTACGGCTTTGGTTGGGAATCTTGGTAT
*
58461449 AGTTGCTGGCTACTAAGAGTTTGAGGTGTCA
66 AGTTGCTGGCCACTAAGAGTTTGAGGTGTCA
58461480 AATGCATTCT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.28
Consensus pattern (102 bp):
GAGTCGAGAGTTACACGGATATCTAACAAGAAGATGGGTACGGCTTTGGTTGGGAATCTTGGTAT
AGTTGCTGGCCACTAAGAGTTTGAGGTGTCAGAACCA
Found at i:58462784 original size:23 final size:24
Alignment explanation
Indices: 58462758--58462811 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
58462748 AAATAGTTAA
58462758 ATATATATA-ACTATTAATA-TATC
1 ATATATATATACTATT-ATAGTATC
* *
58462781 ATATAT-TATAGTATTATAGTATT
1 ATATATATATACTATTATAGTATC
58462804 ATATATAT
1 ATATATAT
58462812 TGATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 20 0.77
24 1 0.04
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (24 bp):
ATATATATATACTATTATAGTATC
Found at i:58465708 original size:41 final size:41
Alignment explanation
Indices: 58465651--58465731 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
58465641 AAATTTTTAG
*
58465651 ACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAATTCAA
1 ACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAATTCAA
*
58465692 ACTTAAAGTCTAGCAGGCTTAAGGTCGGTGATATAATTCA
1 ACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAATTCA
58465732 GAAGGCTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (41 bp):
ACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAATTCAA
Found at i:58465749 original size:28 final size:28
Alignment explanation
Indices: 58465706--58465760 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
58465696 AAAGTCTAGC
58465706 AGGCTTAAGGTCGGTGATATAATTCAGA
1 AGGCTTAAGGTCGGTGATATAATTCAGA
58465734 AGGCTTAAGG-CTGGTGATATAATTCAG
1 AGGCTTAAGGTC-GGTGATATAATTCAG
58465761 CCTTAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (28 bp):
AGGCTTAAGGTCGGTGATATAATTCAGA
Found at i:58465780 original size:69 final size:69
Alignment explanation
Indices: 58465669--58465802 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 69
58465659 TCTAGCAGGT
* *
58465669 TTAAGGCCGGTGATATAATTCAAACTTAAAGTCTAGCAGGCTTAAGGTCGGTGATATAATTCAGA
1 TTAAGGCCGGTGATATAATTCAAACTTAAAATCTAGCAGGCTTAAGGCCGGTGATATAATTCAGA
58465734 AGGC
66 AGGC
* **
58465738 TTAAGGCTGGTGATATAATTCAGCCTTAAAATCTAGCAGGCTTAAGGCCGGTGATATAATTCAGA
1 TTAAGGCCGGTGATATAATTCAAACTTAAAATCTAGCAGGCTTAAGGCCGGTGATATAATTCAGA
58465803 CTTAAAGTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (69 bp):
TTAAGGCCGGTGATATAATTCAAACTTAAAATCTAGCAGGCTTAAGGCCGGTGATATAATTCAGA
AGGC
Found at i:58465852 original size:41 final size:41
Alignment explanation
Indices: 58465734--58465861 Score: 157
Period size: 41 Copynumber: 3.1 Consensus size: 41
58465724 ATAATTCAGA
* * * *
58465734 AGGCTTAAGGCTGGTGATATAATTCAGCCTTAAAATCTAGC
1 AGGCTTAAGGCCGGTGATATAATTCAGACTTAAAGTCCAGC
*
58465775 AGGCTTAAGGCCGGTGATATAATTCAGACTTAAAGTCCAGT
1 AGGCTTAAGGCCGGTGATATAATTCAGACTTAAAGTCCAGC
* * * * * *
58465816 AGGTTTAAGGCCGGTGAAATAATTCGGACTTTAAGTCTAAC
1 AGGCTTAAGGCCGGTGATATAATTCAGACTTAAAGTCCAGC
58465857 AGGCT
1 AGGCT
58465862 AATTGTTGGT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (41 bp):
AGGCTTAAGGCCGGTGATATAATTCAGACTTAAAGTCCAGC
Found at i:58477000 original size:2 final size:2
Alignment explanation
Indices: 58476993--58477034 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
58476983 TGAATATGTA
58476993 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
58477035 ATGGTAATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:58479393 original size:46 final size:46
Alignment explanation
Indices: 58479326--58479578 Score: 433
Period size: 46 Copynumber: 5.6 Consensus size: 46
58479316 TTTGAGTACT
*
58479326 TCTGATCAAGTGACAAAGTGATGAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
58479372 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
58479418 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-TCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
58479463 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
58479509 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
58479554 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
58479579 ATCATACGTA
Statistics
Matches: 199, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
43 12 0.06
44 5 0.03
45 62 0.31
46 120 0.60
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:58479482 original size:91 final size:91
Alignment explanation
Indices: 58479326--58479578 Score: 438
Period size: 91 Copynumber: 2.8 Consensus size: 91
58479316 TTTGAGTACT
* *
58479326 TCTGATCAAGTGACAAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TCTAGCTACACTTATCTGATCAAGTGACAAAGT
58479391 GATAAGTGGTAGCTTTAGCTACACTTA
65 GATAAGTGGTAGCTTTAGCTACACTTA
*
58479418 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
58479483 ATAAGTGGTAGCTTTAGCTACACTTA
66 ATAAGTGGTAGCTTTAGCTACACTTA
* *
58479509 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGAC-AAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
58479572 ATAAGTG
66 ATAAGTG
58479579 ATCATACGTA
Statistics
Matches: 155, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
89 12 0.08
90 5 0.03
91 109 0.70
92 29 0.19
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGGTAGCTTTAGCTACACTTA
Found at i:58479529 original size:137 final size:134
Alignment explanation
Indices: 58479326--58479578 Score: 443
Period size: 137 Copynumber: 1.9 Consensus size: 134
58479316 TTTGAGTACT
*
58479326 TCTGATCAAGTGACAAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
58479391 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGTCTAGCT
66 GATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AG-GAAAAAGTGATAAGTGGTAGTCTAGCT
58479456 ACACTTA
128 ACACTTA
58479463 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
58479528 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAAGTG
66 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGAAAAAGTGATAAGTG
58479579 ATCATACGTA
Statistics
Matches: 112, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
134 14 0.12
135 2 0.02
136 19 0.17
137 77 0.69
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (134 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGAAAAAGTGATAAGTGGTAGTCTAGCTACA
CTTA
Found at i:58492215 original size:3 final size:3
Alignment explanation
Indices: 58492207--58492258 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
58492197 TGTTTATTTA
*
58492207 TAT TAT TAT TACT GTAT TAT TAT TAG T-T TAT TAT TA- TAT TAT ATAT
1 TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
58492253 TAT TAT
1 TAT TAT
58492259 ACTTACTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 3 0.07
3 32 0.76
4 5 0.12
5 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:58492226 original size:14 final size:14
Alignment explanation
Indices: 58492207--58492243 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
58492197 TGTTTATTTA
58492207 TATTATTATTACTG
1 TATTATTATTACTG
* *
58492221 TATTATTATTAGTT
1 TATTATTATTACTG
58492235 TATTATTAT
1 TATTATTAT
58492244 ATTATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (14 bp):
TATTATTATTACTG
Found at i:58492229 original size:22 final size:22
Alignment explanation
Indices: 58492179--58492258 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
58492169 TTTAGTTTTT
* *
58492179 TTATTATATTGTTAATACTGT-
1 TTATTATATTATTATTACTGTA
58492200 TTATTTATATTATTATTACTGTA
1 TTA-TTATATTATTATTACTGTA
* * *
58492223 TTATTATTAGT-TTATTATTATA
1 TTATTA-TATTATTATTACTGTA
58492245 TTA-TATATTATTAT
1 TTATTATATTATTAT
58492259 ACTTACTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
20 3 0.06
21 9 0.18
22 31 0.63
23 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (22 bp):
TTATTATATTATTATTACTGTA
Found at i:58492237 original size:11 final size:13
Alignment explanation
Indices: 58492207--58492254 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 13
58492197 TGTTTATTTA
58492207 TATTATTATTACTG
1 TATTATTATTAC-G
58492221 TATTATTATTA-G
1 TATTATTATTACG
58492233 T-TTATTATTA--
1 TATTATTATTACG
58492243 TATTATATATTA
1 TATTAT-TATTA
58492255 TTATACTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.03
11 13 0.41
12 7 0.22
14 11 0.34
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (13 bp):
TATTATTATTACG
Found at i:58492246 original size:8 final size:8
Alignment explanation
Indices: 58492204--58492270 Score: 57
Period size: 8 Copynumber: 7.8 Consensus size: 8
58492194 TACTGTTTAT
58492204 TTATATTA
1 TTATATTA
58492212 TTATTACTGTA
1 TTA-TA-T-TA
58492223 TTATTATTA
1 TTA-TATTA
58492232 GTT-TATTA
1 -TTATATTA
58492240 TTATATTA
1 TTATATTA
58492248 -TATATTA
1 TTATATTA
58492255 TTATACTTA
1 TTATA-TTA
58492264 CTTATAT
1 -TTATAT
58492271 ATGCGTATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
7 9 0.18
8 17 0.33
9 8 0.16
10 9 0.18
11 8 0.16
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (8 bp):
TTATATTA
Found at i:58494268 original size:31 final size:30
Alignment explanation
Indices: 58494233--58494292 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
58494223 GGAGGTGGGA
*
58494233 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
58494264 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
58494293 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:58494578 original size:9 final size:9
Alignment explanation
Indices: 58494561--58494591 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
58494551 TCGAGTTGAT
58494561 TCGAATAAC
1 TCGAATAAC
*
58494570 TCGATTAAC
1 TCGAATAAC
58494579 TCGAATAAC
1 TCGAATAAC
58494588 TCGA
1 TCGA
58494592 TTCGTTTAAC
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:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:58498910 original size:24 final size:25
Alignment explanation
Indices: 58498860--58498912 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
58498850 CTTATGAGCG
*
58498860 TCCCGATATATGGCTCTCTGGAGCT
1 TCCCGATATATGGCTCTCTGGAACT
*
58498885 TCCCGATAT-TGGCTCGT-TTGAACT
1 TCCCGATATATGGCTC-TCTGGAACT
58498909 TCCC
1 TCCC
58498913 AATTACAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.15, C:0.30, G:0.21, T:0.34
Consensus pattern (25 bp):
TCCCGATATATGGCTCTCTGGAACT
Found at i:58509660 original size:25 final size:25
Alignment explanation
Indices: 58509632--58509736 Score: 97
Period size: 25 Copynumber: 4.2 Consensus size: 25
58509622 CTGATATTTG
* *
58509632 GCTCGCATGAGCTGCTCGATATACA
1 GCTCGCATGAGCTTCTCGTTATACA
58509657 GCTCG-ATTGAGCTTCTCGTTATACA
1 GCTCGCA-TGAGCTTCTCGTTATACA
** **
58509682 GCTTACATGAGCTTCTCGTTATATG
1 GCTCGCATGAGCTTCTCGTTATACA
* * *
58509707 GCTCGAAAGAGCTTTTCGTT-TACA
1 GCTCGCATGAGCTTCTCGTTATACA
58509731 TGCTCG
1 -GCTCG
58509737 TATGGACATA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
24 3 0.05
25 60 0.94
26 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (25 bp):
GCTCGCATGAGCTTCTCGTTATACA
Found at i:58515348 original size:7 final size:7
Alignment explanation
Indices: 58515331--58515363 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
58515321 TCTTTTTCTT
58515331 CTTCT-C
1 CTTCTCC
58515337 CTTCTCC
1 CTTCTCC
58515344 CTTCTCC
1 CTTCTCC
58515351 CTTCTCC
1 CTTCTCC
58515358 CTTCTC
1 CTTCTC
58515364 TTTATCCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (7 bp):
CTTCTCC
Found at i:58516817 original size:15 final size:15
Alignment explanation
Indices: 58516797--58516828 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
58516787 TAAAAGTTTC
58516797 TAAAAAATTACTAAAA
1 TAAAAAATT-CTAAAA
58516813 TAAAAAATTCTAAAA
1 TAAAAAATTCTAAAA
58516828 T
1 T
58516829 TTGAAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAAATTCTAAAA
Found at i:58521533 original size:28 final size:28
Alignment explanation
Indices: 58521493--58521549 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
58521483 ATAGAAAAGA
58521493 CTCAAAGCACAAGCTAAACTAAGCAATT
1 CTCAAAGCACAAGCTAAACTAAGCAATT
*
58521521 CTCAAAGCACAAGCTAAACTAAGCCATT
1 CTCAAAGCACAAGCTAAACTAAGCAATT
58521549 C
1 C
58521550 AACACCCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.18
Consensus pattern (28 bp):
CTCAAAGCACAAGCTAAACTAAGCAATT
Found at i:58529212 original size:7 final size:7
Alignment explanation
Indices: 58529190--58529241 Score: 72
Period size: 7 Copynumber: 7.4 Consensus size: 7
58529180 ACGTAAGCAT
58529190 AAATCAAA
1 AAAT-AAA
58529198 ATAATAAA
1 A-AATAAA
58529206 AAAT-AA
1 AAATAAA
58529212 AAAT-AA
1 AAATAAA
58529218 AAATAAA
1 AAATAAA
58529225 AAATAAA
1 AAATAAA
58529232 AAATAAA
1 AAATAAA
58529239 AAA
1 AAA
58529242 GGGAAGCGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.29
7 22 0.52
8 5 0.12
9 3 0.07
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:58529213 original size:6 final size:6
Alignment explanation
Indices: 58529204--58529240 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
58529194 CAAAATAATA
58529204 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT -AAAAAT AAAAA
58529241 AGGGAAGCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:58529216 original size:13 final size:13
Alignment explanation
Indices: 58529200--58529240 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
58529190 AAATCAAAAT
58529200 AATAAAAAATAAA
1 AATAAAAAATAAA
58529213 AAT-AAAAATAAAA
1 AATAAAAAAT-AAA
58529226 AATAAAAAATAAA
1 AATAAAAAATAAA
58529239 AA
1 AA
58529241 AGGGAAGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.23
13 14 0.54
14 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:58529217 original size:26 final size:25
Alignment explanation
Indices: 58529190--58529240 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 25
58529180 ACGTAAGCAT
58529190 AAATCAAAATAATAAAAAATAAAAATAA
1 AAAT-AAAA-AATAAAAAATAAAAAT-A
58529218 AAATAAAAAATAAAAAATAAAAA
1 AAATAAAAAATAAAAAATAAAAA
58529241 AGGGAAGCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 15 0.65
27 4 0.17
28 4 0.17
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (25 bp):
AAATAAAAAATAAAAAATAAAAATA
Found at i:58529659 original size:3 final size:3
Alignment explanation
Indices: 58529651--58529683 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
58529641 TCATCTTCCA
58529651 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
58529684 TCCGTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:58538727 original size:18 final size:18
Alignment explanation
Indices: 58538704--58538746 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
58538694 ATAATGTTAT
*
58538704 ATAATATTAATTTAATTA
1 ATAATATTAAGTTAATTA
*
58538722 ATAATATTAAGTTATTTA
1 ATAATATTAAGTTAATTA
*
58538740 ATTATAT
1 ATAATAT
58538747 CAGATGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATAATATTAAGTTAATTA
Found at i:58542316 original size:5 final size:5
Alignment explanation
Indices: 58542306--58542331 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
58542296 TAACATTAGG
58542306 CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT C
58542332 TTAGACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:58545543 original size:18 final size:18
Alignment explanation
Indices: 58545520--58545556 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
58545510 TTACTTTTAT
*
58545520 TATTATTGTTATTGGTAC
1 TATTATTATTATTGGTAC
*
58545538 TATTATTATTTTTGGTAC
1 TATTATTATTATTGGTAC
58545556 T
1 T
58545557 TCCCTAATAA
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:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTGGTAC
Found at i:58547836 original size:16 final size:15
Alignment explanation
Indices: 58547810--58547840 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
58547800 CTGTGTCCTT
58547810 TGATTTTGTTTTCTA
1 TGATTTTGTTTTCTA
58547825 TGATTCTTGTTTTCTA
1 TGATT-TTGTTTTCTA
58547841 CAGTTAGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.65
Consensus pattern (15 bp):
TGATTTTGTTTTCTA
Found at i:58551216 original size:3 final size:3
Alignment explanation
Indices: 58551208--58551238 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
58551198 TGCCCTTGAA
58551208 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
58551239 TCTGGTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:58552477 original size:32 final size:32
Alignment explanation
Indices: 58552441--58552505 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
58552431 CTTCATAGAC
* *
58552441 TTAGCTAACTTTAATGTAAAAATGTGACTGAA
1 TTAGCTAACTTGAATGTAAAAATGAGACTGAA
*
58552473 TTAGCTAACTTGAATGTAAAAATGAGGCTGAA
1 TTAGCTAACTTGAATGTAAAAATGAGACTGAA
58552505 T
1 T
58552506 AAGTTTAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (32 bp):
TTAGCTAACTTGAATGTAAAAATGAGACTGAA
Found at i:58556829 original size:159 final size:159
Alignment explanation
Indices: 58556540--58556860 Score: 642
Period size: 159 Copynumber: 2.0 Consensus size: 159
58556530 TGCTGATATA
58556540 GCTCTAAAGTTTCGATCTGTTTCAAACTAATCGAATCTCCCAAGGGATTTCTGCCTACTGGAGGA
1 GCTCTAAAGTTTCGATCTGTTTCAAACTAATCGAATCTCCCAAGGGATTTCTGCCTACTGGAGGA
58556605 CTAAAATGGAGTGGCAATTATGGAAAACCAGTTTATCACATGGCCCTCCAATTTGATCTAATAAT
66 CTAAAATGGAGTGGCAATTATGGAAAACCAGTTTATCACATGGCCCTCCAATTTGATCTAATAAT
58556670 ACCAAAGATGTGCCTCACCCATGTGGAAG
131 ACCAAAGATGTGCCTCACCCATGTGGAAG
58556699 GCTCTAAAGTTTCGATCTGTTTCAAACTAATCGAATCTCCCAAGGGATTTCTGCCTACTGGAGGA
1 GCTCTAAAGTTTCGATCTGTTTCAAACTAATCGAATCTCCCAAGGGATTTCTGCCTACTGGAGGA
58556764 CTAAAATGGAGTGGCAATTATGGAAAACCAGTTTATCACATGGCCCTCCAATTTGATCTAATAAT
66 CTAAAATGGAGTGGCAATTATGGAAAACCAGTTTATCACATGGCCCTCCAATTTGATCTAATAAT
58556829 ACCAAAGATGTGCCTCACCCATGTGGAAG
131 ACCAAAGATGTGCCTCACCCATGTGGAAG
58556858 GCT
1 GCT
58556861 TCCAAACTTA
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 162 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (159 bp):
GCTCTAAAGTTTCGATCTGTTTCAAACTAATCGAATCTCCCAAGGGATTTCTGCCTACTGGAGGA
CTAAAATGGAGTGGCAATTATGGAAAACCAGTTTATCACATGGCCCTCCAATTTGATCTAATAAT
ACCAAAGATGTGCCTCACCCATGTGGAAG
Found at i:58564477 original size:35 final size:35
Alignment explanation
Indices: 58564428--58564500 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
58564418 TTAATATTCT
* *
58564428 TTTATTATCTTTATAAATACATTTTTTACAAAACA
1 TTTATTATCTTTATAAATACATTTTTAAAAAAACA
* *
58564463 TTTATATATC-TTATATATATATTTTTAAAAAAACA
1 TTTAT-TATCTTTATAAATACATTTTTAAAAAAACA
58564498 TTT
1 TTT
58564501 GTTTTACTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (35 bp):
TTTATTATCTTTATAAATACATTTTTAAAAAAACA
Found at i:58576240 original size:50 final size:50
Alignment explanation
Indices: 58576181--58576539 Score: 235
Period size: 50 Copynumber: 7.2 Consensus size: 50
58576171 AAAAGTAAAA
58576181 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAAC
* * * *** * * * ** *
58576231 AGATTGAAGCTACGACGGCAGATCTGGTTTCCCT-GATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAATGGAAC
**
58576281 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAAC
* * *** *** * * * * *
58576331 AGATTGAAGCTACGACGAAAGATCTGGTTTCCCT-GATAGTACAAT-TAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAATGGAAC
* *
58576380 AGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAAC
* * *** * ** *
58576430 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCT-G-ATGTTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCA-G-TGCAATGGAAC
* * * * **
58576480 AGATTGAAGCCACAAAGGCAGATCTTACTTTCCTGA-CGGTGCGGTGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTAC-TTCCTTAGCAGTGCAATGGAAC
58576530 AGATTGAAGC
1 AGATTGAAGC
58576540 TACGATAGCG
Statistics
Matches: 218, Mismatches: 81, Indels: 20
0.68 0.25 0.06
Matches are distributed among these distances:
48 1 0.00
49 37 0.17
50 174 0.80
51 6 0.03
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAAC
Found at i:58576531 original size:199 final size:199
Alignment explanation
Indices: 58576178--58576544 Score: 628
Period size: 199 Copynumber: 1.8 Consensus size: 199
58576168 TTGAAAAGTA
58576178 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGATTGAAGCTA
* *
58576243 CGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTA
66 CGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAAAGGCAGATCTTA
*
58576308 CTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGACGAAAGATCTGGTTTCCCTGATAGTAC
131 CTTCCTGAGCAGTGCAGCGGAACAGATTGAAGCTACGACGAAAGATCTGGTTTCCCTGATAGTAC
58576373 AATT
196 AATT
* *
58576377 AAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGATTGAAGCTA
* *
58576442 CGACGGCGGATCTGGTTTCCCTGATGTTGCAATTAAAAAGATTGAAGCCACAAAGGCAGATCTTA
66 CGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAAAGGCAGATCTTA
* * *
58576507 CTTTCCTGA-CGGTGCGGTGGAACAGATTGAAGCTACGA
131 C-TTCCTGAGCAGTGCAGCGGAACAGATTGAAGCTACGA
58576545 TAGCGGATCT
Statistics
Matches: 157, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
199 151 0.96
200 6 0.04
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (199 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGATTGAAGCTA
CGACGGCAGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAAAGGCAGATCTTA
CTTCCTGAGCAGTGCAGCGGAACAGATTGAAGCTACGACGAAAGATCTGGTTTCCCTGATAGTAC
AATT
Found at i:58576588 original size:100 final size:100
Alignment explanation
Indices: 58576176--58576562 Score: 598
Period size: 100 Copynumber: 3.9 Consensus size: 100
58576166 GGTTGAAAAG
*
58576176 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
58576241 TACGACGGCAGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCAGATCTGGTTTCCCTGATATTGCAAT
*
58576276 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
** * *
58576341 TACGACGAAAGATCTGGTTTCCCTGATAGTACAAT
66 TACGACGGCAGATCTGGTTTCCCTGATATTGCAAT
*
58576376 T-AAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
* *
58576440 TACGACGGCGGATCTGGTTTCCCTGATGTTGCAAT
66 TACGACGGCAGATCTGGTTTCCCTGATATTGCAAT
* * * * *
58576475 TAAAAAGATTGAAGCCACAAAGGCAGATCTTACTTTCCTGA-CGGTGCGGTGGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTAC-TTCCTTAGCAGTGCAGTGGAACAGATTGAAG
** *
58576539 CTACGATAGCGGATCTGGTTTCCC
65 CTACGACGGCAGATCTGGTTTCCC
58576563 CAACATTGCA
Statistics
Matches: 263, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
99 91 0.35
100 166 0.63
101 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
TACGACGGCAGATCTGGTTTCCCTGATATTGCAAT
Found at i:58578248 original size:21 final size:21
Alignment explanation
Indices: 58578221--58578262 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58578211 TTTTTTTTCC
*
58578221 TTTTTTTGTTTTTCTAAATTCG
1 TTTTTTT-TGTTTCTAAATTCG
*
58578243 TTTTTTTTGTTTTTAAATTC
1 TTTTTTTTGTTTCTAAATTC
58578263 AATTCAGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTTTTTGTTTCTAAATTCG
Found at i:58578474 original size:15 final size:15
Alignment explanation
Indices: 58578454--58578484 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58578444 TTTACAAAAC
*
58578454 ATATATATATCTTTT
1 ATATATATATATTTT
58578469 ATATATATATATTTT
1 ATATATATATATTTT
58578484 A
1 A
58578485 AAAAAAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATATATATATTTT
Found at i:58579743 original size:24 final size:23
Alignment explanation
Indices: 58579699--58579743 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
58579689 GTTTTATGGC
*
58579699 TTTTAGGGTTTAGGGTGCAGGCT
1 TTTTAGGGTTTAGGGTCCAGGCT
58579722 TTTTAGGAG-TTAGGGGTCCAGG
1 TTTTAGG-GTTTA-GGGTCCAGG
58579744 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.16, C:0.09, G:0.40, T:0.36
Consensus pattern (23 bp):
TTTTAGGGTTTAGGGTCCAGGCT
Found at i:58580006 original size:123 final size:123
Alignment explanation
Indices: 58579799--58580029 Score: 322
Period size: 123 Copynumber: 1.9 Consensus size: 123
58579789 CGCTTCTACT
* * * *
58579799 AGGATGCTATTTAAGAAGAAATTGTAAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGTGGTC
1 AGGATGCTATATAAGAAGAAATTGTAAAATAGCGCCCTCGTAGACGCGATTTCGCTACAGTGGTC
*
58579864 ATGTGAGAAATAAT-TTTTTTGACGTTTTCTGAGGAAATAGTATAAAATCACTGATACC
66 ATGTGAGAAATAATATTTTTTGACG-TTTCTGAGCAAATAGTATAAAATCACTGATACC
* * * *
58579922 AGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTAGACGCGATTTTGCTACAGTAGGT
1 AGGATGCTATATAAGAAGAAATTGTAAAATAGCGCCCTCGTAGACGCGATTTCGCTACAGT-GGT
*
58579987 CATGT-AGGAAATAAATTTTTTTTGACGTTTCTGAGCAAATAGT
65 CATGTGA-GAAAT-AATATTTTTTGACGTTTCTGAGCAAATAGT
58580030 GTCAAATCGC
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
123 54 0.57
124 13 0.14
125 18 0.19
126 10 0.11
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (123 bp):
AGGATGCTATATAAGAAGAAATTGTAAAATAGCGCCCTCGTAGACGCGATTTCGCTACAGTGGTC
ATGTGAGAAATAATATTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACC
Found at i:58583251 original size:28 final size:27
Alignment explanation
Indices: 58583215--58583604 Score: 208
Period size: 28 Copynumber: 13.1 Consensus size: 27
58583205 AATTAGGGTT
58583215 TTTAATTAAATAGGTTTAGGGTTTAGGG
1 TTTAATTAAATAGG-TTAGGGTTTAGGG
58583243 TTTAATTAAATTAGGTTAGGGTTTAGGTTAGGG
1 TTTAATTAAA-TAGGTTAGGG--T---TTAGGG
****
58583276 TTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAA
1 --TTTAATT-----AAA-TAGGTTAGGGTTTAGGG
58583311 TTTAATTAAATCAGGTTAGGG-TTAGGG
1 TTTAATTAAAT-AGGTTAGGGTTTAGGG
* ****
58583338 TTTTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 --TTTAATTAAATA-GG-TTAGGGTTTAGGG
****
58583369 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAT-AGGTTAGGGTTTAGGG
*
58583397 TTTAATTAAATAGGGTTAGGGCTTAGGG
1 TTTAATTAAATA-GGTTAGGGTTTAGGG
58583425 TTTAATTAAATTAGGTTAGGGTTTAGGG
1 TTTAATTAAA-TAGGTTAGGGTTTAGGG
58583453 TTTTTAATTTAATTAAATTAGGTTAGGG-TTAGGG
1 -------TTTAATTAAA-TAGGTTAGGGTTTAGGG
* ****
58583487 TTTTTAATTAAGTAGGGTTTAGGGTTTTTAA
1 --TTTAATTAAATA-GG-TTAGGGTTTAGGG
* ****
58583518 TTTAATTAAATAAGGTTAAGGTTTTTAA
1 TTTAATTAAAT-AGGTTAGGGTTTAGGG
58583546 TTTAATTAAATAGAGTTAGGGTTTAGGG
1 TTTAATTAAATAG-GTTAGGGTTTAGGG
58583574 TTTAATTAAATTAGGTTAGGGTTTAGGG
1 TTTAATTAAA-TAGGTTAGGGTTTAGGG
58583602 TTT
1 TTT
58583605 TAAATTTAAT
Statistics
Matches: 293, Mismatches: 34, Indels: 70
0.74 0.09 0.18
Matches are distributed among these distances:
27 6 0.02
28 148 0.51
29 56 0.19
30 15 0.05
31 4 0.01
33 13 0.04
34 6 0.02
35 30 0.10
38 1 0.00
40 14 0.05
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.45
Consensus pattern (27 bp):
TTTAATTAAATAGGTTAGGGTTTAGGG
Found at i:58583270 original size:12 final size:12
Alignment explanation
Indices: 58583253--58583278 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58583243 TTTAATTAAA
58583253 TTAGGTTAGGGT
1 TTAGGTTAGGGT
58583265 TTAGGTTAGGGT
1 TTAGGTTAGGGT
58583277 TT
1 TT
58583279 TTAATTAAAT
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:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (12 bp):
TTAGGTTAGGGT
Found at i:58583355 original size:91 final size:89
Alignment explanation
Indices: 58583215--58583727 Score: 482
Period size: 91 Copynumber: 5.7 Consensus size: 89
58583205 AATTAGGGTT
*
58583215 TTTAATTAAATAGGTTTAGGGTTTAGGGTTTAATTAAATTAGGTTAGGGTTTAGGTTAGGGTTTT
1 TTTAATTAAATAGG-TTAGGGTTTAGGGTTT--TT-AATTA-ATTA-GG-TTAGGTTAGGGTTTT
*
58583280 TAATTAAATTAAATTAGGTTAGGGTTTTTAA
59 TAATTTAATTAAATTAGGTTAGGGTTTTTAA
* *
58583311 TTTAATTAAATCAGGTTAGGG-TTAGGGTTTTTAATTAAGTAGG---GTTTAGGGTTTTTAATTT
1 TTTAATTAAAT-AGGTTAGGGTTTAGGGTTTTTAATTAATTAGGTTAGGTTAGGGTTTTTAATTT
*
58583372 AATTAAATAAGGTTAGGGTTTTTAA
65 AATTAAATTAGGTTAGGGTTTTTAA
*
58583397 TTTAATTAAATAGGGTTAGGGCTTAGGG--TTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAATA-GGTTAGGGTTTAGGGTTTTTAATT-AATTAGGTTA-GG-TTAGGGTTTTTAA
****
58583460 TTTAATTAAATTAGGTTAGGG-TTAGGG
62 TTTAATTAAATTAGGTTAGGGTTTTTAA
* * ** * *
58583487 TTT--TTAATTAAG-TAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTTAAGGTTTTTAATTT
1 TTTAATTAAATAGGTTAGGGTTTAGGGTTTTTAA-TTAATTAGGTTAGGTTAGGGTTTTTAATTT
****
58583549 AATTAAA-TAGAGTTAGGGTTTAGGG
65 AATTAAATTAG-GTTAGGGTTTTTAA
* ** *
58583574 TTTAATTAAATTAGGTTAGGGTTTAGGGTTTTAAATTTAATTAAATAAGGTTAGGGTTTTTAATT
1 TTTAATTAAA-TAGGTTAGGGTTTAGGGTTTTTAA-TTAATTAGGTTAGGTTAGGGTTTTTAATT
58583639 TAATTAAATTAGGTTAGGGTTTTTAA
64 TAATTAAATTAGGTTAGGGTTTTTAA
* **
58583665 TTGAATTAGGTTAGGTTA-GGTTT----TTAATTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
1 TTTAATTA-AATAGGTTAGGGTTTAGGGTT--TTTAATT-AATTAGGTTA-GGTTAGGGTTTTTA
58583725 ATT
61 ATT
58583728 AAGTAGGGTT
Statistics
Matches: 359, Mismatches: 34, Indels: 55
0.80 0.08 0.12
Matches are distributed among these distances:
85 11 0.03
86 107 0.30
87 20 0.06
88 29 0.08
89 23 0.06
90 16 0.04
91 114 0.32
92 8 0.02
93 2 0.01
95 9 0.03
96 17 0.05
97 3 0.01
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.46
Consensus pattern (89 bp):
TTTAATTAAATAGGTTAGGGTTTAGGGTTTTTAATTAATTAGGTTAGGTTAGGGTTTTTAATTTA
ATTAAATTAGGTTAGGGTTTTTAA
Found at i:58583397 original size:149 final size:148
Alignment explanation
Indices: 58583278--58583749 Score: 657
Period size: 149 Copynumber: 3.2 Consensus size: 148
58583268 GGTTAGGGTT
** *
58583278 TTTAATTAAATTAAATTA-GG-TTAGGGTTTTTAATTTAATTAAATCAGGTTAGGGTTAGGGTTT
1 TTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTAGGGTTT
58583341 TTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAATTAA
66 TTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTTA-GGTTTTTAATTTAATTAA
58583406 ATAGGGTTAGGGCTTAGGG
130 ATAGGGTTAGGGCTTAGGG
*
58583425 TTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTAGGGTTT
58583490 TTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTTAAGGTTTTTAATTTAATTAA
66 TTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTT-AGGTTTTTAATTTAATTAA
* *
58583555 ATAGAGTTAGGGTTTAGGG
130 ATAGGGTTAGGGCTTAGGG
* *
58583574 TTTAATTAAATTAGGTTAGGGTTTAGGGTTTTAAATTTAATTAAATAAGGTTAGGGTT---TTTA
1 TTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTAGGGTT-
* * ** *
58583636 ATTTAATTAAATTA-GG-TTAGGGTTTTTAATTGAATTAGGTTAGGTTAGGTTTTTAATTTAATT
65 -TTTAATT-AAGTAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTTAGGTTTTTAATTTAATT
58583699 AAATTA-GGTTAGGG-TTAGGG
128 AAA-TAGGGTTAGGGCTTAGGG
* *
58583719 TTT--TT-AATTAAG-TAGGG-TTAGGGATTTTAAT
1 TTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAAT
58583750 CAAATAATGT
Statistics
Matches: 301, Mismatches: 17, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
140 12 0.04
141 5 0.02
142 6 0.02
143 2 0.01
145 9 0.03
146 29 0.10
147 44 0.15
148 11 0.04
149 182 0.60
150 1 0.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (148 bp):
TTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTAGGGTTT
TTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATAAGGTTAGGTTTTTAATTTAATTAAA
TAGGGTTAGGGCTTAGGG
Found at i:58583627 original size:28 final size:28
Alignment explanation
Indices: 58583265--58583714 Score: 423
Period size: 28 Copynumber: 15.5 Consensus size: 28
58583255 AGGTTAGGGT
*
58583265 TTAGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGTTAGGGTTTTTAATTTAATTAAA
58583293 TTAGGTTAGGGTTTTTAATTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTTAATTAAA
* *
58583321 TCAGGTTAGGGTTAGGGTT--TTTAATT-AA
1 TTAGGTTAGGGTT---TTTAATTTAATTAAA
*
58583349 GTAGGGTTTAGGGTTTTTAATTTAATTAAA
1 TTA-GG-TTAGGGTTTTTAATTTAATTAAA
*
58583379 TAAGGTTAGGGTTTTTAATTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTTAATTAAA
* **
58583407 -TAGGGTTAGGGCTTAGGGTTTAATTAAATTAGG
1 TTA-GGTTAGGG-TT----TTTAATTTAATTAAA
58583440 TTAGGGTTTAGGGTTTTTAATTTAATTAAA
1 TTA-GG-TTAGGGTTTTTAATTTAATTAAA
*
58583470 TTAGGTTAGGGTTAGGGTT--TTTAATT-AA
1 TTAGGTTAGGGTT---TTTAATTTAATTAAA
*
58583498 GTAGGGTTTAGGGTTTTTAATTTAATTAAA
1 TTA-GG-TTAGGGTTTTTAATTTAATTAAA
* *
58583528 TAAGGTTAAGGTTTTTAATTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTTAATTAAA
* **
58583556 -TAGAGTTAGGGTTTAGGGTTTAATTAAATTAGG
1 TTAG-GTTAGGG-TT----TTTAATTTAATTAAA
*
58583589 TTAGGGTTTAGGGTTTTAAATTTAATTAAA
1 TTA-GG-TTAGGGTTTTTAATTTAATTAAA
*
58583619 TAAGGTTAGGGTTTTTAATTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTTAATTAAA
* **
58583647 TTAGGTTAGGGTTTTTAATTGAATTAGG
1 TTAGGTTAGGGTTTTTAATTTAATTAAA
58583675 TTAGGTTA-GGTTTTTAATTTAATTAAA
1 TTAGGTTAGGGTTTTTAATTTAATTAAA
58583702 TTAGGTTAGGGTT
1 TTAGGTTAGGGTT
58583715 AGGGTTTTTA
Statistics
Matches: 349, Mismatches: 39, Indels: 68
0.77 0.09 0.15
Matches are distributed among these distances:
27 31 0.09
28 171 0.49
29 44 0.13
30 50 0.14
31 4 0.01
33 24 0.07
34 12 0.03
35 13 0.04
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (28 bp):
TTAGGTTAGGGTTTTTAATTTAATTAAA
Found at i:58583740 original size:34 final size:32
Alignment explanation
Indices: 58583574--58583732 Score: 121
Period size: 28 Copynumber: 5.2 Consensus size: 32
58583564 GGGTTTAGGG
* *
58583574 TTTAATTAAATTAGGTTAGGGTTTAGGGTTTTAAA
1 TTTAAGTAAATTAGGTTA-GG-TTA-GGTTTTTAA
* *
58583609 TTTAATTAAATAAGGTTA-G---GGTTTTTAA
1 TTTAAGTAAATTAGGTTAGGTTAGGTTTTTAA
*
58583637 TTTAATTAAATTAGGTTA-G---GGTTTTTAA
1 TTTAAGTAAATTAGGTTAGGTTAGGTTTTTAA
58583665 -TT--G--AATTAGGTTAGGTTAGGTTTTTAA
1 TTTAAGTAAATTAGGTTAGGTTAGGTTTTTAA
*
58583692 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TTTAAGTAAATTAGGTTA-GGTTA-GGTTTTTAA
58583726 -TTAAGTA
1 TTTAAGTA
58583733 GGGTTAGGGA
Statistics
Matches: 107, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
23 10 0.09
24 1 0.01
27 11 0.10
28 37 0.35
32 10 0.09
33 12 0.11
34 9 0.08
35 17 0.16
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.47
Consensus pattern (32 bp):
TTTAAGTAAATTAGGTTAGGTTAGGTTTTTAA
Found at i:58586149 original size:22 final size:22
Alignment explanation
Indices: 58586119--58586160 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
58586109 ATTTGGAGAT
*
58586119 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
58586141 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
58586161 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:58586181 original size:52 final size:51
Alignment explanation
Indices: 58586110--58586212 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
58586100 TTAATATGGA
* * *
58586110 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
58586161 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
58586213 AAATTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:58586243 original size:22 final size:22
Alignment explanation
Indices: 58586162--58586245 Score: 116
Period size: 22 Copynumber: 3.8 Consensus size: 22
58586152 ATTTGAGAGT
*
58586162 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTTGAAAGG-AA
* *
58586184 TTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAAGGAA
58586206 TTGAGAGAAATTTTGAAAGGAA
1 TTGAGAGAAATTTTGAAAGGAA
*
58586228 TTGAGAGAATTTTTGAAA
1 TTGAGAGAAATTTTGAAA
58586246 TAAATTGATA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
22 45 0.82
23 10 0.18
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (22 bp):
TTGAGAGAAATTTTGAAAGGAA
Found at i:58593709 original size:9 final size:9
Alignment explanation
Indices: 58593691--58593724 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
58593681 AAAGTAGGAT
58593691 AGAAAATAA
1 AGAAAATAA
*
58593700 AGAGAATAA
1 AGAAAATAA
58593709 AGAAAATAA
1 AGAAAATAA
58593718 AGAAAAT
1 AGAAAAT
58593725 GAGTTTGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (9 bp):
AGAAAATAA
Found at i:58594241 original size:78 final size:77
Alignment explanation
Indices: 58594106--58594260 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 77
58594096 AAATGATAGC
*
58594106 TTGGGAAAGAGAAGATAGCTTGGAGTGTGGGTTTGTGCTCTACAATCTTTGAGATATCCATTATT
1 TTGGGAAAGAGAAGATAACTTGGAGTGTGGGTTTGTGCTCTACAATCTTTGAGATATCCATTATT
58594171 ATGTGTTTAGTT
66 ATGTGTTTAGTT
58594183 TTGGGACAAGAGAAGATAACTTGGAGTGTGGGTTTGTGCTCTACAATCTTTG-GCATATCCATTA
1 TTGGGA-AAGAGAAGATAACTTGGAGTGTGGGTTTGTGCTCTACAATCTTTGAG-ATATCCATTA
58594247 TTATGTGTTTAGTT
64 TTATGTGTTTAGTT
58594261 CGACAGAGAT
Statistics
Matches: 75, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
77 7 0.09
78 68 0.91
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.39
Consensus pattern (77 bp):
TTGGGAAAGAGAAGATAACTTGGAGTGTGGGTTTGTGCTCTACAATCTTTGAGATATCCATTATT
ATGTGTTTAGTT
Found at i:58598222 original size:3 final size:3
Alignment explanation
Indices: 58598214--58598243 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
58598204 GGGGTGGGGG
58598214 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
58598244 GGGATTAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:58599333 original size:5 final size:5
Alignment explanation
Indices: 58599323--58599358 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
58599313 TGACGAAGAG
58599323 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
1 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
58599359 ACCTGAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
AGGGA
Found at i:58599924 original size:3 final size:3
Alignment explanation
Indices: 58599918--58599948 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
58599908 TCAAGTACAC
58599918 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
58599949 TTAGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Done.