Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 30 of 335
Found at i:10952620 original size:2 final size:2
Alignment explanation
Indices: 10952613--10952638 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10952603 TAATAGCGAA
10952613 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10952639 GTAATTGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10978000 original size:4 final size:4
Alignment explanation
Indices: 10977983--10978016 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
10977973 CGGGATCAAC
* *
10977983 ATGT ACGT ACGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
10978017 ATACATGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:10979140 original size:31 final size:31
Alignment explanation
Indices: 10979102--10979164 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
10979092 TGCTCTCAAT
10979102 AGTCAATTTATTTCTCCAATGTGATCTCTAA
1 AGTCAATTTATTTCTCCAATGTGATCTCTAA
10979133 AGTCAATTTATTTCTCCAATGTGATCTCTAA
1 AGTCAATTTATTTCTCCAATGTGATCTCTAA
10979164 A
1 A
10979165 CTTACAACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (31 bp):
AGTCAATTTATTTCTCCAATGTGATCTCTAA
Found at i:10985603 original size:20 final size:19
Alignment explanation
Indices: 10985567--10985614 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
10985557 ATAGTTTTAT
10985567 TTAAAT-TTAATCATAATA
1 TTAAATATTAATCATAATA
10985585 TATAAATATTAAT-ATTAATA
1 T-TAAATATTAATCA-TAATA
10985605 TTAAAATATT
1 TT-AAATATT
10985615 GTTTTAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.04
19 7 0.27
20 18 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATATTAATCATAATA
Found at i:11003177 original size:26 final size:26
Alignment explanation
Indices: 11003141--11003192 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
11003131 CTACACAAAC
11003141 AAGTAAGATTAATATGAAAGGAAAGG
1 AAGTAAGATTAATATGAAAGGAAAGG
*
11003167 AAGTAATATTAATATGAAAGGAAAGG
1 AAGTAAGATTAATATGAAAGGAAAGG
11003193 CATACTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (26 bp):
AAGTAAGATTAATATGAAAGGAAAGG
Found at i:11007198 original size:65 final size:65
Alignment explanation
Indices: 11007117--11007249 Score: 266
Period size: 65 Copynumber: 2.0 Consensus size: 65
11007107 AATATGCTGT
11007117 ACATACAACAATCTTTGAACAGATGTAATTAACACGTTAATGTTATATATGCTTAGTCTACTGAC
1 ACATACAACAATCTTTGAACAGATGTAATTAACACGTTAATGTTATATATGCTTAGTCTACTGAC
11007182 ACATACAACAATCTTTGAACAGATGTAATTAACACGTTAATGTTATATATGCTTAGTCTACTGAC
1 ACATACAACAATCTTTGAACAGATGTAATTAACACGTTAATGTTATATATGCTTAGTCTACTGAC
11007247 ACA
1 ACA
11007250 CTTTTATTGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (65 bp):
ACATACAACAATCTTTGAACAGATGTAATTAACACGTTAATGTTATATATGCTTAGTCTACTGAC
Found at i:11007840 original size:78 final size:78
Alignment explanation
Indices: 11007754--11007963 Score: 267
Period size: 81 Copynumber: 2.7 Consensus size: 78
11007744 TGCCTTCTCG
** *
11007754 GGAGATGCATGTAATGAGGTTGATGATGGCACCATTGGAGGAGGATGCATTTTCTGTTTTGATGG
1 GGAGATGCATGTAATGAGGTTGATGATGGCATTATTGGAGGAGGATGCATTCTCTGTTTTGATGG
* **
11007819 AACTGCTGGTGTA
66 AACCGCTGGCATA
* * *
11007832 GGAGATGCATGGAATGAGGTTGGTGATGGCATTATTGGAGGAGGATGCACTGAACTCTGTTTTGA
1 GGAGATGCATGTAATGAGGTTGATGATGGCATTATTGGAGGAGGATGCA-T--TCTCTGTTTTGA
*
11007897 TGGAACCGCTGGCATG
63 TGGAACCGCTGGCATA
* * * *
11007913 GGAAATGCATGTAATGAGGTCGATGATGGCATTGTTAGAGGAGGATGCATT
1 GGAGATGCATGTAATGAGGTTGATGATGGCATTATTGGAGGAGGATGCATT
11007964 GAGATCTCTC
Statistics
Matches: 112, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 45 0.40
79 1 0.01
80 1 0.01
81 65 0.58
ACGTcount: A:0.25, C:0.10, G:0.36, T:0.29
Consensus pattern (78 bp):
GGAGATGCATGTAATGAGGTTGATGATGGCATTATTGGAGGAGGATGCATTCTCTGTTTTGATGG
AACCGCTGGCATA
Found at i:11010444 original size:230 final size:231
Alignment explanation
Indices: 11009937--11010864 Score: 1601
Period size: 230 Copynumber: 4.0 Consensus size: 231
11009927 GAAAATAAAT
* * *
11009937 TTTCTGGGAGGGGAGTTGCATGTGGGCTGGTTGGTGATGGCATTATTGGGGAAGGATGCGCTAAG
1 TTTCTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAG
* *
11010002 CTTTGTATGGGTGGACATGCTGGAATAGGCGACAACAACATGGCTCTTGGTGCTGGTAGTGTAGG
66 CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGG
* *
11010067 GGGTAAAATTAAATTTGATGAAGGTATCATTATCTTATCGCATGGTTTTGCAGTTTCATCGTTTT
131 AGGTAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTT
*
11010132 GATCACTTTTGCGGTTAACTTGTTGCTGCTCAATTG
196 GATCACTTTTGCGGTTTACTTGTTGCTGCTCAATTG
* * *
11010168 TTTCTAGGAGGGGAGTTGCATGTAGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCAATAAG
1 TTTCTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAG
*
11010233 CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACATCATGGCT-TCTGGTGCTGGTAGTGTAG
66 CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCT-TGGTGCTGGTAGTGTAG
11010297 GAGGTAAAATTAAATTTGATGAAGGTATCA-TAACTTATCGCATGGTTTTGCAGTTTCATCGTTT
130 GAGGTAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTT
*
11010361 TGATCACTTTTGCGGTTTACTTGTTGCTGCTCAATTA
195 TGATCACTTTTGCGGTTTACTTGTTGCTGCTCAATTG
11010398 TTTCTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAG
1 TTTCTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAG
*
11010463 CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATTGCTCTTGGTGCTGGTAGTGTAGG
66 CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGG
* *
11010528 AGGTAAAATTAAATTTAATGAAGGTATCATTATCTTATCGCATGGTTTTGCAGTTTCATCGTTTT
131 AGGTAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTT
*
11010593 GATCACTTTTGCGGTTTACTTGTTGCTCCTCAATTG
196 GATCACTTTTGCGGTTTACTTGTTGCTGCTCAATTG
*
11010629 TTTCTGGGA-GGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATTGGGGAAGGATGCACTAAG
1 TTTCTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAG
11010693 CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGG
66 CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGG
* ** *
11010758 AGGTAAAATTAAATTTGATGAAGGTATCATTGACACATCGCATGGTTCTGCAGTTTCATCGTTTT
131 AGGTAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTT
** *
11010823 GATCACTTTTATGGTTTACTTGTTGTTGCTCAATTG
196 GATCACTTTTGCGGTTTACTTGTTGCTGCTCAATTG
11010859 TTTCTG
1 TTTCTG
11010865 CTGCCTTTGG
Statistics
Matches: 661, Mismatches: 33, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
230 435 0.66
231 226 0.34
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.34
Consensus pattern (231 bp):
TTTCTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAG
CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGG
AGGTAAAATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTT
GATCACTTTTGCGGTTTACTTGTTGCTGCTCAATTG
Found at i:11010800 original size:461 final size:461
Alignment explanation
Indices: 11009937--11010864 Score: 1617
Period size: 461 Copynumber: 2.0 Consensus size: 461
11009927 GAAAATAAAT
* *
11009937 TTTCTGGGAGGGGAGTTGCATGTGGGCTGGTTGGTGATGGCATTATTGGGGAAGGATGCGCTAAG
1 TTTCTGGGAGGGGAGTTGCATGTGGGCTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAG
*
11010002 CTTTGTATGGGTGGACATGCTGGAATAGGCGACAACAACATGGCTCTTGGTGCTGGTAGTGTAGG
66 CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAACATGGCTCTTGGTGCTGGTAGTGTAGG
* *
11010067 GGGTAAAATTAAATTTGATGAAGGTATCATTATCTTATCGCATGGTTTTGCAGTTTCATCGTTTT
131 AGGTAAAATTAAATTTAATGAAGGTATCATTATCTTATCGCATGGTTTTGCAGTTTCATCGTTTT
*
11010132 GATCACTTTTGCGGTTAACTTGTTGCTGCTCAATTGTTTCTAGGAGGGGAGTTGCATGTAGGGTG
196 GATCACTTTTGCGGTTAACTTGTTGCTCCTCAATTGTTTCTAGGAGGGGAGTTGCATGTAGGGTG
11010197 GTTGGTGATGGCATTATCGGGGAAGGATGCAATAAGCTCTGTATGGGTGGACATGCTGGAATAGG
261 GTTGGTGATGGCATTATCGGGGAAGGATGCAATAAGCTCTGTATGGGTGGACATGCTGGAATAGG
*
11010262 CGACAACATCATGGCTTCTGGTGCTGGTAGTGTAGGAGGTAAAATTAAATTTGATGAAGGTATCA
326 CGACAACAGCATGGCTTCTGGTGCTGGTAGTGTAGGAGGTAAAATTAAATTTGATGAAGGTATCA
** * *
11010327 TAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCACTTTTGCGGTTTACTTGTTGCTGCT
391 TAACACATCGCATGGTTCTGCAGTTTCATCGTTTTGATCACTTTTACGGTTTACTTGTTGCTGCT
11010392 CAATTA
456 CAATTA
*
11010398 TTTCTGGGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAG
1 TTTCTGGGAGGGGAGTTGCATGTGGGCTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAG
* *
11010463 CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAGCATTGCTCTTGGTGCTGGTAGTGTAGG
66 CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAACATGGCTCTTGGTGCTGGTAGTGTAGG
11010528 AGGTAAAATTAAATTTAATGAAGGTATCATTATCTTATCGCATGGTTTTGCAGTTTCATCGTTTT
131 AGGTAAAATTAAATTTAATGAAGGTATCATTATCTTATCGCATGGTTTTGCAGTTTCATCGTTTT
* * *
11010593 GATCACTTTTGCGGTTTACTTGTTGCTCCTCAATTGTTTCTGGGA-GGGAGTTGCATGTGGGGTG
196 GATCACTTTTGCGGTTAACTTGTTGCTCCTCAATTGTTTCTAGGAGGGGAGTTGCATGTAGGGTG
* *
11010657 GTTGGTGATGGCATTATTGGGGAAGGATGCACTAAGCTCTGTATGGGTGGACATGCTGGAATAGG
261 GTTGGTGATGGCATTATCGGGGAAGGATGCAATAAGCTCTGTATGGGTGGACATGCTGGAATAGG
11010722 CGACAACAGCATGGC-TCTTGGTGCTGGTAGTGTAGGAGGTAAAATTAAATTTGATGAAGGTATC
326 CGACAACAGCATGGCTTC-TGGTGCTGGTAGTGTAGGAGGTAAAATTAAATTTGATGAAGGTATC
* * *
11010786 ATTGACACATCGCATGGTTCTGCAGTTTCATCGTTTTGATCACTTTTATGGTTTACTTGTTGTTG
390 A-TAACACATCGCATGGTTCTGCAGTTTCATCGTTTTGATCACTTTTACGGTTTACTTGTTGCTG
*
11010851 CTCAATTG
454 CTCAATTA
11010859 TTTCTG
1 TTTCTG
11010865 CTGCCTTTGG
Statistics
Matches: 442, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
459 2 0.00
460 142 0.32
461 298 0.67
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.34
Consensus pattern (461 bp):
TTTCTGGGAGGGGAGTTGCATGTGGGCTGGTTGGTGATGGCATTATCGGGGAAGGATGCACTAAG
CTCTGTATGGGTGGACATGCTGGAATAGGCGACAACAACATGGCTCTTGGTGCTGGTAGTGTAGG
AGGTAAAATTAAATTTAATGAAGGTATCATTATCTTATCGCATGGTTTTGCAGTTTCATCGTTTT
GATCACTTTTGCGGTTAACTTGTTGCTCCTCAATTGTTTCTAGGAGGGGAGTTGCATGTAGGGTG
GTTGGTGATGGCATTATCGGGGAAGGATGCAATAAGCTCTGTATGGGTGGACATGCTGGAATAGG
CGACAACAGCATGGCTTCTGGTGCTGGTAGTGTAGGAGGTAAAATTAAATTTGATGAAGGTATCA
TAACACATCGCATGGTTCTGCAGTTTCATCGTTTTGATCACTTTTACGGTTTACTTGTTGCTGCT
CAATTA
Found at i:11011356 original size:2 final size:2
Alignment explanation
Indices: 11011349--11011373 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11011339 GTAAATTCCT
11011349 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11011374 TACATTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11012867 original size:19 final size:19
Alignment explanation
Indices: 11012811--11012867 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
11012801 TAATTTCAAA
*
11012811 AAATAAAAAATAGATAAATT
1 AAATAAAAAAT-TATAAATT
* * *
11012831 AAATTAAAATTTAAAAATT
1 AAATAAAAAATTATAAATT
**
11012850 CTATAAAAAATTATAAAT
1 AAATAAAAAATTATAAAT
11012868 AAGTAAACCA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATAAAAAATTATAAATT
Found at i:11016958 original size:1 final size:1
Alignment explanation
Indices: 11016952--11016978 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
11016942 GGAGTTGTAG
11016952 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
11016979 GTGTGTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11018726 original size:24 final size:24
Alignment explanation
Indices: 11018649--11018727 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 24
11018639 GCTTAATTTT
*
11018649 TTTTAATTTAGAAAAATATTCTTATAAA
1 TTTT-ATTTA-AAAAAT-TACTTA-AAA
* * *
11018677 TTTTTTTTAAAAAAATA-TATATAA
1 TTTTATTTAAAAAATTACT-TAAAA
11018701 TTTTATTTAAAAAATTACTTAAAA
1 TTTTATTTAAAAAATTACTTAAAA
11018725 TTT
1 TTT
11018728 ATAATAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
24 25 0.60
25 4 0.10
26 5 0.12
27 4 0.10
28 4 0.10
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (24 bp):
TTTTATTTAAAAAATTACTTAAAA
Found at i:11018864 original size:16 final size:17
Alignment explanation
Indices: 11018828--11018865 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11018818 ACAATTTTTC
*
11018828 TAAATTATATAAAGTTT
1 TAAAATATATAAAGTTT
11018845 TAAAATATATAAAG-TT
1 TAAAATATATAAAGTTT
11018861 TAAAA
1 TAAAA
11018866 GTCAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (17 bp):
TAAAATATATAAAGTTT
Found at i:11030396 original size:17 final size:17
Alignment explanation
Indices: 11030352--11030386 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11030342 GGTGCTTAGG
11030352 ATTTAATTTTAAAATTA
1 ATTTAATTTTAAAATTA
11030369 ATTTAATTTTAAAATTA
1 ATTTAATTTTAAAATTA
11030386 A
1 A
11030387 CTTTTTTTTA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAATTTTAAAATTA
Found at i:11033821 original size:24 final size:24
Alignment explanation
Indices: 11033789--11033845 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
11033779 GCATTAAATA
11033789 ATATCTAGTCTTGGCCAATATCCT
1 ATATCTAGTCTTGGCCAATATCCT
11033813 ATATCTAGTCTTGGCCAATATCCT
1 ATATCTAGTCTTGGCCAATATCCT
*
11033837 ATGTCTAGT
1 ATATCTAGT
11033846 GTATTGAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (24 bp):
ATATCTAGTCTTGGCCAATATCCT
Found at i:11043205 original size:20 final size:20
Alignment explanation
Indices: 11043172--11043209 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11043162 CACTTGTCAC
* *
11043172 AAAAAGAAATTATAATTTCA
1 AAAAACAAAGTATAATTTCA
11043192 AAAAACAAAGTATAATTT
1 AAAAACAAAGTATAATTT
11043210 AGATAGATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAACAAAGTATAATTTCA
Found at i:11045221 original size:47 final size:47
Alignment explanation
Indices: 11045112--11045222 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
11045102 CCGAGATAAG
* * *
11045112 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
11045159 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
11045206 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
11045223 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:11046177 original size:20 final size:18
Alignment explanation
Indices: 11046152--11046188 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
11046142 ATTGCTAAGT
11046152 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
11046172 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
11046189 TATGAGCTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:11048037 original size:50 final size:50
Alignment explanation
Indices: 11047979--11048083 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
11047969 TTTTAATGTG
11047979 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
11048028 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
11048078 AGTATT
1 AGTATT
11048084 AGTCATGTAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
Found at i:11048762 original size:37 final size:39
Alignment explanation
Indices: 11048721--11048794 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 39
11048711 AAGAAAATCT
* *
11048721 AAGATTTTTTTTGTGTTT-AGTATA-T-TATTATATAATA
1 AAGATATTTTATGT-TTTAAGTATATTATATTATATAATA
*
11048758 AAGATATTTTATGTTTTAATTATATTATATTATATAA
1 AAGATATTTTATGTTTTAAGTATATTATATTATATAA
11048795 ATTAAAGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 3 0.10
37 17 0.55
38 1 0.03
39 10 0.32
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.55
Consensus pattern (39 bp):
AAGATATTTTATGTTTTAAGTATATTATATTATATAATA
Found at i:11050091 original size:19 final size:15
Alignment explanation
Indices: 11050045--11050086 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
11050035 CGATGAATTT
*
11050045 ATTGAATTTATATTG
1 ATTGAAATTATATTG
11050060 ATTGAAATTATATTG
1 ATTGAAATTATATTG
11050075 ATTG-AATTATAT
1 ATTGAAATTATAT
11050087 AATATATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:11050489 original size:23 final size:23
Alignment explanation
Indices: 11050459--11050545 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
11050449 GCTTTATCGA
* * *
11050459 TCAGGCACTTTATGTGTCATATT
1 TCAGGCACCTCATGTGTCGTATT
*
11050482 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
11050503 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
11050525 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
11050546 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 35 0.65
22 2 0.04
23 17 0.31
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:11056690 original size:21 final size:21
Alignment explanation
Indices: 11056656--11056696 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11056646 AATTAACTAA
*
11056656 TTTTAGATTATTTATTTTAAT
1 TTTTAGATTATTTAATTTAAT
11056677 TTTTA-ATTATTTTAATTTAA
1 TTTTAGATTA-TTTAATTTAA
11056697 AAATGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTAGATTATTTAATTTAAT
Found at i:11065753 original size:14 final size:14
Alignment explanation
Indices: 11065734--11065775 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
11065724 TTATTTTACT
11065734 GAAAATAATTTTAA
1 GAAAATAATTTTAA
*
11065748 GAAAATTATTTTTAA
1 GAAAA-TAATTTTAA
11065763 -AAAATAACTTTTA
1 GAAAATAA-TTTTA
11065776 CACAAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 2 0.08
14 14 0.58
15 8 0.33
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (14 bp):
GAAAATAATTTTAA
Found at i:11066468 original size:10 final size:10
Alignment explanation
Indices: 11066453--11066486 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11066443 ATAAAAATTC
11066453 TATAATTTTT
1 TATAATTTTT
11066463 TATAATTTTT
1 TATAATTTTT
*
11066473 TTTATATTTTT
1 TATA-ATTTTT
11066484 TAT
1 TAT
11066487 GATTGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATAATTTTT
Found at i:11084341 original size:5 final size:5
Alignment explanation
Indices: 11084331--11084362 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
11084321 ATTATTATAA
11084331 TATTT TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TA
11084363 CATAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:11099100 original size:18 final size:18
Alignment explanation
Indices: 11099077--11099130 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
11099067 CCACCACCAA
11099077 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
11099095 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
11099107 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
11099125 CTCCAC
1 CTCCAC
11099131 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:11099103 original size:30 final size:30
Alignment explanation
Indices: 11099067--11099135 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
11099057 CTACCCTTTG
11099067 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
11099097 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
11099127 CCACCACCA
1 CCACCACCA
11099136 CTTGTACCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.52, G:0.06, T:0.14
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:11099702 original size:25 final size:26
Alignment explanation
Indices: 11099619--11099744 Score: 84
Period size: 25 Copynumber: 5.0 Consensus size: 26
11099609 ATTATATTTC
* *
11099619 TTAATATTATATTATATATATATAT-
1 TTAATACTATATTATGTATATATATA
** * * *
11099644 TCTTTTAATATATTAGGTATAT-TCTA
1 T-TAATACTATATTATGTATATATATA
* *
11099670 --AATTCTATATTACGTATATATATA
1 TTAATACTATATTATGTATATATATA
* * *
11099694 TT-ATACTATTTTATGTATTTATCT-
1 TTAATACTATATTATGTATATATATA
*
11099718 TTAATACTATATTATTTATATATATA
1 TTAATACTATATTATGTATATATATA
11099744 T
1 T
11099745 ATTTTTTACA
Statistics
Matches: 73, Mismatches: 21, Indels: 13
0.68 0.20 0.12
Matches are distributed among these distances:
23 14 0.19
24 5 0.07
25 38 0.52
26 16 0.22
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.55
Consensus pattern (26 bp):
TTAATACTATATTATGTATATATATA
Found at i:11099787 original size:22 final size:23
Alignment explanation
Indices: 11099748--11099823 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 23
11099738 TATATATATT
*
11099748 TTTTACATGTTATCTTATGTAAATA
1 TTTTACA--TTATATTATGTAAATA
* *
11099773 TTTTA-ATTATATTATGTATGTATT
1 TTTTACATTATATTATGTA--AATA
* *
11099797 TTTTACACTATATTATGTACATA
1 TTTTACATTATATTATGTAAATA
11099820 TTTT
1 TTTT
11099824 TAATATTATC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 11 0.26
23 6 0.14
24 8 0.19
25 17 0.40
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (23 bp):
TTTTACATTATATTATGTAAATA
Found at i:11099821 original size:47 final size:49
Alignment explanation
Indices: 11099744--11099849 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 49
11099734 TATATATATA
* * * *
11099744 TATTTTTTACATGTTATCTTATGTAAATA-TTTTAAT-TATATTATGTATG
1 TATTTTTTACA-GCTATATTATGTAAATATTTTTAATAT-TATCACGTATG
* *
11099793 TATTTTTTACA-CTATATTATGTACATATTTTTAATATTATCACGTATT
1 TATTTTTTACAGCTATATTATGTAAATATTTTTAATATTATCACGTATG
11099841 TATTTTTTA
1 TATTTTTTA
11099850 TATATGTCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 13 0.27
48 24 0.49
49 12 0.24
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.58
Consensus pattern (49 bp):
TATTTTTTACAGCTATATTATGTAAATATTTTTAATATTATCACGTATG
Found at i:11100002 original size:16 final size:15
Alignment explanation
Indices: 11099978--11100012 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
11099968 TATTAATTAT
11099978 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
11099994 TATTTTAATATTTTA
1 TATTCTAATATTTTA
11100009 TATT
1 TATT
11100013 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:11102971 original size:18 final size:20
Alignment explanation
Indices: 11102948--11102985 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11102938 ACGTGCCAGT
11102948 CCAAC-TAGATTT-TAAATG
1 CCAACTTAGATTTCTAAATG
*
11102966 CCAACTTGGATTTCTAAATG
1 CCAACTTAGATTTCTAAATG
11102986 GGATGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
CCAACTTAGATTTCTAAATG
Found at i:11104022 original size:19 final size:19
Alignment explanation
Indices: 11104000--11104042 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
11103990 GAGAAGTAAT
*
11104000 ATGCTCACCGCGCTAGTTA
1 ATGCTCACCGCGCTAATTA
11104019 ATGCTCACCGCGCTAATTA
1 ATGCTCACCGCGCTAATTA
11104038 ATGCT
1 ATGCT
11104043 TCAGCCCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (19 bp):
ATGCTCACCGCGCTAATTA
Found at i:11107172 original size:13 final size:13
Alignment explanation
Indices: 11107154--11107179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11107144 CAAGCCCTTA
11107154 TTTTTGTCTGTGT
1 TTTTTGTCTGTGT
11107167 TTTTTGTCTGTGT
1 TTTTTGTCTGTGT
11107180 GTGTGTTTTT
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:0.00, C:0.08, G:0.23, T:0.69
Consensus pattern (13 bp):
TTTTTGTCTGTGT
Found at i:11112260 original size:3 final size:3
Alignment explanation
Indices: 11112252--11112276 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11112242 CTAGACTATT
11112252 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
11112277 CGATCAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:11112999 original size:7 final size:7
Alignment explanation
Indices: 11112989--11113018 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11112979 CCTTAAATTT
11112989 TAAAATA
1 TAAAATA
11112996 TAAAATA
1 TAAAATA
11113003 TAAAAT-
1 TAAAATA
11113009 TAAAATA
1 TAAAATA
11113016 TAA
1 TAA
11113019 TAAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAAATA
Found at i:11113014 original size:13 final size:14
Alignment explanation
Indices: 11112989--11113018 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
11112979 CCTTAAATTT
11112989 TAAAATATAAAATA
1 TAAAATATAAAATA
11113003 TAAAAT-TAAAATA
1 TAAAATATAAAATA
11113016 TAA
1 TAA
11113019 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAATATAAAATA
Found at i:11114462 original size:35 final size:36
Alignment explanation
Indices: 11114390--11114466 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
11114380 TGTATATTTT
11114390 AGAATAATCCAATGCAGAATGCCCTCCTAATTTCTG
1 AGAATAATCCAATGCAGAATGCCCTCCTAATTTCTG
11114426 AGAATAATCCAATGCAGAATGCCCT-CTAATTTCTG
1 AGAATAATCCAATGCAGAATGCCCTCCTAATTTCTG
11114461 AGAATA
1 AGAATA
11114467 CCAAGCTGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 16 0.39
36 25 0.61
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (36 bp):
AGAATAATCCAATGCAGAATGCCCTCCTAATTTCTG
Found at i:11117837 original size:6 final size:6
Alignment explanation
Indices: 11117826--11117857 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
11117816 TAAATATTAG
*
11117826 GAAGCA GAAGCA GAAGCA GAAGCA GAAACA GA
1 GAAGCA GAAGCA GAAGCA GAAGCA GAAGCA GA
11117858 CAGAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.53, C:0.16, G:0.31, T:0.00
Consensus pattern (6 bp):
GAAGCA
Found at i:11118809 original size:38 final size:38
Alignment explanation
Indices: 11118762--11118838 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
11118752 TTTATTTGCG
11118762 TTTGTAATTTTTTATTGATTATTATACTTTATCTAACT
1 TTTGTAATTTTTTATTGATTATTATACTTTATCTAACT
* *
11118800 TTTGTAATTTTTTATTGATTATTATATTTTATTTAACT
1 TTTGTAATTTTTTATTGATTATTATACTTTATCTAACT
11118838 T
1 T
11118839 AGACATGTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (38 bp):
TTTGTAATTTTTTATTGATTATTATACTTTATCTAACT
Found at i:11120168 original size:13 final size:14
Alignment explanation
Indices: 11120146--11120177 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11120136 CACATTTATA
11120146 ATTT-ATTTCATTT
1 ATTTAATTTCATTT
11120159 -TTTAATTTCATTT
1 ATTTAATTTCATTT
11120172 ATTTAA
1 ATTTAA
11120178 ACGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTAATTTCATTT
Found at i:11149225 original size:13 final size:13
Alignment explanation
Indices: 11149161--11149235 Score: 55
Period size: 13 Copynumber: 5.8 Consensus size: 13
11149151 ACACTTAAAT
*
11149161 TTTTCTAAAGCAC
1 TTTTCAAAAGCAC
* *
11149174 TTCTCAAAAGTA-
1 TTTTCAAAAGCAC
*
11149186 TTTCTCAAAAGTAC
1 TTT-TCAAAAGCAC
**
11149200 TTTTTC-ACGGCAC
1 -TTTTCAAAAGCAC
11149213 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
11149226 TTTTTAAAAG
1 TTTTCAAAAG
11149236 TAATGAAGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
12 7 0.15
13 36 0.75
14 2 0.04
15 3 0.06
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:11152701 original size:2 final size:2
Alignment explanation
Indices: 11152694--11152720 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11152684 TTGAACATGC
11152694 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 A
11152721 GAATGATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11161661 original size:15 final size:16
Alignment explanation
Indices: 11161628--11161661 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11161618 ACCTATAAGG
*
11161628 TATTAAAATAAATAAA
1 TATTAAAATAAACAAA
11161644 TATTAAAA-AAACAAA
1 TATTAAAATAAACAAA
11161659 TAT
1 TAT
11161662 CAATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAAATAAACAAA
Found at i:11163422 original size:30 final size:30
Alignment explanation
Indices: 11163386--11163448 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
11163376 ACTTATTTTA
11163386 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
11163416 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
11163446 TTG
1 TTG
11163449 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:11163569 original size:17 final size:19
Alignment explanation
Indices: 11163529--11163569 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
11163519 GGGAAATATT
*
11163529 TATTTTGATGTTTTTAGTA
1 TATTTTGATGTTATTAGTA
11163548 T-TTTTGAT-TTATTA-TA
1 TATTTTGATGTTATTAGTA
11163564 TATTTT
1 TATTTT
11163570 AAAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 9 0.45
18 7 0.35
19 1 0.05
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.68
Consensus pattern (19 bp):
TATTTTGATGTTATTAGTA
Found at i:11166294 original size:23 final size:22
Alignment explanation
Indices: 11166250--11166294 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
11166240 TTTAAATTGA
***
11166250 ATTGTATGTATATGATTGTATT
1 ATTGTATGTATATGAAAATATT
11166272 ATTGTCATGTATATGAAAATATT
1 ATTGT-ATGTATATGAAAATATT
11166295 CACATATCCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
ATTGTATGTATATGAAAATATT
Found at i:11166647 original size:24 final size:25
Alignment explanation
Indices: 11166545--11166650 Score: 101
Period size: 26 Copynumber: 4.2 Consensus size: 25
11166535 ACAGTTCTTA
11166545 TGAGCATT-CCGTTATATGGCTCTTCG
1 TGAGC-TTCCCGTTA-ATGGCTCTTCG
* * *
11166571 TGAGCGTCCCGATTAAAGGCTCTTTG
1 TGAGCTTCCCG-TTAATGGCTCTTCG
* * *
11166597 TGAGCTTCCCGTTAATTGCTATCCG
1 TGAGCTTCCCGTTAATGGCTCTTCG
*
11166622 -GAACTTCCCGTTAATGGCTCTTCG
1 TGAGCTTCCCGTTAATGGCTCTTCG
11166646 -GAGCT
1 TGAGCT
11166651 ACCCATTATT
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
24 24 0.38
25 10 0.16
26 27 0.42
27 3 0.05
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (25 bp):
TGAGCTTCCCGTTAATGGCTCTTCG
Found at i:11166747 original size:24 final size:25
Alignment explanation
Indices: 11166670--11166763 Score: 84
Period size: 24 Copynumber: 3.8 Consensus size: 25
11166660 TACCTCCCAC
* **
11166670 GAGCTTCCCGAT-TATGGCTCTTAT
1 GAGCTTCCCGTTATATGGCTCACAT
* * * * *
11166694 GAGCTTTCCATTATATAGCCCAGAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
11166719 AAGCTTCCCGTTA-ATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAT
*
11166743 GAGCTTCCTGTTATATGGCTC
1 GAGCTTCCCGTTATATGGCTC
11166764 GAGAGAGGGC
Statistics
Matches: 53, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
24 28 0.53
25 25 0.47
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAT
Found at i:11170775 original size:16 final size:16
Alignment explanation
Indices: 11170754--11170785 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11170744 ATAAATATTT
11170754 TTATAAATATTTATGG
1 TTATAAATATTTATGG
11170770 TTATAAATATTTATGG
1 TTATAAATATTTATGG
11170786 AGTGTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (16 bp):
TTATAAATATTTATGG
Found at i:11172987 original size:67 final size:67
Alignment explanation
Indices: 11172874--11173008 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
11172864 AAATATTAGG
*
11172874 TAAGCATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTTACCCTATTTCCTTTTCCCCT
1 TAAGCATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTTACCCTATTTCATTTTCCCCT
11172939 GT
66 GT
* * * *
11172941 TAAGTATAATTCTTGTTATATGAGCTTACTAAGCATAAAGTGCTTACCCTATTTCATTTTCCCTT
1 TAAGCATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTTACCCTATTTCATTTTCCCCT
11173006 GT
66 GT
11173008 T
1 T
11173009 TTGTAGTGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (67 bp):
TAAGCATAATTCTTGTTACATGAGCTTACTAAGCACAAAGTGCTTACCCTATTTCATTTTCCCCT
GT
Found at i:11174935 original size:1 final size:1
Alignment explanation
Indices: 11174929--11174953 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
11174919 CATGAACTTC
11174929 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
11174954 GAATTGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11191117 original size:24 final size:23
Alignment explanation
Indices: 11191089--11191147 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
11191079 TGAATTTTAT
*
11191089 TAATTTATTTAATT-AAAATTAGA
1 TAATTTATTGAATTGAAAATTA-A
*
11191112 TCAATTGATTGAATTGAAAATTAA
1 T-AATTTATTGAATTGAAAATTAA
11191136 TAATTTAATTGA
1 TAATTT-ATTGA
11191148 TTTAAACACC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.17
24 18 0.60
25 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (23 bp):
TAATTTATTGAATTGAAAATTAA
Found at i:11191723 original size:17 final size:18
Alignment explanation
Indices: 11191703--11191793 Score: 57
Period size: 18 Copynumber: 5.1 Consensus size: 18
11191693 GTAAATTCTT
11191703 TTAA-AATAATAACAAAA
1 TTAACAATAATAACAAAA
* *
11191720 TTAACAATAA-AATAAGAG
1 TTAACAATAATAACAA-AA
*
11191738 TTATACAA-AAT-ATAAAA
1 TTA-ACAATAATAACAAAA
11191755 TT-ACAAATAATAACAATAAA
1 TTAAC-AATAATAAC-A-AAA
* *
11191775 ATAATAATAATAACAAAA
1 TTAACAATAATAACAAAA
11191793 T
1 T
11191794 GATCAGGTAG
Statistics
Matches: 57, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
15 2 0.04
16 2 0.04
17 14 0.25
18 19 0.33
19 6 0.11
20 13 0.23
21 1 0.02
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (18 bp):
TTAACAATAATAACAAAA
Found at i:11191732 original size:23 final size:22
Alignment explanation
Indices: 11191704--11191793 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 22
11191694 TAAATTCTTT
11191704 TAAAATAATAACAAAATTAACAA
1 TAAAATAATAACAAAATTAA-AA
11191727 TAAAATAAGAGTTATACAAAATATAAAA
1 TAAAAT-A-A--TA-ACAAAAT-TAAAA
11191755 TTACAAATAATAAC--AA-TAAAA
1 -TA-AAATAATAACAAAATTAAAA
11191776 TAATAATAATAACAAAAT
1 TAA-AATAATAACAAAAT
11191794 GATCAGGTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 24
0.70 0.00 0.30
Matches are distributed among these distances:
19 1 0.02
20 11 0.20
21 5 0.09
22 2 0.04
23 8 0.15
24 1 0.02
25 3 0.05
26 2 0.04
27 2 0.04
28 10 0.18
29 6 0.11
30 4 0.07
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAAATAATAACAAAATTAAAA
Found at i:11191905 original size:14 final size:15
Alignment explanation
Indices: 11191888--11191920 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
11191878 TTTTGAGCAT
11191888 ACATTTTTA-TTCAA
1 ACATTTTTACTTCAA
11191902 ACATTTTTACTTTCAA
1 ACATTTTTAC-TTCAA
11191918 ACA
1 ACA
11191921 ATTACTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (15 bp):
ACATTTTTACTTCAA
Found at i:11205229 original size:13 final size:14
Alignment explanation
Indices: 11205208--11205236 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11205198 TGAAAAATGG
11205208 ATTAGAAAATATTT
1 ATTAGAAAATATTT
11205222 ATTA-AAAATATTT
1 ATTAGAAAATATTT
11205235 AT
1 AT
11205237 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:11205786 original size:31 final size:32
Alignment explanation
Indices: 11205750--11205813 Score: 96
Period size: 31 Copynumber: 2.0 Consensus size: 32
11205740 ATATTAAATA
*
11205750 AGATTTTTAT-TAATTAAATA-ATTATATTATG
1 AGATTTTTATGTAA-TAAATATATTAAATTATG
11205781 AGATTTTTATGTAATAAATATATTAAATTATG
1 AGATTTTTATGTAATAAATATATTAAATTATG
11205813 A
1 A
11205814 CAAATGTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 16 0.53
32 14 0.47
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (32 bp):
AGATTTTTATGTAATAAATATATTAAATTATG
Found at i:11206772 original size:15 final size:15
Alignment explanation
Indices: 11206731--11206777 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
11206721 GAATTTATCA
*
11206731 AATTTATATTGGTTG
1 AATTTATATTGATTG
* * *
11206746 AAATCATTTTGATTG
1 AATTTATATTGATTG
11206761 AATTTATATTGATTG
1 AATTTATATTGATTG
11206776 AA
1 AA
11206778 ATATATAATA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (15 bp):
AATTTATATTGATTG
Found at i:11207316 original size:18 final size:19
Alignment explanation
Indices: 11207295--11207335 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11207285 AATGAAATGA
11207295 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
11207313 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
11207332 GAAA
1 GAAA
11207336 ACATGAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:11209683 original size:53 final size:53
Alignment explanation
Indices: 11209602--11209752 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
11209592 CTTACACGGT
* *
11209602 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
11209657 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
11209710 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
11209753 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:11216144 original size:12 final size:12
Alignment explanation
Indices: 11216127--11216159 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11216117 TGACCCGCCC
11216127 ATATTAATTTTT
1 ATATTAATTTTT
11216139 ATATT-ATTTTT
1 ATATTAATTTTT
11216150 ATA-TAATTTT
1 ATATTAATTTT
11216160 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11216318 original size:30 final size:30
Alignment explanation
Indices: 11216282--11216344 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
11216272 ACTTAACAAG
11216282 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAATTAA
*
11216312 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAATAAAATTAA
11216342 CAA
1 CAA
11216345 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAATAAAATTAA
Found at i:11216392 original size:14 final size:14
Alignment explanation
Indices: 11216375--11216405 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11216365 ATCTAAGCCA
11216375 TAACAACAAAATAG
1 TAACAACAAAATAG
*
11216389 TAACAACATAATAG
1 TAACAACAAAATAG
11216403 TAA
1 TAA
11216406 AATAGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:11218274 original size:13 final size:13
Alignment explanation
Indices: 11218256--11218286 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11218246 TCCAGAAATT
11218256 AAACAAAAAAAAA
1 AAACAAAAAAAAA
11218269 AAACAAAAAAAAA
1 AAACAAAAAAAAA
*
11218282 CAACA
1 AAACA
11218287 CCATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (13 bp):
AAACAAAAAAAAA
Found at i:11226689 original size:40 final size:40
Alignment explanation
Indices: 11226626--11226740 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 40
11226616 TTTTCAGGTC
*
11226626 AAATCCTATCCGCCTTAAGTTACCGTAGTGAATCAAAAAT
1 AAATCCTATCCGCCTTAAATTACCGTAGTGAATCAAAAAT
* **
11226666 AAATTCTATCCGCCTTAAATTACCGTAGTGAATCATGAAT
1 AAATCCTATCCGCCTTAAATTACCGTAGTGAATCAAAAAT
* * * *
11226706 AAATCCTATTCACTTTAAATTACCATAGTGAATCA
1 AAATCCTATCCGCCTTAAATTACCGTAGTGAATCA
11226741 GGAACAAATC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (40 bp):
AAATCCTATCCGCCTTAAATTACCGTAGTGAATCAAAAAT
Found at i:11228443 original size:10 final size:10
Alignment explanation
Indices: 11228428--11228455 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
11228418 TTAAATAAAT
11228428 TAATAAAAAA
1 TAATAAAAAA
11228438 TAATAAAAAA
1 TAATAAAAAA
11228448 TAATAAAA
1 TAATAAAA
11228456 TATCTCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
TAATAAAAAA
Found at i:11229183 original size:29 final size:31
Alignment explanation
Indices: 11229133--11229194 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
11229123 AGTCTATATA
*
11229133 TTTATAATTTTTAAAGGATTAAA-TCAAATT
1 TTTATAATTTTTAAAGGATTAAAGTAAAATT
* *
11229163 TTTATAA-TTTTAAGGGTTTAAAGTAAAATT
1 TTTATAATTTTTAAAGGATTAAAGTAAAATT
11229193 TT
1 TT
11229195 ATCTTTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (31 bp):
TTTATAATTTTTAAAGGATTAAAGTAAAATT
Found at i:11229195 original size:29 final size:30
Alignment explanation
Indices: 11229133--11229196 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
11229123 AGTCTATATA
*
11229133 TTTATAATTTTTAAAGGATTAAATCAAATT
1 TTTATAATTTTTAAAGGATTAAATCAAAAT
* *
11229163 TTTATAA-TTTTAAGGGTTTAAAGT-AAAAT
1 TTTATAATTTTTAAAGGATTAAA-TCAAAAT
11229192 TTTAT
1 TTTAT
11229197 CTTTATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGATTAAATCAAAAT
Found at i:11242999 original size:22 final size:23
Alignment explanation
Indices: 11242971--11243013 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11242961 TATGTATTAT
*
11242971 AATAGTTAG-ACATAAAATAAAG
1 AATAGTTAGTACAAAAAATAAAG
11242993 AATAGTTAGTACAAAAAATAA
1 AATAGTTAGTACAAAAAATAA
11243014 GACATCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (23 bp):
AATAGTTAGTACAAAAAATAAAG
Found at i:11243746 original size:26 final size:26
Alignment explanation
Indices: 11243701--11243752 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11243691 AATTATCATG
11243701 AATTTAATTTTAATAATTAA-AAAAAT
1 AATTTAATTTTAAT-ATTAACAAAAAT
11243727 AATTTAAATATTTAAT-TTAACAAAAA
1 AATTT-AAT-TTTAATATTAACAAAAA
11243753 GCATATCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
26 9 0.39
27 8 0.35
28 6 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTTAATTTTAATATTAACAAAAAT
Found at i:11254373 original size:10 final size:11
Alignment explanation
Indices: 11254357--11254386 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
11254347 GTAGAAACAA
11254357 AAAAAAAACTC
1 AAAAAAAACTC
11254368 AAAAAAAACTC
1 AAAAAAAACTC
11254379 AAAAAAAA
1 AAAAAAAA
11254387 TTCAGCTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.80, C:0.13, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAAAACTC
Found at i:11271598 original size:38 final size:40
Alignment explanation
Indices: 11271544--11271660 Score: 166
Period size: 38 Copynumber: 2.8 Consensus size: 40
11271534 TCTGATATGA
11271544 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
11271584 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
11271622 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGG
1 ------AATGTGTAAGACCATGGTTGAAAGATACCATGG
11271661 TGAAAGATAC
Statistics
Matches: 69, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
38 37 0.54
39 1 0.01
45 1 0.01
46 30 0.43
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:11271666 original size:15 final size:16
Alignment explanation
Indices: 11271638--11271675 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
11271628 AATGTGTAAG
11271638 ACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGAT
11271654 ACCATGG-TGAAAGAT
1 ACCATGGTTGAAAGAT
11271669 ACCATGG
1 ACCATGG
11271676 CAACCTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (16 bp):
ACCATGGTTGAAAGAT
Found at i:11271692 original size:61 final size:62
Alignment explanation
Indices: 11271592--11271721 Score: 244
Period size: 61 Copynumber: 2.1 Consensus size: 62
11271582 TGAGTGTAAG
11271592 ACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGAT
*
11271654 ACCATGG-TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGAT
11271715 ACCATGG
1 ACCATGG
11271722 CAACGTGATA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 60 0.90
62 7 0.10
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (62 bp):
ACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGAT
Found at i:11271720 original size:46 final size:46
Alignment explanation
Indices: 11271654--11271820 Score: 221
Period size: 46 Copynumber: 3.7 Consensus size: 46
11271644 GTTGAAAGAT
* *
11271654 ACCATGG-TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAG
* **
11271699 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAG
*
11271745 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAG
1 ACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGAGTAAG
* * * *
11271791 ACCATAGTTGAAAGACACTATGGCATCATG
1 ACCATGGTTGAAAGATACCATGGCAACATG
11271821 TCAAAGATAA
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
45 8 0.07
46 100 0.93
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.20
Consensus pattern (46 bp):
ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAGTAAG
Found at i:11271805 original size:153 final size:145
Alignment explanation
Indices: 11271535--11271805 Score: 407
Period size: 153 Copynumber: 1.8 Consensus size: 145
11271525 AGTGTGCTCT
*
11271535 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * *
11271600 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGTGAA
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGATACCATGGTGAA
11271665 AGATACCATGGCAAC
131 AGATACCATGGCAAC
*
11271680 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
11271745 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
11271806 CACTATGGCA
Statistics
Matches: 111, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
145 48 0.43
147 1 0.01
148 1 0.01
151 2 0.02
153 59 0.53
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (145 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGATACCATGGTGAA
AGATACCATGGCAAC
Found at i:11276959 original size:46 final size:46
Alignment explanation
Indices: 11276892--11277153 Score: 398
Period size: 46 Copynumber: 5.7 Consensus size: 46
11276882 GGCAACCTGA
11276892 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
11276938 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
11276984 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
** *
11277030 GTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
11277076 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
11277122 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
11277154 TCATGTCAAA
Statistics
Matches: 200, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 200 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:11277084 original size:138 final size:130
Alignment explanation
Indices: 11276842--11277153 Score: 426
Period size: 138 Copynumber: 2.3 Consensus size: 130
11276832 AGTGTGCTCT
*
11276842 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
***
11276907 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
11276972 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG--A-GTGTAAG
** *
11277037 ACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGAACAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACC
11277102 ATGGCAAC
123 ATGGCAAC
* * * * * * *
11277110 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
11277154 TCATGTCAAA
Statistics
Matches: 160, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
130 46 0.29
135 2 0.01
137 1 0.01
138 111 0.69
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (130 bp):
CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGATATAAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:11281473 original size:47 final size:47
Alignment explanation
Indices: 11281409--11281519 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
11281399 GACATTGAGT
*
11281409 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
11281456 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
11281503 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
11281520 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:11284055 original size:16 final size:18
Alignment explanation
Indices: 11284023--11284057 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
11284013 TAATTAACCC
11284023 CTCAATTAAACTAATTTT
1 CTCAATTAAACTAATTTT
11284041 CTCAATT-AA-TAATTTT
1 CTCAATTAAACTAATTTT
11284057 C
1 C
11284058 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (18 bp):
CTCAATTAAACTAATTTT
Found at i:11312064 original size:2 final size:2
Alignment explanation
Indices: 11312057--11312090 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
11312047 ACTACACTCA
* *
11312057 CT CT CT CT CT TT CT CT CT CT CT CT CT GT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11312091 TCTATATAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.53
Consensus pattern (2 bp):
CT
Found at i:11312919 original size:28 final size:28
Alignment explanation
Indices: 11312853--11312939 Score: 70
Period size: 31 Copynumber: 2.9 Consensus size: 28
11312843 CATTATCAAT
* *
11312853 ATTATTAAAATTATTTTGTTATATTTATA
1 ATTAATAATATTATTTT-TTATATTTATA
*
11312882 TTTATTATAATATTATTTTTTA-ATTATATA
1 ATTA--ATAATATTATTTTTTATATT-TATA
11312912 ATTAATAAATGAATTATTTTTTAT-TTTA
1 ATTAAT-AAT--ATTATTTTTTATATTTA
11312940 AAATATCATA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
28 2 0.04
29 9 0.19
30 12 0.26
31 24 0.51
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTAATAATATTATTTTTTATATTTATA
Found at i:11322820 original size:16 final size:16
Alignment explanation
Indices: 11322801--11322846 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
11322791 AAGCAACCCC
11322801 TTTTAAACTTCCTTAA
1 TTTTAAACTTCCTTAA
11322817 TTTT-AA-TTCCTCTAA
1 TTTTAAACTTCCT-TAA
*
11322832 TTTGAAATCTTCCTT
1 TTTTAAA-CTTCCTT
11322847 CCTTGTGCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 5 0.20
15 8 0.32
16 6 0.24
17 1 0.04
18 5 0.20
ACGTcount: A:0.26, C:0.20, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTTAAACTTCCTTAA
Found at i:11326986 original size:97 final size:97
Alignment explanation
Indices: 11326820--11327013 Score: 370
Period size: 97 Copynumber: 2.0 Consensus size: 97
11326810 ACACTCAAAC
*
11326820 ACATATTCTCTTATATTGATAATAATGCTCATACTAATTTAATTAAGATTCAATCTACTTAACTT
1 ACATATTCTCTTATATTGATAATAATGCTCATACTAATTGAATTAAGATTCAATCTACTTAACTT
11326885 CCCAAATTCTAAATTACCAAGAGGTGGATTTT
66 CCCAAATTCTAAATTACCAAGAGGTGGATTTT
*
11326917 ACATATTCTCTTATATTGATAATAATGCTCATGCTAATTGAATTAAGATTCAATCTACTTAACTT
1 ACATATTCTCTTATATTGATAATAATGCTCATACTAATTGAATTAAGATTCAATCTACTTAACTT
11326982 CCCAAATTCTAAATTACCAAGAGGTGGATTTT
66 CCCAAATTCTAAATTACCAAGAGGTGGATTTT
11327014 TGTATACGGA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (97 bp):
ACATATTCTCTTATATTGATAATAATGCTCATACTAATTGAATTAAGATTCAATCTACTTAACTT
CCCAAATTCTAAATTACCAAGAGGTGGATTTT
Found at i:11327092 original size:2 final size:2
Alignment explanation
Indices: 11327085--11327124 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
11327075 TAATCTAATA
11327085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11327125 TACAAGGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11330632 original size:46 final size:46
Alignment explanation
Indices: 11330565--11330780 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
11330555 GGCAACCTGA
11330565 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
11330611 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
11330657 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
11330703 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
11330749 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
11330781 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:11330760 original size:138 final size:130
Alignment explanation
Indices: 11330515--11330780 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
11330505 AGTGTGCTCT
*
11330515 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
11330580 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
11330645 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
11330710 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
11330775 ATGGCA
123 ATGGCA
11330781 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:11335967 original size:46 final size:46
Alignment explanation
Indices: 11335858--11336119 Score: 382
Period size: 46 Copynumber: 5.7 Consensus size: 46
11335848 TGGCAACCTG
11335858 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
11335903 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
* *
11335949 TGTGTAAGACCATGGTTGAAAGATACCATGGAAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
* * *
11335995 TGTGTAAGACCATGGTTAAAAGATACCATGGCAACGTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
*** * * *
11336041 TGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
* * * *
11336087 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
11336120 TCATGTCAAA
Statistics
Matches: 198, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
45 42 0.21
46 156 0.79
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAA
Found at i:11337032 original size:18 final size:18
Alignment explanation
Indices: 11337006--11337043 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
11336996 TATTTATCAC
*
11337006 ACGTTTATGTATGTGAAA
1 ACGTGTATGTATGTGAAA
11337024 ACGTGTATGTATGTGAAA
1 ACGTGTATGTATGTGAAA
11337042 AC
1 AC
11337044 CATATATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (18 bp):
ACGTGTATGTATGTGAAA
Found at i:11346260 original size:42 final size:41
Alignment explanation
Indices: 11346171--11346268 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 41
11346161 TGTTTAATTA
* * *
11346171 ATTTTTTAAAATTTTAAAAATTCAATTAAATATATAAAAATT
1 ATTTTTTAAATTTTTAAAAATT-AATAAAATATATAAAAAAT
11346213 A-TTTTTAAATTTATTAAAAATGT-ATAAAAT-TATAAAAGAAT
1 ATTTTTTAAATTT-TTAAAAAT-TAATAAAATATATAAAA-AAT
*
11346254 ATTTTTTATATTTTT
1 ATTTTTTAAATTTTT
11346269 TAAATCTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
40 7 0.15
41 21 0.44
42 19 0.40
43 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (41 bp):
ATTTTTTAAATTTTTAAAAATTAATAAAATATATAAAAAAT
Found at i:11352107 original size:43 final size:43
Alignment explanation
Indices: 11351976--11352177 Score: 241
Period size: 43 Copynumber: 4.7 Consensus size: 43
11351966 AAAATAGACT
*
11351976 TTTAGCGGCGCTCTTATAAAAACGCCGCTAA-AGACCAGGACC
1 TTTAGCGGCGCTTTTATAAAAACGCCGCTAATAGACCAGGACC
** * * *
11352018 TTTAGCGGCAATTTTATAAAAACGCCGCT-ATAGACCTGTACT
1 TTTAGCGGCGCTTTTATAAAAACGCCGCTAATAGACCAGGACC
11352060 TTTAGCGGCGCTTTTATAAAAAACGCCGCTAAT-GACCAGGACC
1 TTTAGCGGCGCTTTTAT-AAAAACGCCGCTAATAGACCAGGACC
* * * * *
11352103 TTTAGCGACGCTTTTTTAAAAAACGCCGCT-ATAGACCTGTACT
1 TTTAGCGGCGCTTTTAT-AAAAACGCCGCTAATAGACCAGGACC
* *
11352146 TTTAGTGGCGCTTTTTTAAAAACGCCGCTAAT
1 TTTAGCGGCGCTTTTATAAAAACGCCGCTAAT
11352178 TTGCCTAGTT
Statistics
Matches: 137, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 63 0.46
43 71 0.52
44 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTATAAAAACGCCGCTAATAGACCAGGACC
Found at i:11352123 original size:85 final size:85
Alignment explanation
Indices: 11351973--11352177 Score: 322
Period size: 85 Copynumber: 2.4 Consensus size: 85
11351963 AGAAAAATAG
* * *
11351973 ACTTTTAGCGGCGCTCTTATAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCAATTTTAT-AA
1 ACTTTTAGCGGCGCTTTTATAAAAACGCCGCTAATGACCAGGACCTTTAGCGACAATTTTATAAA
11352037 AAACGCCGCTATAGACCTGT
66 AAACGCCGCTATAGACCTGT
** *
11352057 ACTTTTAGCGGCGCTTTTATAAAAAACGCCGCTAATGACCAGGACCTTTAGCGACGCTTTTTTAA
1 ACTTTTAGCGGCGCTTTTAT-AAAAACGCCGCTAATGACCAGGACCTTTAGCGACAATTTTATAA
11352122 AAAACGCCGCTATAGACCTGT
65 AAAACGCCGCTATAGACCTGT
* *
11352143 ACTTTTAGTGGCGCTTTTTTAAAAACGCCGCTAAT
1 ACTTTTAGCGGCGCTTTTATAAAAACGCCGCTAAT
11352178 TTGCCTAGTT
Statistics
Matches: 111, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
84 19 0.17
85 52 0.47
86 40 0.36
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (85 bp):
ACTTTTAGCGGCGCTTTTATAAAAACGCCGCTAATGACCAGGACCTTTAGCGACAATTTTATAAA
AAACGCCGCTATAGACCTGT
Found at i:11353089 original size:18 final size:18
Alignment explanation
Indices: 11353057--11353094 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
11353047 TACAATATAG
11353057 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
11353076 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
11353093 TA
1 TA
11353095 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:11357424 original size:10 final size:11
Alignment explanation
Indices: 11357403--11357453 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
11357393 ACTAAACCAC
11357403 TTTTCATATATA
1 TTTT-ATATATA
11357415 TATTTATATATA
1 T-TTTATATATA
*
11357427 TTTTAAAATAATA
1 TTTT-ATAT-ATA
11357440 TTTTATATATA
1 TTTTATATATA
11357451 TTT
1 TTT
11357454 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:11357462 original size:15 final size:15
Alignment explanation
Indices: 11357442--11357473 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11357432 AAATAATATT
*
11357442 TTATATATATTTATC
1 TTATATACATTTATC
11357457 TTATATACATTTATC
1 TTATATACATTTATC
11357472 TT
1 TT
11357474 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:11358321 original size:25 final size:26
Alignment explanation
Indices: 11358278--11358327 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
11358268 GAATTCATCA
11358278 TAAACCTTCAAATACTAGTTAACTCC
1 TAAACCTTCAAATACTAGTTAACTCC
11358304 TAAACCTT-AAAT-CATAGTTAACTC
1 TAAACCTTCAAATAC-TAGTTAACTC
11358328 ATAATTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 1 0.04
25 14 0.61
26 8 0.35
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (26 bp):
TAAACCTTCAAATACTAGTTAACTCC
Found at i:11358360 original size:14 final size:14
Alignment explanation
Indices: 11358341--11358380 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11358331 ATTAAACCTG
* *
11358341 CTTAAACCATATAT
1 CTTAAACCATAAAC
11358355 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
11358369 CTTAAACTATAA
1 CTTAAACCATAA
11358381 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:11358570 original size:41 final size:41
Alignment explanation
Indices: 11358524--11358784 Score: 353
Period size: 41 Copynumber: 6.4 Consensus size: 41
11358514 GGTTATGGGA
** * *
11358524 TTTTTAGCGGCGTTTTAGAAAAAGCGTCGTTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * *
11358565 TTTTTAACGGCGTTTTAGCAAAAGCGCCGCTAATGCTTTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * *
11358606 TTTTTAGAGGTGTTTTAGCAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * *
11358647 TTTTTAGAGGCGTTTTACCGAAAGCGCCGCTAATGCTCTAG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
11358688 TTTTTAGCTGCGTTTTACCAAAAGCCCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
**
11358729 TTTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
*
11358770 -TTTTAGCGGCATTTT
1 TTTTTAGCGGCGTTTT
11358785 TTACTAAAAC
Statistics
Matches: 197, Mismatches: 23, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
40 14 0.07
41 183 0.93
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:11358807 original size:41 final size:41
Alignment explanation
Indices: 11358625--11358848 Score: 140
Period size: 41 Copynumber: 5.5 Consensus size: 41
11358615 GTGTTTTAGC
* * * *
11358625 AAAAGCGCCGCTAATGCTCTGGTTTTTAGAGGC--GTTTTACCG
1 AAAA-CGCCGCTATTGCTCTGG-TTTTAGCGGCATTTTTTA-CT
* * * * * *
11358667 AAAGCGCCGCTAATGCTCTAGTTTTTAGCTGC--GTTTTACC
1 AAAACGCCGCTATTGCTCT-GGTTTTAGCGGCATTTTTTACT
* * *
11358707 AAAAGCCCCGCTAATGCTCTGGTTTTTAGCGGC--GTTTTACT
1 AAAA-CGCCGCTATTGCTCTGG-TTTTAGCGGCATTTTTTACT
* *
11358748 GAAAGCGCCGCTAATGCTCTGGTTTTAGCGGCATTTTTTACT
1 -AAAACGCCGCTATTGCTCTGGTTTTAGCGGCATTTTTTACT
* * ** *
11358790 AAAACGCCACTGTTGCTCTATTTTTACCGGCATTTTTT--T
1 AAAACGCCGCTATTGCTCTGGTTTTAGCGGCATTTTTTACT
*
11358829 AGAACGCCGCTATTGCTCTG
1 AAAACGCCGCTATTGCTCTG
11358849 AATTTTAAAA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 17 0.11
40 15 0.10
41 106 0.70
42 14 0.09
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (41 bp):
AAAACGCCGCTATTGCTCTGGTTTTAGCGGCATTTTTTACT
Found at i:11358807 original size:123 final size:123
Alignment explanation
Indices: 11358554--11358825 Score: 327
Period size: 123 Copynumber: 2.2 Consensus size: 123
11358544 AAAGCGTCGT
* * * * *
11358554 TAATGCTCTGGTTTTTAACGGCGTTTTAGCAAAAGCGCCGCTAATGCTTTGGTTTTTAGAGGTGT
1 TAATGCTCTAGTTTTTAACGGCGTTTTACCAAAAGCCCCGCTAATGCTCTGGTTTTTAGAGGCGT
* *
11358619 TTTAGCAAAAGCGCCGCTAATGCTCTGGTTTTTAGAGGCGTTTTACCGAAAGCGCCGC
66 TTTAGCAAAAGCGCCGCTAATGCTCTGGTTTTTAGAGGCGTTTTACCGAAAACGCCAC
* * *
11358677 TAATGCTCTAGTTTTTAGCTGCGTTTTACCAAAAGCCCCGCTAATGCTCTGGTTTTTAGCGGCGT
1 TAATGCTCTAGTTTTTAACGGCGTTTTACCAAAAGCCCCGCTAATGCTCTGGTTTTTAGAGGCGT
* * * *
11358742 TTTA-CTGAAAGCGCCGCTAATGCTCTGG-TTTTAGCGGCATTTTTTA-CTAAAACGCCAC
66 TTTAGC-AAAAGCGCCGCTAATGCTCTGGTTTTTAGAGGC--GTTTTACCGAAAACGCCAC
** * *
11358800 TGTTGCTCTA-TTTTTACCGGCATTTT
1 TAATGCTCTAGTTTTTAACGGCGTTTT
11358826 TTTAGAACGC
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
122 23 0.18
123 99 0.78
124 5 0.04
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (123 bp):
TAATGCTCTAGTTTTTAACGGCGTTTTACCAAAAGCCCCGCTAATGCTCTGGTTTTTAGAGGCGT
TTTAGCAAAAGCGCCGCTAATGCTCTGGTTTTTAGAGGCGTTTTACCGAAAACGCCAC
Found at i:11361419 original size:2 final size:2
Alignment explanation
Indices: 11361412--11361441 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11361402 TGTATAGATT
11361412 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11361442 ATTCATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11362178 original size:24 final size:24
Alignment explanation
Indices: 11362146--11362208 Score: 101
Period size: 24 Copynumber: 2.6 Consensus size: 24
11362136 ATCCAAATCA
11362146 GCACACATAGTGCCATTC-AATTCC
1 GCACACATAGTGCCATTCAAATT-C
11362170 GCACACATAGTGCCATTCAAATTC
1 GCACACATAGTGCCATTCAAATTC
*
11362194 GCACACTTAGTGCCA
1 GCACACATAGTGCCA
11362209 ATGTTGACCC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
24 33 0.89
25 4 0.11
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (24 bp):
GCACACATAGTGCCATTCAAATTC
Found at i:11362701 original size:2 final size:2
Alignment explanation
Indices: 11362667--11362692 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11362657 TATATAACAC
11362667 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11362693 TTGTATATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11364926 original size:39 final size:39
Alignment explanation
Indices: 11364874--11365056 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
11364864 AATGTTCGAG
11364874 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
11364913 TGATATCCAGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
11364952 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
11364991 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
11365031 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
11365057 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 86 0.69
40 38 0.31
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:11370099 original size:3 final size:3
Alignment explanation
Indices: 11370093--11370160 Score: 70
Period size: 3 Copynumber: 23.3 Consensus size: 3
11370083 ATCTAAAATT
* ** *
11370093 TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA -AA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11370136 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
11370161 GGTTTCATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
2 5 0.09
3 46 0.85
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:11370162 original size:45 final size:46
Alignment explanation
Indices: 11370089--11370185 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 46
11370079 AAAAATCTAA
*
11370089 AATT-TTATTATTATTAATTATTAGTATGGTTTTATATTAAATTAT
1 AATTATTATTATTATTAATTATTAGTATGGTTTCATATTAAATTAT
* * *
11370134 TATTATTATTATTATT-ATTATTATTATGGTTTCATATTAAGTTAT
1 AATTATTATTATTATTAATTATTAGTATGGTTTCATATTAAATTAT
11370179 AATTATT
1 AATTATT
11370186 TAATCGGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 35 0.76
46 11 0.24
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (46 bp):
AATTATTATTATTATTAATTATTAGTATGGTTTCATATTAAATTAT
Found at i:11370426 original size:23 final size:22
Alignment explanation
Indices: 11370400--11370456 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
11370390 ATAATGACAA
*
11370400 TTGTAATAAAA-ATATTGGTACAT
1 TTGTAATAAAAGATA-T-GTACAC
11370423 TTGTAATAAATAGATATGTACAC
1 TTGTAATAAA-AGATATGTACAC
11370446 TTGTAATAAAA
1 TTGTAATAAAA
11370457 TAACTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 25 0.81
24 2 0.06
25 3 0.10
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (22 bp):
TTGTAATAAAAGATATGTACAC
Found at i:11370686 original size:22 final size:21
Alignment explanation
Indices: 11370654--11370694 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
11370644 TAAACAAAGT
11370654 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
11370675 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
11370695 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:11371461 original size:16 final size:17
Alignment explanation
Indices: 11371440--11371471 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11371430 TGAATATGTA
11371440 TTGAAATTG-AATTGAG
1 TTGAAATTGAAATTGAG
11371456 TTGAAATTGAAATTGA
1 TTGAAATTGAAATTGA
11371472 AAAGTGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
TTGAAATTGAAATTGAG
Found at i:11371612 original size:23 final size:23
Alignment explanation
Indices: 11371582--11371637 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
11371572 CAGACACATT
11371582 ATGTGTCGTATTTTAGGCACCTC
1 ATGTGTCGTATTTTAGGCACCTC
* * *
11371605 GTGTGTCG--TTTTAGGCACTTT
1 ATGTGTCGTATTTTAGGCACCTC
11371626 ATGTGTCGTATT
1 ATGTGTCGTATT
11371638 CTGATCAGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 18 0.67
23 9 0.33
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (23 bp):
ATGTGTCGTATTTTAGGCACCTC
Found at i:11371917 original size:18 final size:18
Alignment explanation
Indices: 11371894--11371929 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11371884 ACACGTGATA
11371894 TGTGATGGAAATTGAAGC
1 TGTGATGGAAATTGAAGC
11371912 TGTGATGGAAATTGAAGC
1 TGTGATGGAAATTGAAGC
11371930 ATAGTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.33, T:0.28
Consensus pattern (18 bp):
TGTGATGGAAATTGAAGC
Found at i:11373433 original size:35 final size:35
Alignment explanation
Indices: 11373394--11373466 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
11373384 AACATCTAAT
11373394 GTCCATCAATGAAAACTTCCAAAATTTTTAATAAA
1 GTCCATCAATGAAAACTTCCAAAATTTTTAATAAA
*
11373429 GTCCATCAATGAAAACTTTCAAAATTTTTAATAAA
1 GTCCATCAATGAAAACTTCCAAAATTTTTAATAAA
11373464 GTC
1 GTC
11373467 AAAAATAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (35 bp):
GTCCATCAATGAAAACTTCCAAAATTTTTAATAAA
Found at i:11375130 original size:19 final size:20
Alignment explanation
Indices: 11375102--11375141 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11375092 AAATATTAAA
* *
11375102 AACTTCATTA-TAATAATAT
1 AACTTAATTACTAAAAATAT
11375121 AACTTAATTACTAAAAATAT
1 AACTTAATTACTAAAAATAT
11375141 A
1 A
11375142 TTTTTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
AACTTAATTACTAAAAATAT
Found at i:11375141 original size:20 final size:19
Alignment explanation
Indices: 11375082--11375141 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 19
11375072 TGAATTTTTA
11375082 TTAATTATAAAAATATTAAAAAC
1 TTAATTATAAAAATA-T---AAC
* *
11375105 TTCATTATAATAATATAAC
1 TTAATTATAAAAATATAAC
11375124 TTAATTACTAAAAATATA
1 TTAATTA-TAAAAATATA
11375142 TTTTTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 9 0.28
20 9 0.28
22 1 0.03
23 13 0.41
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAATTATAAAAATATAAC
Found at i:11376413 original size:21 final size:21
Alignment explanation
Indices: 11376388--11376427 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11376378 GCATTTAAGG
11376388 TTACATTAGCCTTTTTAACAA
1 TTACATTAGCCTTTTTAACAA
11376409 TTACATTAGCCTTTTTAAC
1 TTACATTAGCCTTTTTAAC
11376428 CCTCCATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (21 bp):
TTACATTAGCCTTTTTAACAA
Found at i:11377572 original size:27 final size:26
Alignment explanation
Indices: 11377538--11377625 Score: 115
Period size: 26 Copynumber: 3.3 Consensus size: 26
11377528 TGTCTCTTCT
11377538 CCTCCACCTTCATCACCACCCCCCTCC
1 CCTCCACCTTCATCACCA-CCCCCTCC
11377565 CCTCCACCTTCATCACCACCCCCTCC
1 CCTCCACCTTCATCACCACCCCCTCC
* * *
11377591 CCTCCACC-TCAATCCCCACCACCACC
1 CCTCCACCTTC-ATCACCACCCCCTCC
11377617 ACCTCCACC
1 -CCTCCACC
11377626 ATTAGTGCCT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
25 2 0.04
26 28 0.50
27 26 0.46
ACGTcount: A:0.18, C:0.66, G:0.00, T:0.16
Consensus pattern (26 bp):
CCTCCACCTTCATCACCACCCCCTCC
Found at i:11377664 original size:24 final size:24
Alignment explanation
Indices: 11377609--11377667 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
11377599 TCAATCCCCA
* * * *
11377609 CCACCACCACCTCCACCATTAGTG
1 CCACCACCACCACCACCATCAATC
**
11377633 CCTTCACCACCACCACCATCAATC
1 CCACCACCACCACCACCATCAATC
11377657 CCACCACCACC
1 CCACCACCACC
11377668 GCTAGTTCTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.56, G:0.03, T:0.14
Consensus pattern (24 bp):
CCACCACCACCACCACCATCAATC
Done.