Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 10 of 54
Found at i:4822575 original size:49 final size:52
Alignment explanation
Indices: 4822509--4822655 Score: 158
Period size: 52 Copynumber: 2.9 Consensus size: 52
4822499 TTTGAAGAAC
* * * * *
4822509 ATATTGTTGTTATATATCTATGTCAATAACAGATAAAATAGGTTTTA-A-GT
1 ATATTGTTGTCACATATCCATGTCAATAACAAATAAGATAGGTTTTAGAGGT
***
4822559 ATA-TGTTGTCACATATCCGCATCAATAACAAATAAGAT-GGATTTTAGAGGT
1 ATATTGTTGTCACATATCCATGTCAATAACAAATAAGATAGG-TTTTAGAGGT
* * *
4822610 GTATTGTTATCACATATCCATGTCAATAACAAATAAGATAAGTTTT
1 ATATTGTTGTCACATATCCATGTCAATAACAAATAAGATAGGTTTT
4822656 TAAAGGTGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
48 2 0.03
49 32 0.41
50 4 0.05
51 4 0.05
52 35 0.45
53 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (52 bp):
ATATTGTTGTCACATATCCATGTCAATAACAAATAAGATAGGTTTTAGAGGT
Found at i:4822636 original size:52 final size:53
Alignment explanation
Indices: 4822531--4822731 Score: 180
Period size: 52 Copynumber: 3.9 Consensus size: 53
4822521 TATATCTATG
* * * * *
4822531 TCAATAACAGATAAAATAGG-TTTTA-A-GTATA-TGTTGTCACATATCCGCA
1 TCAATAACAAATAAGATAGGATTTTAGAGGTGTATTGTTATCACATATCCACA
**
4822580 TCAATAACAAATAAGAT-GGATTTTAGAGGTGTATTGTTATCACATATCCATG
1 TCAATAACAAATAAGATAGGATTTTAGAGGTGTATTGTTATCACATATCCACA
* * * * ** *
4822632 TCAATAACAAATAAGATAAGTTTTTAAAGGTGAATTACTATCATATATCCACA
1 TCAATAACAAATAAGATAGGATTTTAGAGGTGTATTGTTATCACATATCCACA
* * * * * *
4822685 TTAGTAATAGATAAGATAAG-TTTTAGAGGCGTATTGTTATCACATAT
1 TCAATAACAAATAAGATAGGATTTTAGAGGTGTATTGTTATCACATAT
4822732 TCACGTTAGT
Statistics
Matches: 121, Mismatches: 26, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
48 2 0.02
49 20 0.17
50 1 0.01
51 4 0.03
52 52 0.43
53 42 0.35
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (53 bp):
TCAATAACAAATAAGATAGGATTTTAGAGGTGTATTGTTATCACATATCCACA
Found at i:4822680 original size:53 final size:52
Alignment explanation
Indices: 4822580--4822682 Score: 134
Period size: 53 Copynumber: 2.0 Consensus size: 52
4822570 CATATCCGCA
* * * **
4822580 TCAATAACAAATAAGATGGATTTTAGAGGTGTATTGTTATCACATATCCATG
1 TCAATAACAAATAAGATAGATTTTAAAGGTGAATTACTATCACATATCCATG
* *
4822632 TCAATAACAAATAAGATAAGTTTTTAAAGGTGAATTACTATCATATATCCA
1 TCAATAACAAATAAGAT-AGATTTTAAAGGTGAATTACTATCACATATCCA
4822683 CATTAGTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 17 0.40
53 26 0.60
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (52 bp):
TCAATAACAAATAAGATAGATTTTAAAGGTGAATTACTATCACATATCCATG
Found at i:4822699 original size:53 final size:52
Alignment explanation
Indices: 4822642--4822750 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
4822632 TCAATAACAA
* *
4822642 ATAAGATAAGTTTTTAAAGGTGAATTACTATCATATATCCACATTAGTAATAG
1 ATAAGATAAG-TTTTAAAGGCGAATTACTATCACATATCCACATTAGTAATAG
* * ** * *
4822695 ATAAGATAAGTTTTAGAGGCGTATTGTTATCACATATTCACGTTAGTAATAG
1 ATAAGATAAGTTTTAAAGGCGAATTACTATCACATATCCACATTAGTAATAG
4822747 ATAA
1 ATAA
4822751 TATGGGTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 38 0.79
53 10 0.21
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (52 bp):
ATAAGATAAGTTTTAAAGGCGAATTACTATCACATATCCACATTAGTAATAG
Found at i:4822741 original size:52 final size:53
Alignment explanation
Indices: 4822600--4822750 Score: 178
Period size: 53 Copynumber: 2.9 Consensus size: 53
4822590 ATAAGATGGA
* * * * *
4822600 TTTTAGAGGTGTATTGTTATCACATATCCATGTCAATAACAAATAAGATAAGT
1 TTTTAGAGGTGTATTGTTATCACATATCCACGTTAGTAATAGATAAGATAAGT
* * ** * *
4822653 TTTTAAAGGTGAATTACTATCATATATCCACATTAGTAATAGATAAGATAAG-
1 TTTTAGAGGTGTATTGTTATCACATATCCACGTTAGTAATAGATAAGATAAGT
* *
4822705 TTTTAGAGGCGTATTGTTATCACATATTCACGTTAGTAATAGATAA
1 TTTTAGAGGTGTATTGTTATCACATATCCACGTTAGTAATAGATAA
4822751 TATGGGTTTT
Statistics
Matches: 79, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
52 38 0.48
53 41 0.52
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (53 bp):
TTTTAGAGGTGTATTGTTATCACATATCCACGTTAGTAATAGATAAGATAAGT
Found at i:4823063 original size:24 final size:25
Alignment explanation
Indices: 4823026--4823079 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
4823016 AGGTGGTTGG
*
4823026 ATAAAATGTCATGTAACCCACATCT
1 ATAAAATGTAATGTAACCCACATCT
*
4823051 -TAAAATGTAATGTAGCCCACATCT
1 ATAAAATGTAATGTAACCCACATCT
4823075 ATAAA
1 ATAAA
4823080 TACGAGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (25 bp):
ATAAAATGTAATGTAACCCACATCT
Found at i:4835800 original size:144 final size:144
Alignment explanation
Indices: 4835608--4835904 Score: 445
Period size: 144 Copynumber: 2.1 Consensus size: 144
4835598 TTCGTGTCGT
* * * *
4835608 ATTCCTGAATTCATTGGTTCTCTTACAGAATTGACCTATCTTGCTCTCTCT-AATTCTCA-TATT
1 ATTCCTGAATTCATTGGTTCTCTTACAAAATTGACCTATCTCGATCTCTCTGAA-TCTCAGT-TG
* * * *
4835671 ATTGGACCAATTCCTTCTCAGTTAGGAAACCTTTTGAGATTGGTCACTCTTGATCTTTCATCAAA
64 ACTGGACCAATTCCTTCTCAGCTAGGAAACCTTTCGAGATTGGTCACTCTTGATCTCTCATCAAA
* **
4835736 TCCGTTGGGAAGTTCA
129 TCAGTTGACAAGTTCA
*
4835752 ATTCCTGAGTTCATTGGTTCTCTTACAAAATTGACCTATCTCGATCTCTCTGAATCTCAGTTGAC
1 ATTCCTGAATTCATTGGTTCTCTTACAAAATTGACCTATCTCGATCTCTCTGAATCTCAGTTGAC
4835817 TGGACCAATTCCTTCTCAGCTAGGAAACCTTTCGAGATTGGTCACTCTTGATCTCTCATCAAATC
66 TGGACCAATTCCTTCTCAGCTAGGAAACCTTTCGAGATTGGTCACTCTTGATCTCTCATCAAATC
*
4835882 AGTTGACAGGTTCA
131 AGTTGACAAGTTCA
4835896 ATTCCTGAA
1 ATTCCTGAA
4835905 ACTTTTGGGA
Statistics
Matches: 137, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
144 134 0.98
145 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (144 bp):
ATTCCTGAATTCATTGGTTCTCTTACAAAATTGACCTATCTCGATCTCTCTGAATCTCAGTTGAC
TGGACCAATTCCTTCTCAGCTAGGAAACCTTTCGAGATTGGTCACTCTTGATCTCTCATCAAATC
AGTTGACAAGTTCA
Found at i:4835898 original size:72 final size:71
Alignment explanation
Indices: 4835678--4835901 Score: 161
Period size: 72 Copynumber: 3.1 Consensus size: 71
4835668 ATTATTGGAC
* * *
4835678 CAATTCCTTCTCAGTTAGGAAACCTTTTGAGATTGGTCACTCTTGATCTTTCATCAAATCCGTTG
1 CAATTCCTTCTCAG-TAGGAAACCTTTCGAGATTGGTCACTCTTGATCTCTCATCAAATCAGTTG
** *
4835743 GGAAGTT
65 ACAGGTT
* ** * * * ** * * *
4835750 CAATTCCTGAGT-TCA-TTGG-TTCTCTTACAAAATTGACCTA-TCTCGATCTCTC-TGAATCTC
1 CAATTCCT---TCTCAGTAGGAAAC-CTTTCGAGATTGGTC-ACTCTTGATCTCTCATCAA-ATC
* **
4835810 AGTTGACTGGAC
60 AGTTGACAGGTT
4835822 CAATTCCTTCTCAGCTAGGAAACCTTTCGAGATTGGTCACTCTTGATCTCTCATCAAATCAGTTG
1 CAATTCCTTCTCAG-TAGGAAACCTTTCGAGATTGGTCACTCTTGATCTCTCATCAAATCAGTTG
4835887 ACAGGTT
65 ACAGGTT
4835894 CAATTCCT
1 CAATTCCT
4835902 GAAACTTTTG
Statistics
Matches: 106, Mismatches: 34, Indels: 24
0.65 0.21 0.15
Matches are distributed among these distances:
69 1 0.01
70 3 0.03
71 5 0.05
72 88 0.83
73 5 0.05
74 3 0.03
75 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (71 bp):
CAATTCCTTCTCAGTAGGAAACCTTTCGAGATTGGTCACTCTTGATCTCTCATCAAATCAGTTGA
CAGGTT
Found at i:4845281 original size:31 final size:31
Alignment explanation
Indices: 4845246--4845416 Score: 193
Period size: 31 Copynumber: 5.5 Consensus size: 31
4845236 AATAAGGAAT
* * *
4845246 AAATGTTGTGAAACACCATGAATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGCA
* *
4845277 AAATGTTGTGACATGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGCA
* * *
4845308 AAATATTGTGACACGTCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGCA
* *
4845339 AAATCTTGTGACACGTCATGCATAACAAGTC-
1 AAATGTTGTGACACGCCATGCATAACAAG-CA
*
4845370 AAATGTTGTGACACGCCATGCATATCAAGTC-
1 AAATGTTGTGACACGCCATGCATAACAAG-CA
* *
4845401 AAATGTTATCACACGC
1 AAATGTTGTGACACGC
4845417 TAACGTTGAC
Statistics
Matches: 124, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
31 124 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGCA
Found at i:4845970 original size:47 final size:47
Alignment explanation
Indices: 4845899--4846053 Score: 237
Period size: 47 Copynumber: 3.3 Consensus size: 47
4845889 TCTCTATTTC
* *
4845899 AAACCATGACTTGTCAGTTGTTCAAGCAATGCCTTGTCACACACTCT
1 AAACCATGGCGTGTCAGTTGTTCAAGCAATGCCTTGTCACACACTCT
*
4845946 AAACCATGGCGTGTCAGCTT-TTCAAGCAATG-TTGTGTCACACACTCT
1 AAACCATGGCGTGTCAG-TTGTTCAAGCAATGCCT-TGTCACACACTCT
4845993 AAACCATGGCGTGTCAGTTGTTCAAGCAATGCCTTGTCACACACTCT
1 AAACCATGGCGTGTCAGTTGTTCAAGCAATGCCTTGTCACACACTCT
4846040 AAA-CATGG-GTGTCA
1 AAACCATGGCGTGTCA
4846054 CCAACTCTGA
Statistics
Matches: 100, Mismatches: 4, Indels: 10
0.88 0.04 0.09
Matches are distributed among these distances:
45 6 0.06
46 8 0.08
47 83 0.83
48 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (47 bp):
AAACCATGGCGTGTCAGTTGTTCAAGCAATGCCTTGTCACACACTCT
Found at i:4846102 original size:47 final size:47
Alignment explanation
Indices: 4846043--4846361 Score: 327
Period size: 47 Copynumber: 6.8 Consensus size: 47
4846033 ACACTCTAAA
* * * *
4846043 CATGG-GTGTCACCAACTCTGAACTCTGGCTTGTTATAGTTTCCCTC
1 CATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCTC
* * * *
4846089 AATGGCGTGTCACCAACTCTGAACTCTGGCATGTCACAAATTCTCTC
1 CATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCTC
* * * * * * *
4846136 TATGGCATCTCACAAACTTTGAACGCTGGCGTGTCACAGATTCCTTC
1 CATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCTC
* * *
4846183 CATGTCGTGTCACCAACTCTGAACTTTGGCGTGTCACAGATTCCTTC
1 CATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCTC
* * * *
4846230 CATGGCGTCTCACCAACTCT-AAATGCTGACGTGTCACAGATTCCCAC
1 CATGGCGTGTCACCAACTCTGAACT-CTGGCGTGTCACAGATTCCCTC
* * * * *
4846277 CATGGCATGCCACCAACTCTTAACTCTGGCGTATCACAGATTTCCTC
1 CATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCTC
* ** * *
4846324 TATGGTATCTCACCAACTCTGAACGCTGGCGTGTCACA
1 CATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACA
4846362 ACCATGTCAC
Statistics
Matches: 223, Mismatches: 47, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
46 7 0.03
47 213 0.96
48 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGGCGTGTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCTC
Found at i:4846235 original size:94 final size:94
Alignment explanation
Indices: 4846051--4846361 Score: 365
Period size: 94 Copynumber: 3.3 Consensus size: 94
4846041 AACATGGGTG
* * * * * * *
4846051 TCACCAACTCTGAACTCTGGCTTGTTATAGTTTCCCTCAATGGCGTGTCACCAACTCTGAACTCT
1 TCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCACCATGGCGTGTCACCAACTCTGAACTCT
* *
4846116 GGCATGTCACAAATT-CTCTCTATGGCATC
66 GGCGTGTCACAGATTCCT-TCTATGGCATC
* * ** * *
4846145 TCACAAACTTTGAACGCTGGCGTGTCACAGATTCCTTCCATGTCGTGTCACCAACTCTGAACTTT
1 TCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCACCATGGCGTGTCACCAACTCTGAACTCT
* *
4846210 GGCGTGTCACAGATTCCTTCCATGGCGTC
66 GGCGTGTCACAGATTCCTTCTATGGCATC
* * * * * *
4846239 TCACCAACTCTAAATGCTGACGTGTCACAGATTCCCACCATGGCATGCCACCAACTCTTAACTCT
1 TCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCACCATGGCGTGTCACCAACTCTGAACTCT
* *
4846304 GGCGTATCACAGATTTCC-TCTATGGTATC
66 GGCGTGTCACAGA-TTCCTTCTATGGCATC
4846333 TCACCAACTCTGAACGCTGGCGTGTCACA
1 TCACCAACTCTGAACGCTGGCGTGTCACA
4846362 ACCATGTCAC
Statistics
Matches: 181, Mismatches: 34, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
94 175 0.97
95 6 0.03
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (94 bp):
TCACCAACTCTGAACGCTGGCGTGTCACAGATTCCCACCATGGCGTGTCACCAACTCTGAACTCT
GGCGTGTCACAGATTCCTTCTATGGCATC
Found at i:4847546 original size:24 final size:24
Alignment explanation
Indices: 4847519--4847566 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
4847509 AAGAAAAGAC
4847519 GGTGCATGTTCCCTTAAGATGTAT
1 GGTGCATGTTCCCTTAAGATGTAT
4847543 GGTGCATGTTCCCTTAAGATGTAT
1 GGTGCATGTTCCCTTAAGATGTAT
4847567 AAGAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.38
Consensus pattern (24 bp):
GGTGCATGTTCCCTTAAGATGTAT
Found at i:4855482 original size:144 final size:144
Alignment explanation
Indices: 4855290--4855567 Score: 382
Period size: 144 Copynumber: 1.9 Consensus size: 144
4855280 TTGGTGTCGC
* *** *
4855290 ATTCCCGAATTCATTGGTTCTCTTACAGAATTGACCTATCTTGCTCTCTCT-AATTCTC-GTTTT
1 ATTCCCGAATTCATTGGTTCTCTTACAAAATTGACCTATCTCAATCTCTCTGAA-TCTCAG-CTT
* * *
4855353 ATTGGACCAATTCCTTCTAAGCTAGGAAACCTTTCGAGATTGGTCACTCTTGATCTCTCATCAAA
64 ACTGGACCAATACCTTCTAAGCTAGGAAACCTTTCGAAATTGGTCACTCTTGATCTCTCATCAAA
4855418 TCAGTTGGGAAGTTCA
129 TCAGTTGGGAAGTTCA
*
4855434 ATTCCCGAGTTCATTGGTTCTCTTACAAAATTGACC-ATTCTCAATCTCTCTGAATCTCAGCTTA
1 ATTCCCGAATTCATTGGTTCTCTTACAAAATTGACCTA-TCTCAATCTCTCTGAATCTCAGCTTA
* * * * *
4855498 CTGGACCAATACCTTTTCAGTTAGGAAACCTTTCGAAATTGGTCAGTCTTGATCTCTCATCGAAT
65 CTGGACCAATACCTTCTAAGCTAGGAAACCTTTCGAAATTGGTCACTCTTGATCTCTCATCAAAT
4855563 CAGTT
130 CAGTT
4855568 TATAGGTTCG
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
143 1 0.01
144 113 0.97
145 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (144 bp):
ATTCCCGAATTCATTGGTTCTCTTACAAAATTGACCTATCTCAATCTCTCTGAATCTCAGCTTAC
TGGACCAATACCTTCTAAGCTAGGAAACCTTTCGAAATTGGTCACTCTTGATCTCTCATCAAATC
AGTTGGGAAGTTCA
Found at i:4855782 original size:198 final size:198
Alignment explanation
Indices: 4855434--4855830 Score: 582
Period size: 198 Copynumber: 2.0 Consensus size: 198
4855424 GGGAAGTTCA
* *
4855434 ATTCCCGAGTTCATTGGTTCTCTTACAAAATTGACCATTCTCAATCTCTCTGAATCTCAGCTTAC
1 ATTCCCGAATTCATTGGTTCTCTTACAAAATTGACCATTCTCAATCTCTCTGAATCTCAACTTAC
* * * * *
4855499 TGGACCAATACCTTTTCAGTTAGGAAACCTTTCGAAATTGGTCAGTCTTGATCTCTCATCGAATC
66 TGGACCAATACCCTCTCAGCTAGGAAACCTTTCGAAATTGGACAGTCTTGATCTCTCATCAAATC
* * * * *
4855564 AGTTTATAGGTTCGATTCCTGAAACTTTTGGGAACTTGGTTGCCATGAGAGCACTTACTCTAAGC
131 AGTTGACAGGTTCAATTCCTGAAACTTTTGAGAACTTGGTTGCCATGAGAGAACTTACTCTAAGC
4855629 CGC
196 CGC
* ** *
4855632 ATTCCCGAATTCATTGGTTCTCTTACAAAATTGGTCCA-TCTGGATCTCTCTGAATCTCAATTTA
1 ATTCCCGAATTCATTGGTTCTCTTACAAAATT-GACCATTCTCAATCTCTCTGAATCTCAACTTA
* *
4855696 CTGGACCAATTCCCTCTCAGCTAGGAAACCTTTCGAGATTGGAC-GCTCTTGATCTCTCATCAAA
65 CTGGACCAATACCCTCTCAGCTAGGAAACCTTTCGAAATTGGACAG-TCTTGATCTCTCATCAAA
* *
4855760 TCAGTTGACAGGTTCAATTCCTGAAACTTTTGAGAACTTGGTTGCTATTAGAGAACTTACTCTAA
129 TCAGTTGACAGGTTCAATTCCTGAAACTTTTGAGAACTTGGTTGCCATGAGAGAACTTACTCTAA
4855825 GCCGC
194 GCCGC
4855830 A
1 A
4855831 ATCTGCTTCA
Statistics
Matches: 177, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
197 1 0.01
198 172 0.97
199 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (198 bp):
ATTCCCGAATTCATTGGTTCTCTTACAAAATTGACCATTCTCAATCTCTCTGAATCTCAACTTAC
TGGACCAATACCCTCTCAGCTAGGAAACCTTTCGAAATTGGACAGTCTTGATCTCTCATCAAATC
AGTTGACAGGTTCAATTCCTGAAACTTTTGAGAACTTGGTTGCCATGAGAGAACTTACTCTAAGC
CGC
Found at i:4859710 original size:26 final size:24
Alignment explanation
Indices: 4859666--4859713 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
4859656 TACTTTAAGG
4859666 ATTTTTTTAGATATTATGCTTAAT
1 ATTTTTTTAGATATTATGCTTAAT
*
4859690 ATTTTTTGTGGATATTAATGCTTA
1 ATTTTTT-TAGATATT-ATGCTTA
4859714 TCATCTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 7 0.33
26 7 0.33
ACGTcount: A:0.27, C:0.04, G:0.12, T:0.56
Consensus pattern (24 bp):
ATTTTTTTAGATATTATGCTTAAT
Found at i:4865207 original size:8 final size:9
Alignment explanation
Indices: 4865188--4865303 Score: 53
Period size: 9 Copynumber: 12.3 Consensus size: 9
4865178 CTTTTACTGA
4865188 TTTCCTTTT
1 TTTCCTTTT
4865197 TTTCCTTTT
1 TTTCCTTTT
*
4865206 TTCTACTATCATT
1 TT-TCCT-T--TT
* *
4865219 TCTCTTTTTTT
1 TTTC-CTTT-T
4865230 TTTCC-TTT
1 TTTCCTTTT
*
4865238 CTTCCTTTTT
1 TTTCC-TTTT
*
4865248 CTTTCTTTTT
1 -TTTCCTTTT
4865258 TTTCC---T
1 TTTCCTTTT
4865264 TTT-CTATTT
1 TTTCCT-TTT
4865273 TTTCACTTTT
1 TTTC-CTTTT
4865283 TTTCCTTTT
1 TTTCCTTTT
*
4865292 TTTTCTTTT
1 TTTCCTTTT
4865301 TTT
1 TTT
4865304 TAAATATATA
Statistics
Matches: 81, Mismatches: 11, Indels: 30
0.66 0.09 0.25
Matches are distributed among these distances:
5 1 0.01
6 4 0.05
8 5 0.06
9 37 0.46
10 18 0.22
11 10 0.12
12 2 0.02
13 4 0.05
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTCCTTTT
Found at i:4865245 original size:20 final size:20
Alignment explanation
Indices: 4865217--4865295 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 20
4865207 TCTACTATCA
4865217 TTTCTCTTTTTTTTTTCCTTT
1 TTTC-CTTTTTTTTTTCCTTT
*
4865238 CTTCCTTTTTCTTTCTT--TTT
1 TTTCCTTTTT-TTT-TTCCTTT
4865258 TTTCCTTTTCTATTTTTTCACTTTT
1 TTTCC-TTT-T-TTTTTTC-C-TTT
4865283 TTTCCTTTTTTTT
1 TTTCCTTTTTTTT
4865296 CTTTTTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
20 13 0.28
21 11 0.23
22 10 0.21
23 2 0.04
24 3 0.06
25 8 0.17
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCCTTTTTTTTTTCCTTT
Found at i:4865273 original size:26 final size:25
Alignment explanation
Indices: 4865217--4865304 Score: 71
Period size: 25 Copynumber: 3.5 Consensus size: 25
4865207 TCTACTATCA
4865217 TTTCTCTT-TTTTTTTTCCTTTCTTCCTT
1 TTTCT-TTCTTTTTTTTCC-TT-TTCC-T
4865245 TTTCTTTCTTTTTTTTCCTTTT-CT
1 TTTCTTTCTTTTTTTTCCTTTTCCT
*
4865269 ATTT-TTTCACTTTTTTTCCTTTT--T
1 -TTTCTTTC-TTTTTTTTCCTTTTCCT
4865293 TTTCTTT-TTTTT
1 TTTCTTTCTTTTT
4865305 AAATATATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
22 4 0.07
23 3 0.06
24 9 0.17
25 17 0.31
26 2 0.04
27 4 0.07
28 15 0.28
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTCTTTCTTTTTTTTCCTTTTCCT
Found at i:4865274 original size:28 final size:28
Alignment explanation
Indices: 4865143--4865301 Score: 80
Period size: 28 Copynumber: 5.4 Consensus size: 28
4865133 ATTTATTTTA
* *
4865143 TTTCTTCTTTTTCTTTGTTTTTCTTTTCCC
1 TTTCTTCTTTTTCTTT-CTTTT-TTTTCCT
* *
4865173 TTT-TTCTTTTACTGATTTCCTTTTTTTCCTTT
1 TTTCTTCTTTT--T-CTTTCTTTTTTTTCC--T
*
4865205 TTTCTACTATCATTTCTCTT-TTTTTTTTCC-
1 TTTCTTCT-T--TTTCT-TTCTTTTTTTTCCT
4865235 TTTCTTCCTTTTTCTTTCTTTTTTTTCCT
1 TTTCTT-CTTTTTCTTTCTTTTTTTTCCT
*
4865264 TTTCTAT-TTTTTC--AC-TTTTTTTCCTT
1 TTTCT-TCTTTTTCTTTCTTTTTTTTCC-T
*
4865290 TTTTTTCTTTTT
1 TTTCTTCTTTTT
4865302 TTTAAATATA
Statistics
Matches: 103, Mismatches: 10, Indels: 36
0.69 0.07 0.24
Matches are distributed among these distances:
25 10 0.10
26 11 0.11
27 2 0.02
28 21 0.20
29 12 0.12
30 16 0.16
31 6 0.06
32 6 0.06
33 13 0.13
34 4 0.04
36 2 0.02
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.74
Consensus pattern (28 bp):
TTTCTTCTTTTTCTTTCTTTTTTTTCCT
Found at i:4865304 original size:9 final size:9
Alignment explanation
Indices: 4865225--4865304 Score: 63
Period size: 9 Copynumber: 8.9 Consensus size: 9
4865215 CATTTCTCTT
4865225 TTTTTTTTC
1 TTTTTTTTC
* * *
4865234 CTTTCTTCC
1 TTTTTTTTC
4865243 TTTTTCTTTC
1 TTTTT-TTTC
4865253 TTTTTTTTC
1 TTTTTTTTC
* * *
4865262 -CTTTTCTA
1 TTTTTTTTC
**
4865270 TTTTTTCAC
1 TTTTTTTTC
*
4865279 TTTTTTTCC
1 TTTTTTTTC
4865288 TTTTTTTTC
1 TTTTTTTTC
4865297 TTTTTTTT
1 TTTTTTTT
4865305 AAATATATAT
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
8 5 0.09
9 41 0.76
10 8 0.15
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:4865901 original size:13 final size:13
Alignment explanation
Indices: 4865879--4865953 Score: 55
Period size: 13 Copynumber: 5.8 Consensus size: 13
4865869 GGACAATTTT
*
4865879 TTTCTTTTTTCTC
1 TTTCTCTTTTCTC
4865892 TTTCTCTTTT-TC
1 TTTCTCTTTTCTC
* *
4865904 TTT-TCTTTCTTTGT
1 TTTCTCTTT-TCT-C
* *
4865918 TTTTTCTTTTCTT
1 TTTCTCTTTTCTC
*
4865931 TTTCTCTTTTTTC
1 TTTCTCTTTTCTC
*
4865944 TTTCACTTTT
1 TTTCTCTTTT
4865954 TTGTTTTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
11 5 0.10
12 6 0.12
13 30 0.59
14 5 0.10
15 5 0.10
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.77
Consensus pattern (13 bp):
TTTCTCTTTTCTC
Found at i:4865908 original size:26 final size:26
Alignment explanation
Indices: 4865877--4865954 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
4865867 ATGGACAATT
4865877 TTTTTCTTTTTTCTCTTTCTCTTTTTC
1 TTTTTCTTTTTT-TCTTTCTCTTTTTC
*
4865904 -TTTTCTTTCTTTGT-TTTTTC-TTTTC
1 TTTTTCTTT-TTT-TCTTTCTCTTTTTC
*
4865929 TTTTTCTCTTTTTTCTTTCACTTTTT
1 TTTTTCT-TTTTTTCTTTCTCTTTTT
4865955 TGTTTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
25 6 0.14
26 26 0.62
27 10 0.24
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTTTCTTTTTTTCTTTCTCTTTTTC
Found at i:4865935 original size:39 final size:41
Alignment explanation
Indices: 4865876--4865961 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 41
4865866 AATGGACAAT
*
4865876 TTTTTTCTTTTTTCTCTTTCTC-TTTTTCTTT-TCTTTCTTTG
1 TTTTTTC-TTTTTCTCTTTCTCTTTTTTCTTTCACTTT-TTTG
*
4865917 TTTTTTC-TTTTCTTTTTCTCTTTTTTCTTTCACTTTTTTG
1 TTTTTTCTTTTTCTCTTTCTCTTTTTTCTTTCACTTTTTTG
4865957 TTTTT
1 TTTTT
4865962 AAACTTAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
39 12 0.29
40 18 0.44
41 11 0.27
ACGTcount: A:0.01, C:0.17, G:0.02, T:0.79
Consensus pattern (41 bp):
TTTTTTCTTTTTCTCTTTCTCTTTTTTCTTTCACTTTTTTG
Found at i:4865960 original size:20 final size:19
Alignment explanation
Indices: 4865876--4865961 Score: 84
Period size: 20 Copynumber: 4.3 Consensus size: 19
4865866 AATGGACAAT
*
4865876 TTTTTTCTTTT-TTCTCTTTC
1 TTTTTTCTTTTCTT-T-TTTG
4865896 TCTTTTTCTTTTCTTTCTTTG
1 T-TTTTTCTTTTCTTT-TTTG
*
4865917 TTTTTTCTTTTCTTTTTCTC
1 TTTTTTCTTTTCTTTTT-TG
*
4865937 TTTTTTCTTTCACTTTTTTG
1 TTTTTTCTTT-TCTTTTTTG
4865957 TTTTT
1 TTTTT
4865962 AAACTTAAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.03
20 32 0.55
21 22 0.38
22 2 0.03
ACGTcount: A:0.01, C:0.17, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTCTTTTCTTTTTTG
Found at i:4871478 original size:18 final size:18
Alignment explanation
Indices: 4871450--4871491 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
4871440 TTTTTAGGTA
4871450 TTATGTTGCTAGTTTTTAG
1 TTAT-TTGCTAGTTTTTAG
4871469 TTATTTGCTAGTTTTTAG
1 TTATTTGCTAGTTTTTAG
*
4871487 ATATT
1 TTATT
4871492 GCGAGATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.19, C:0.05, G:0.17, T:0.60
Consensus pattern (18 bp):
TTATTTGCTAGTTTTTAG
Found at i:4871565 original size:22 final size:22
Alignment explanation
Indices: 4871540--4871592 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
4871530 GTGTCTCTAA
**
4871540 TTTTTAGGCATTGTGTGACTAG
1 TTTTTAGGCATTGCATGACTAG
* *
4871562 -TTTTAAGCATTGCATGACTGG
1 TTTTTAGGCATTGCATGACTAG
4871583 TTTTTAGGCA
1 TTTTTAGGCA
4871593 ATGCCTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.21, C:0.11, G:0.25, T:0.43
Consensus pattern (22 bp):
TTTTTAGGCATTGCATGACTAG
Found at i:4871894 original size:51 final size:50
Alignment explanation
Indices: 4871794--4871906 Score: 172
Period size: 51 Copynumber: 2.2 Consensus size: 50
4871784 TATTTGGTGA
* * * *
4871794 AAAATACTCAAAATGCTCAAAGTTTTTCTTCATGTATCAAATACTACTCC
1 AAAATGCTCAAAATGCTCAAAGTTTTTCTTCATGTATAAAAAACCACTCC
*
4871844 AAAATGCTTAAAATGCTCAAAGGTTTTTCTTCATGTATAAAAAACCACTCC
1 AAAATGCTCAAAATGCTCAAA-GTTTTTCTTCATGTATAAAAAACCACTCC
4871895 AAAATGCTCAAA
1 AAAATGCTCAAA
4871907 GCATTTAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
50 19 0.34
51 37 0.66
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (50 bp):
AAAATGCTCAAAATGCTCAAAGTTTTTCTTCATGTATAAAAAACCACTCC
Found at i:4871924 original size:51 final size:50
Alignment explanation
Indices: 4871794--4871925 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 50
4871784 TATTTGGTGA
* * * * *
4871794 AAAATACTCAAAATGCTCAAA-GTTTTTCTTCATGTATCAAATACTACTCC
1 AAAATGCTCAAAAT-CTCAAAGGTATTTCTTCATGTATAAAAAACCACTCC
* *
4871844 AAAATGCTTAAAATGCTCAAAGGTTTTTCTTCATGTATAAAAAACCACTCC
1 AAAATGCTCAAAAT-CTCAAAGGTATTTCTTCATGTATAAAAAACCACTCC
*
4871895 AAAATGCTCAAAGCAT-TTAAAGGTATTTCTT
1 AAAATGCTCAAA--ATCTCAAAGGTATTTCTT
4871926 TCTGAAGATG
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
50 19 0.27
51 50 0.70
53 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (50 bp):
AAAATGCTCAAAATCTCAAAGGTATTTCTTCATGTATAAAAAACCACTCC
Found at i:4880273 original size:20 final size:20
Alignment explanation
Indices: 4880235--4880275 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4880225 GCCAAGAATA
*
4880235 TAAAAAATATTCTAGAAAAT
1 TAAAAAATATTCTAAAAAAT
4880255 TAAATAAATATT-TAAAAAAT
1 TAAA-AAATATTCTAAAAAAT
4880275 T
1 T
4880276 TTGGATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAAAATATTCTAAAAAAT
Found at i:4881053 original size:17 final size:18
Alignment explanation
Indices: 4881023--4881057 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
4881013 CATTAAATTT
4881023 CTTGAGATTTCTGAGCTC
1 CTTGAGATTTCTGAGCTC
4881041 CTTGAGA-TTCTGAGCTC
1 CTTGAGATTTCTGAGCTC
4881058 AATTTGTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (18 bp):
CTTGAGATTTCTGAGCTC
Found at i:4898310 original size:16 final size:16
Alignment explanation
Indices: 4898291--4898322 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4898281 AAAAACAAAT
4898291 TAATTTTAAAATTTTA
1 TAATTTTAAAATTTTA
*
4898307 TAATTTTATAATTTTA
1 TAATTTTAAAATTTTA
4898323 ACTCTCATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTTAAAATTTTA
Found at i:4899010 original size:25 final size:25
Alignment explanation
Indices: 4898972--4899021 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4898962 ACTATTAAAG
*
4898972 TCCTACTTTGCAAATCCTCTTTCGT
1 TCCTACTTTACAAATCCTCTTTCGT
4898997 TCCTACTTTACAAATCCTCTTTCGT
1 TCCTACTTTACAAATCCTCTTTCGT
4899022 GTATACTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.32, G:0.06, T:0.44
Consensus pattern (25 bp):
TCCTACTTTACAAATCCTCTTTCGT
Found at i:4899028 original size:25 final size:25
Alignment explanation
Indices: 4898975--4899030 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
4898965 ATTAAAGTCC
* *
4898975 TACTTTGCAAATCCTCTTTCGTTCC
1 TACTTTACAAATCCTCTTTCGTTCA
4899000 TACTTTACAAATCCTCTTTCGTGT-A
1 TACTTTACAAATCCTCTTTCGT-TCA
4899025 TACTTT
1 TACTTT
4899031 CATTTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.46
Consensus pattern (25 bp):
TACTTTACAAATCCTCTTTCGTTCA
Found at i:4899101 original size:55 final size:55
Alignment explanation
Indices: 4899035--4899196 Score: 254
Period size: 55 Copynumber: 2.9 Consensus size: 55
4899025 TACTTTCATT
* *
4899035 TATATAACGATCTCTTCATTCTCGTTGTTATGGAGTAGCTATTAGAGAAATCGTG
1 TATATAACGATCTCTTCGTTCTCGTTGTTATGGAGTAGCTATTAGAGAAACCGTG
* *
4899090 TATATAACGATCTCTTTGTTCTCGTTGTTAAGGAGT-GACTATTAGAGAAACCGTG
1 TATATAACGATCTCTTCGTTCTCGTTGTTATGGAGTAG-CTATTAGAGAAACCGTG
* *
4899145 TATATAACGATCTCTTCGTTCTCATTGTTATGGAGCAGCTATTAGAGAAACC
1 TATATAACGATCTCTTCGTTCTCGTTGTTATGGAGTAGCTATTAGAGAAACC
4899197 CTTAAGCCTT
Statistics
Matches: 97, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
54 1 0.01
55 95 0.98
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (55 bp):
TATATAACGATCTCTTCGTTCTCGTTGTTATGGAGTAGCTATTAGAGAAACCGTG
Found at i:4899432 original size:57 final size:57
Alignment explanation
Indices: 4899356--4899494 Score: 224
Period size: 57 Copynumber: 2.4 Consensus size: 57
4899346 TATATGCTTC
* *
4899356 AAATTTAAACAAATTAAATTTAAATGTAATGGATGATCACATAAATAATCTTTATTT
1 AAATTTAAACAAATTAAATTTAAATGTAATGGATGATCACATAAATAATCCTGATTT
* * * *
4899413 ATATTTCAACAAATTAAATTTAAATGTAATGGATTATCACATAGATAATCCTGATTT
1 AAATTTAAACAAATTAAATTTAAATGTAATGGATGATCACATAAATAATCCTGATTT
4899470 AAATTTAAACAAATTAAATTTAAAT
1 AAATTTAAACAAATTAAATTTAAAT
4899495 TTATATCATA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 74 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.38
Consensus pattern (57 bp):
AAATTTAAACAAATTAAATTTAAATGTAATGGATGATCACATAAATAATCCTGATTT
Found at i:4916094 original size:20 final size:20
Alignment explanation
Indices: 4916069--4916109 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4916059 GCCAAGAATA
*
4916069 TAAAT-AATATTCTAGAAAAT
1 TAAATAAATATT-TAAAAAAT
4916089 TAAATAAATATTTAAAAAAT
1 TAAATAAATATTTAAAAAAT
4916109 T
1 T
4916110 TTGGATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAATAAATATTTAAAAAAT
Found at i:4921524 original size:13 final size:13
Alignment explanation
Indices: 4921506--4921534 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4921496 TTACCCGTGT
4921506 CAGTATACAATAC
1 CAGTATACAATAC
4921519 CAGTATACAATAC
1 CAGTATACAATAC
4921532 CAG
1 CAG
4921535 ACTCCATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.21
Consensus pattern (13 bp):
CAGTATACAATAC
Found at i:4926027 original size:3 final size:3
Alignment explanation
Indices: 4926019--4926059 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
4926009 TTTAGCTGTT
* * *
4926019 GAA GAA GAA GAA GAA GAA GAT GAC GAA GAA GAA GAG GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
4926060 GCAAATTGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.59, C:0.02, G:0.37, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:4927496 original size:26 final size:25
Alignment explanation
Indices: 4927446--4927497 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
4927436 TATAAGAAAA
4927446 AATTATTAATTTTATATATCGTATTT
1 AATTATTAATTTTATATATC-TATTT
*
4927472 AATTATTTATATTTTATGTAT-TATTT
1 AATTA-TTA-ATTTTATATATCTATTT
4927498 TTCTTCATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 10 0.43
27 3 0.13
28 10 0.43
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (25 bp):
AATTATTAATTTTATATATCTATTT
Found at i:4930283 original size:3 final size:3
Alignment explanation
Indices: 4930275--4930301 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4930265 GCAAAAGATG
4930275 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
4930302 AATCCTGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:4931301 original size:152 final size:152
Alignment explanation
Indices: 4931000--4931393 Score: 654
Period size: 152 Copynumber: 2.6 Consensus size: 152
4930990 GGCGCCCCTA
* *
4931000 ACCTTGCGAAAAGGGGA-CCCTATCTTTTGAATTCTGCTTTATTCCTTAATTTGCTTTTTGCTCT
1 ACCTTGCGAAAA-GGGACCCCTATCTTTTGAATTCTTCTTTATTCCTTAATTTGCTCTTTGCTCT
* *
4931064 GTTCACAATAG---TG-TTAGTTCGATTAAAAAGATTACATCCTAATTCTTTATTCCTTAGTTTG
65 GTTCACAATAGTATTGAATAGTTCGATTAAAAAGATTACATCCTAATTCTTTATTCCTTAATTTG
4931125 CTCTGTTCACAATAATATTGAAT
130 CTCTGTTCACAATAATATTGAAT
*
4931148 ACCTTGGGAAAAGGGACCCCTATCTTTTGAATTCTTCTTTATTCCTTAATTTGCTCTTTGCTCTG
1 ACCTTGCGAAAAGGGACCCCTATCTTTTGAATTCTTCTTTATTCCTTAATTTGCTCTTTGCTCTG
*
4931213 TTCACAATAGTATTGAATAGTTCGATTAATAAGATTACATCCTAATTCTTTATTCCTTAATTTGC
66 TTCACAATAGTATTGAATAGTTCGATTAAAAAGATTACATCCTAATTCTTTATTCCTTAATTTGC
**
4931278 TCTGTTCACAATGGTATTGAAT
131 TCTGTTCACAATAATATTGAAT
* *
4931300 ACCTTACGAAAAGGGACCCCTATCTTTTGAATTCTTCTTTATTCCTTAATTCGCTCTTTGCTCTG
1 ACCTTGCGAAAAGGGACCCCTATCTTTTGAATTCTTCTTTATTCCTTAATTTGCTCTTTGCTCTG
4931365 TTCACAATAGTATTGAATAGTTCGATTAA
66 TTCACAATAGTATTGAATAGTTCGATTAA
4931394 CATCCTAATC
Statistics
Matches: 230, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
147 4 0.02
148 67 0.29
151 2 0.01
152 157 0.68
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (152 bp):
ACCTTGCGAAAAGGGACCCCTATCTTTTGAATTCTTCTTTATTCCTTAATTTGCTCTTTGCTCTG
TTCACAATAGTATTGAATAGTTCGATTAAAAAGATTACATCCTAATTCTTTATTCCTTAATTTGC
TCTGTTCACAATAATATTGAAT
Found at i:4935111 original size:6 final size:6
Alignment explanation
Indices: 4935091--4935135 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
4935081 TAACAAAAGT
* * *
4935091 ATTGAA ATATGAA ATTGAA ATTCAA CTTGAA ATTCAA ATTGAA AT
1 ATTGAA AT-TGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA AT
4935136 ATATAATGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (6 bp):
ATTGAA
Found at i:4935122 original size:12 final size:12
Alignment explanation
Indices: 4935091--4935135 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
4935081 TAACAAAAGT
*
4935091 ATTGAAATATGAA
1 ATTGAAAT-TCAA
4935104 ATTGAAATTCAA
1 ATTGAAATTCAA
*
4935116 CTTGAAATTCAA
1 ATTGAAATTCAA
4935128 ATTGAAAT
1 ATTGAAAT
4935136 ATATAATGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 21 0.72
13 8 0.28
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (12 bp):
ATTGAAATTCAA
Found at i:4939774 original size:27 final size:27
Alignment explanation
Indices: 4939744--4939895 Score: 89
Period size: 27 Copynumber: 5.6 Consensus size: 27
4939734 TTCTGGGGGG
* *
4939744 TTCTGCGCTTGGAACACCCCTT-AGTGT
1 TTCTGTGCTTGGAACA-CCCTTGAGCGT
* *
4939771 TTCTGTACTCGGAACACCCTTGAGCGT
1 TTCTGTGCTTGGAACACCCTTGAGCGT
*
4939798 TTCTGTGCTTGGAATGC-CCCTAG-GCGT
1 TTCTGTGCTTGGAA--CACCCTTGAGCGT
** * * *
4939825 TTCTACGCTTAGAACGCCCTTGAACGCT
1 TTCTGTGCTTGGAACACCCTTGAGCG-T
* * * *
4939853 TTC-ATGCTTAGAACATCCCTAG-GCGC
1 TTCTGTGCTTGGAACA-CCCTTGAGCGT
*
4939879 TTCTGTACTTGGAACAC
1 TTCTGTGCTTGGAACAC
4939896 TTATAGGTGC
Statistics
Matches: 97, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
25 1 0.01
26 14 0.14
27 67 0.69
28 14 0.14
29 1 0.01
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (27 bp):
TTCTGTGCTTGGAACACCCTTGAGCGT
Found at i:4940642 original size:2 final size:2
Alignment explanation
Indices: 4940635--4940759 Score: 133
Period size: 2 Copynumber: 62.0 Consensus size: 2
4940625 AGCACATTGA
4940635 AT 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 AT
** ** ** ** ** **
4940677 AT AT AT AT AT AT AT NNN NN NN NN NN NN AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4940720 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
4940760 TACAATTTGT
Statistics
Matches: 118, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
2 118 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4943897 original size:33 final size:33
Alignment explanation
Indices: 4943852--4943962 Score: 134
Period size: 33 Copynumber: 3.4 Consensus size: 33
4943842 TCAACGATGG
* *
4943852 TGATGTGGATGCTGCTACTAAAGTTGGTGGTGA
1 TGATGTGAATGCTGCTACTAGAGTTGGTGGTGA
* ** *
4943885 TGATGTGAATGCTACTACGGGAGTTGGTGATGA
1 TGATGTGAATGCTGCTACTAGAGTTGGTGGTGA
* *
4943918 CT-CTGTGGATGCTGCTACTAGAGTTGGTGGTGA
1 -TGATGTGAATGCTGCTACTAGAGTTGGTGGTGA
4943951 TGATGTGAATGC
1 TGATGTGAATGC
4943963 ATTTAACCAA
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
32 1 0.02
33 60 0.97
34 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.36, T:0.32
Consensus pattern (33 bp):
TGATGTGAATGCTGCTACTAGAGTTGGTGGTGA
Found at i:4955022 original size:42 final size:42
Alignment explanation
Indices: 4954963--4955046 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
4954953 TAAATATAGC
* *
4954963 GATGCTAATAAAGACATTGGCATGCTTCCTGCATTGAAAAAA
1 GATGCTAATAAAGACATTGACATACTTCCTGCATTGAAAAAA
*
4955005 GATGCTGATAAAGACATTGACATACTTCCTGCATTGAAAAAA
1 GATGCTAATAAAGACATTGACATACTTCCTGCATTGAAAAAA
4955047 ATTCTCCAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (42 bp):
GATGCTAATAAAGACATTGACATACTTCCTGCATTGAAAAAA
Found at i:4958456 original size:2 final size:2
Alignment explanation
Indices: 4958449--4958475 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4958439 AAGAGCAGTT
4958449 TA 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 TA T
4958476 CGTCAAATCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4960020 original size:18 final size:19
Alignment explanation
Indices: 4959992--4960027 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4959982 GTTAGTGTTG
*
4959992 AACTATGAAATTGAAATTT
1 AACTATGAAATTCAAATTT
4960011 AACT-TGAAATTCAAATT
1 AACTATGAAATTCAAATT
4960028 AAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (19 bp):
AACTATGAAATTCAAATTT
Found at i:4963167 original size:31 final size:33
Alignment explanation
Indices: 4963106--4963167 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
4963096 TCTTAGGAAT
4963106 AACAATGAACACATTAACCTTCAAAAAAAAAAA
1 AACAATGAACACATTAACCTTCAAAAAAAAAAA
*
4963139 AACAATGAACACATT-A-CTTCCAAAAAAAA
1 AACAATGAACACATTAACCTTCAAAAAAAAA
4963168 TGAACACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 12 0.43
32 1 0.04
33 15 0.54
ACGTcount: A:0.61, C:0.19, G:0.03, T:0.16
Consensus pattern (33 bp):
AACAATGAACACATTAACCTTCAAAAAAAAAAA
Found at i:4967170 original size:25 final size:25
Alignment explanation
Indices: 4967137--4967191 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
4967127 TTTGAAATTA
* * *
4967137 AATTAGAGTGAGATCATTTTTAAAT
1 AATTAGAGTAACACCATTTTTAAAT
*
4967162 AATTAGAGTAACACCATTTTTTAAT
1 AATTAGAGTAACACCATTTTTAAAT
4967187 AATTA
1 AATTA
4967192 ATCCAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (25 bp):
AATTAGAGTAACACCATTTTTAAAT
Found at i:4967958 original size:23 final size:23
Alignment explanation
Indices: 4967914--4967959 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4967904 TCACAGTTAC
**
4967914 AACATTTTGTTATTATTTATTAA
1 AACATTTTGTTATTATACATTAA
4967937 AACATTTTGTTATGTA-ACATTAA
1 AACATTTTGTTAT-TATACATTAA
4967960 TGTCTCTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (23 bp):
AACATTTTGTTATTATACATTAA
Found at i:5001579 original size:13 final size:13
Alignment explanation
Indices: 5001548--5001596 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
5001538 TATTTTATTA
*
5001548 TATTTTTTATTATCA
1 TATTTTTTA-T-TCT
5001563 TATTTTTTATTCT
1 TATTTTTTATTCT
* *
5001576 TATTTCTTATTAT
1 TATTTTTTATTCT
5001589 TATTTTTT
1 TATTTTTT
5001597 TTATACTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 20 0.67
14 1 0.03
15 9 0.30
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (13 bp):
TATTTTTTATTCT
Found at i:5001586 original size:28 final size:27
Alignment explanation
Indices: 5001540--5001600 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
5001530 ATTATTTTTA
*
5001540 TTTTATTATATTTTTTATTATCATATT
1 TTTTATTATATTTCTTATTATCATATT
* * *
5001567 TTTTATTCTTATTTCTTATTATTATTTT
1 TTTTATT-ATATTTCTTATTATCATATT
5001595 TTTTAT
1 TTTTAT
5001601 ACTTTACATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (27 bp):
TTTTATTATATTTCTTATTATCATATT
Found at i:5002250 original size:7 final size:7
Alignment explanation
Indices: 5002223--5002272 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
5002213 TATGTTTGAA
5002223 TTATTAT
1 TTATTAT
5002230 TT-TT-T
1 TTATTAT
*
5002235 TTATCAT
1 TTATTAT
5002242 TTATTAT
1 TTATTAT
5002249 TTATTAT
1 TTATTAT
5002256 TTATT-T
1 TTATTAT
5002262 ATTATT-T
1 -TTATTAT
5002269 TTAT
1 TTAT
5002273 CCAGTAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 3 0.08
6 8 0.21
7 27 0.71
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTAT
Found at i:5004246 original size:1 final size:1
Alignment explanation
Indices: 5004242--5004374 Score: 59
Period size: 1 Copynumber: 133.0 Consensus size: 1
5004232 TCTTTTTTAC
* * * * * * * * * * *
5004242 TTTTTTTTTTTGTTGTTGTTGTTTTTTTTTTGTTTTATTATTTCTTTTGTTTTTTCTTTTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * ** * * * ** * * *
5004307 TTTTGTTGTTTTTTTTTTTGGTTTTGTTTGTTTGTTTGGTTTTTTTGTTTTGTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5004372 TTT
1 TTT
5004375 AATTGAACTT
Statistics
Matches: 90, Mismatches: 42, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 90 1.00
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.83
Consensus pattern (1 bp):
T
Found at i:5004268 original size:18 final size:18
Alignment explanation
Indices: 5004245--5004373 Score: 78
Period size: 17 Copynumber: 7.4 Consensus size: 18
5004235 TTTTTACTTT
5004245 TTTTTTTTGTTGTTGTTG
1 TTTTTTTTGTTGTTGTTG
*
5004263 TTTTTTTT-TTGTT-TTA
1 TTTTTTTTGTTGTTGTTG
* *
5004279 TTATTTCTT-TTGTT-TTT
1 TT-TTTTTTGTTGTTGTTG
* *
5004296 TCTTTTTTTCTTTTTGTTG
1 T-TTTTTTTGTTGTTGTTG
*
5004315 TTTTTTTTTTTGGTT-TTG
1 TTTTTTTTGTT-GTTGTTG
* * *
5004333 -TTTGTTTGTT-TGGTTT
1 TTTTTTTTGTTGTTGTTG
5004349 TTTTGTTTTGTT-TTGTT-
1 TTTT-TTTTGTTGTTGTTG
5004366 TTTTTTTT
1 TTTTTTTT
5004374 TAATTGAACT
Statistics
Matches: 89, Mismatches: 14, Indels: 18
0.74 0.12 0.15
Matches are distributed among these distances:
15 1 0.01
16 10 0.11
17 38 0.43
18 35 0.39
19 5 0.06
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.82
Consensus pattern (18 bp):
TTTTTTTTGTTGTTGTTG
Found at i:5004309 original size:14 final size:14
Alignment explanation
Indices: 5004234--5004369 Score: 68
Period size: 14 Copynumber: 9.5 Consensus size: 14
5004224 TAGTTTCTTC
* *
5004234 TTTTTTACTTTTTT
1 TTTTTTTCTTGTTT
*
5004248 TTTTTGTTGTTGTTGT
1 TTTTT-TTCTTGTT-T
5004264 TTTTTTT-TTGTTT
1 TTTTTTTCTTGTTT
*
5004277 TATTATTTC-T-TTT
1 T-TTTTTTCTTGTTT
*
5004290 GTTTTTTCTT-TTT
1 TTTTTTTCTTGTTT
*
5004303 TTCTTTTTGTTGTTT
1 TT-TTTTTCTTGTTT
*
5004318 TTTTTTT-TGGTTT
1 TTTTTTTCTTGTTT
*
5004331 TGTTTGTTTGTTTGGTTT
1 T-TTT-TTT-CTT-GTTT
*
5004349 TTTTGTT-TTGTTT
1 TTTTTTTCTTGTTT
5004362 TGTTTTTT
1 T-TTTTTT
5004370 TTTTTAATTG
Statistics
Matches: 97, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
12 6 0.06
13 21 0.22
14 38 0.39
15 15 0.15
16 8 0.08
17 4 0.04
18 5 0.05
ACGTcount: A:0.02, C:0.03, G:0.13, T:0.82
Consensus pattern (14 bp):
TTTTTTTCTTGTTT
Found at i:5004349 original size:55 final size:53
Alignment explanation
Indices: 5004234--5004374 Score: 144
Period size: 55 Copynumber: 2.6 Consensus size: 53
5004224 TAGTTTCTTC
* *
5004234 TTTTTTACTTTTTTTTTTTGTTGTTGTTGTTTTTTTTTTGTTTTATTATTTCTTTTG
1 TTTTTT-C-TTTTTTTTTT-TTGTTGTT-TTTTTTTTTGGTTTTATTATTTCTTTGG
* * *
5004291 TTTTTTCTTTTTTTCTTTTTGTTGTTTTTTTTTTTGGTTTTGTTTGTTTGTTTGG
1 TTTTTTCTTTTTTT-TTTTTGTTGTTTTTTTTTTTGGTTTT-ATTATTTCTTTGG
* *
5004346 -TTTTT-TTGTTTTGTTTTGTT-TTTTTTTTT
1 TTTTTTCTTTTTTTTTTTTGTTGTTTTTTTTT
5004375 AATTGAACTT
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
51 9 0.12
52 7 0.09
53 6 0.08
54 19 0.25
55 24 0.32
56 4 0.05
57 6 0.08
ACGTcount: A:0.02, C:0.03, G:0.13, T:0.82
Consensus pattern (53 bp):
TTTTTTCTTTTTTTTTTTTGTTGTTTTTTTTTTTGGTTTTATTATTTCTTTGG
Found at i:5004363 original size:52 final size:50
Alignment explanation
Indices: 5004242--5004374 Score: 139
Period size: 52 Copynumber: 2.6 Consensus size: 50
5004232 TCTTTTTTAC
*
5004242 TTTTTTTTTTTGTTGTTGTTG-TTTTTTTTTTGTTTTATTATTTCTTTTGTT
1 TTTTTTTTTTTGTT-TTGTTGTTTTTTTTTTTGTTTTATTATTTCTTTTG-G
* *
5004293 TTTTCTTTTTTTCTTTTTGTTGTTTTTTTTTTTGGTTTTGTT-TGTT-TGTTTGG
1 TTTT-TTTTTTT-GTTTTGTTGTTTTTTTTTTT-GTTTTATTAT-TTCT-TTTGG
5004346 TTTTTTTGTTTTGTTTTGTT-TTTTTTTTT
1 TTTTTTT-TTTTGTTTTGTTGTTTTTTTTT
5004375 AATTGAACTT
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
51 13 0.18
52 23 0.32
53 22 0.31
54 13 0.18
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.83
Consensus pattern (50 bp):
TTTTTTTTTTTGTTTTGTTGTTTTTTTTTTTGTTTTATTATTTCTTTTGG
Found at i:5004499 original size:37 final size:38
Alignment explanation
Indices: 5004405--5004673 Score: 373
Period size: 38 Copynumber: 7.2 Consensus size: 38
5004395 AGGTAATGAC
* * *
5004405 ACTTTTAAGAATAAACTCCTCAAAGCTGAGGCAACGAG
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
*
5004443 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
** *
5004481 AC-TTTAAAAATGTGCTCCTCAAAGCTGAGGCAACGAG
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
*
5004518 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
*
5004556 ACTTTT-AAAATGAACACCTCAAAGCTGAGGCAACGAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
* * *
5004593 AC-TTTAAAAATGAACTCCTCAAAACTGAGGCAATGAG
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
** * *
5004630 ACTTTTAAAAATGAACTCCTCAAAATTGAGGCAACTAG
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
5004668 ACTTTT
1 ACTTTT
5004674 TTTTTTCTTT
Statistics
Matches: 207, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
36 3 0.01
37 93 0.45
38 111 0.54
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (38 bp):
ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
Found at i:5004510 original size:75 final size:75
Alignment explanation
Indices: 5004408--5004673 Score: 390
Period size: 75 Copynumber: 3.5 Consensus size: 75
5004398 TAATGACACT
* *
5004408 TTTAAGAATAAACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAG
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAG
5004473 GCAACAAAAC
66 GCAACAAAAC
**
5004483 TTTAAAAATGTGCTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAG
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAG
5004548 GCAACAAAAC
66 GCAACAAAAC
* * * *
5004558 TTTTAAAATGAACACCTCAAAGCTGAGGCAACGAAAC-TTTAAAAATGAACTCCTCAAAACTGAG
1 TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAG
** *
5004622 GCAATGAGAC
66 GCAACAAAAC
** *
5004632 TTTTAAAAATGAACTCCTCAAAATTGAGGCAACTAGACTTTT
1 -TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTT
5004674 TTTTTTCTTT
Statistics
Matches: 170, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
74 33 0.19
75 134 0.79
76 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (75 bp):
TTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCTCAAAGCTGAG
GCAACAAAAC
Found at i:5017035 original size:21 final size:21
Alignment explanation
Indices: 5017011--5017050 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5017001 NNNNNNNNTA
**
5017011 TTATTTTTTTATTTTTTATTT
1 TTATTTTTACATTTTTTATTT
5017032 TTATTTTTACATTTTTTAT
1 TTATTTTTACATTTTTTAT
5017051 AGTTTATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (21 bp):
TTATTTTTACATTTTTTATTT
Found at i:5017217 original size:7 final size:7
Alignment explanation
Indices: 5017186--5017247 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
5017176 TATGTTTGAA
5017186 TTATTA-
1 TTATTAT
*
5017192 TTATTTT
1 TTATTAT
*
5017199 TTATCAT
1 TTATTAT
5017206 TTATTAT
1 TTATTAT
5017213 TTATT-T
1 TTATTAT
5017219 CTTATT-T
1 -TTATTAT
5017226 ATTATTTAT
1 -TTA-TTAT
5017235 TTATTAT
1 TTATTAT
5017242 TT-TTAT
1 TTATTAT
5017248 CCAGTAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
6 10 0.21
7 31 0.66
8 5 0.11
9 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTAT
Found at i:5017227 original size:18 final size:18
Alignment explanation
Indices: 5017165--5017247 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
5017155 TCACAAATTA
* *
5017165 ATTATTTATTATATGTTT
1 ATTATTTATTATTTATTT
5017183 GAATTA-TTATTATTT-TTT
1 --ATTATTTATTATTTATTT
*
5017201 ATCATTTATTATTTATTT
1 ATTATTTATTATTTATTT
*
5017219 CTTATTTATTATTTATTT
1 ATTATTTATTATTTATTT
5017237 ATTATTT-TTAT
1 ATTATTTATTAT
5017248 CCAGTAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
16 3 0.05
17 13 0.23
18 28 0.50
19 8 0.14
20 4 0.07
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTATTTATTATTTATTT
Found at i:5017240 original size:11 final size:11
Alignment explanation
Indices: 5017209--5017243 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
5017199 TTATCATTTA
5017209 TTATTTATT-T
1 TTATTTATTAT
5017219 CTTATTTATTAT
1 -TTATTTATTAT
5017231 TTATTTATTAT
1 TTATTTATTAT
5017242 TT
1 TT
5017244 TTATCCAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 22 0.96
12 1 0.04
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:5028070 original size:9 final size:8
Alignment explanation
Indices: 5028052--5028081 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
5028042 CACCTATTTC
5028052 AAAAAATA
1 AAAAAATA
5028060 AAAAAAGTA
1 AAAAAA-TA
5028069 AAAAAATA
1 AAAAAATA
5028077 AAAAA
1 AAAAA
5028082 TGATGAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:5028454 original size:10 final size:9
Alignment explanation
Indices: 5028436--5028469 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
5028426 CCACAAAAAA
5028436 AAAAATACC
1 AAAAATACC
5028445 AAACAATACCC
1 AAA-AATA-CC
5028456 AAAAATACC
1 AAAAATACC
5028465 AAAAA
1 AAAAA
5028470 AGAATAAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 10 0.43
10 8 0.35
11 5 0.22
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAATACC
Found at i:5028470 original size:10 final size:10
Alignment explanation
Indices: 5028435--5028470 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
5028425 TCCACAAAAA
5028435 AAAAAATACC
1 AAAAAATACC
*
5028445 AAACAATACC
1 AAAAAATACC
*
5028455 CAAAAATACC
1 AAAAAATACC
5028465 AAAAAA
1 AAAAAA
5028471 GAATAAACGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.69, C:0.22, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAATACC
Found at i:5029333 original size:21 final size:22
Alignment explanation
Indices: 5029307--5029349 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
5029297 CCACAAATAT
*
5029307 ATAATAAAAA-TAAAAATAGTA
1 ATAATAAAAAGGAAAAATAGTA
5029328 ATAATAAAAAGGAAAAATAGTA
1 ATAATAAAAAGGAAAAATAGTA
5029350 GTAGTATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAATAAAAAGGAAAAATAGTA
Found at i:5039550 original size:26 final size:26
Alignment explanation
Indices: 5039514--5039747 Score: 146
Period size: 26 Copynumber: 9.7 Consensus size: 26
5039504 ACTGAATTTT
* *
5039514 GGCATTACGTGACT-GATTTTTTATAA
1 GGCATTGCGTGACTAG-TTTTTAATAA
* * *
5039540 GGCATTGCGTGACTAGTCTCTGATAA
1 GGCATTGCGTGACTAGTTTTTAATAA
5039566 GGCATTGCGTGACTAG---TTAAT-A
1 GGCATTGCGTGACTAGTTTTTAATAA
* ** *
5039588 GGTATTGCGTGACT-G-AATT--T-G
1 GGCATTGCGTGACTAGTTTTTAATAA
*
5039609 GGCATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTTTTAATAA
* *
5039635 GGTATTGCGTGACTAGTTTCTAATAA
1 GGCATTGCGTGACTAGTTTTTAATAA
*
5039661 GGCATTGCGTGACTAG---TTGAT-A
1 GGCATTGCGTGACTAGTTTTTAATAA
** *
5039683 GGCATTGCGTGACTA--ACTT--T-G
1 GGCATTGCGTGACTAGTTTTTAATAA
* * *
5039704 GGCATTGTGTGACTAGTTTCTGATAA
1 GGCATTGCGTGACTAGTTTTTAATAA
*
5039730 GGCATTGCATGACTAGTT
1 GGCATTGCGTGACTAGTT
5039748 GATAGGCATT
Statistics
Matches: 167, Mismatches: 26, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
21 30 0.18
22 31 0.19
23 13 0.08
25 2 0.01
26 90 0.54
27 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.36
Consensus pattern (26 bp):
GGCATTGCGTGACTAGTTTTTAATAA
Found at i:5039622 original size:69 final size:72
Alignment explanation
Indices: 5039534--5039834 Score: 245
Period size: 69 Copynumber: 4.3 Consensus size: 72
5039524 GACTGATTTT
*
5039534 TTATAAGGCATTGCGTGACTAGTCTCTGATAAGGCATTGCGTGACTAG-T-TAAT-AGGTATTGC
1 TTAT-AGGCATTGCGTGACTAGTCTCTGATAAGGCATTGCGTGACTAGTTCTAATAAGGCATTGC
5039596 GTGACTGAA
65 GTGACT-AA
* * * *
5039605 TT-TGGGCATTGCGTGACTAGTTTTTGATAAGGTATTGCGTGACTAGTTTCTAATAAGGCATTGC
1 TTATAGGCATTGCGTGACTAGTCTCTGATAAGGCATTGCGTGACTAG-TTCTAATAAGGCATTGC
*
5039669 GTGACTAG
65 GTGACTAA
* * * *
5039677 TTGATAGGCATTGCGTGACTA-ACT-T--T-GGGCATTGTGTGACTAGTTTCTGATAAGGCATTG
1 TT-ATAGGCATTGCGTGACTAGTCTCTGATAAGGCATTGCGTGACTAG-TTCTAATAAGGCATTG
* *
5039737 CATGACTAG
64 CGTGACTAA
* * * * *
5039746 TTGATAGGCATTGCATGACTTGT-T-AG-TAAGGCATTGCGTGACTTG-T-TAGTAAGGCATTGC
1 TT-ATAGGCATTGCGTGACTAGTCTCTGATAAGGCATTGCGTGACTAGTTCTAATAAGGCATTGC
*
5039806 GT-ATCTAG
65 GTGA-CTAA
*
5039814 TTAGTAAGGCATTGCATGACT
1 TTA-T-AGGCATTGCGTGACT
5039835 TAGGCATTGC
Statistics
Matches: 194, Mismatches: 24, Indels: 26
0.80 0.10 0.11
Matches are distributed among these distances:
67 2 0.01
68 20 0.10
69 113 0.58
70 3 0.02
71 17 0.09
72 8 0.04
73 15 0.08
74 16 0.08
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (72 bp):
TTATAGGCATTGCGTGACTAGTCTCTGATAAGGCATTGCGTGACTAGTTCTAATAAGGCATTGCG
TGACTAA
Found at i:5039635 original size:95 final size:94
Alignment explanation
Indices: 5039471--5039788 Score: 387
Period size: 95 Copynumber: 3.4 Consensus size: 94
5039461 ACTAGTTTTT
* * ** * * *
5039471 AGGCATTGCGTGACTAATT-TTAGATATTGTGTGACTGAATTTTGGCATTACGTGACT-GATTTT
1 AGGCATTGCGTGACTAGTTAATAGGCATTGCGTGACTGAATTTGGGCATTGCGTGACTAG-TTTT
*
5039534 TTATAAGGCATTGCGTGACTAGTCTCTGATA
65 TGATAAGGCATTGCGTGACTAGT-TCTGATA
*
5039565 AGGCATTGCGTGACTAGTTAATAGGTATTGCGTGACTGAATTTGGGCATTGCGTGACTAGTTTTT
1 AGGCATTGCGTGACTAGTTAATAGGCATTGCGTGACTGAATTTGGGCATTGCGTGACTAGTTTTT
* *
5039630 GATAAGGTATTGCGTGACTAGTTTCTAATA
66 GATAAGGCATTGCGTGACTAG-TTCTGATA
* * *
5039660 AGGCATTGCGTGACTAGTTGATAGGCATTGCGTGACT-AACTTTGGGCATTGTGTGACTAGTTTC
1 AGGCATTGCGTGACTAGTTAATAGGCATTGCGTGACTGAA-TTTGGGCATTGCGTGACTAGTTTT
*
5039724 TGATAAGGCATTGCATGACTAG-T-TGAT-
65 TGATAAGGCATTGCGTGACTAGTTCTGATA
* * *
5039751 AGGCATTGCATGACTTGTTAGTAAGGCATTGCGTGACT
1 AGGCATTGCGTGACTAGTTAAT-AGGCATTGCGTGACT
5039789 TGTTAGTAAG
Statistics
Matches: 199, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
91 18 0.09
92 18 0.09
93 1 0.01
94 20 0.10
95 140 0.70
96 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (94 bp):
AGGCATTGCGTGACTAGTTAATAGGCATTGCGTGACTGAATTTGGGCATTGCGTGACTAGTTTTT
GATAAGGCATTGCGTGACTAGTTCTGATA
Found at i:5039777 original size:23 final size:23
Alignment explanation
Indices: 5039727--5039835 Score: 143
Period size: 23 Copynumber: 4.8 Consensus size: 23
5039717 TAGTTTCTGA
*
5039727 TAAGGCATTGCATGACTAGTT-G
1 TAAGGCATTGCATGACTTGTTAG
5039749 -ATAGGCATTGCATGACTTGTTAG
1 TA-AGGCATTGCATGACTTGTTAG
*
5039772 TAAGGCATTGCGTGACTTGTTAG
1 TAAGGCATTGCATGACTTGTTAG
* *
5039795 TAAGGCATTGCGT-ATCTAGTTAG
1 TAAGGCATTGCATGA-CTTGTTAG
5039818 TAAGGCATTGCATGACTT
1 TAAGGCATTGCATGACTT
5039836 AGGCATTGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
21 1 0.01
22 19 0.25
23 55 0.71
24 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (23 bp):
TAAGGCATTGCATGACTTGTTAG
Found at i:5039893 original size:22 final size:22
Alignment explanation
Indices: 5039846--5039917 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
5039836 AGGCATTGCT
* *
5039846 TAAAAATCAATCACGCAATGTA-
1 TAAAAACCAATCACGTAATG-AC
** * *
5039868 TAAAAATGAGTCACGTAATGCC
1 TAAAAACCAATCACGTAATGAC
5039890 T-AAAACCAATCACGTAATGAC
1 TAAAAACCAATCACGTAATGAC
5039911 TAAAAAC
1 TAAAAAC
5039918 TAGTCATACG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 17 0.43
22 23 0.57
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.21
Consensus pattern (22 bp):
TAAAAACCAATCACGTAATGAC
Found at i:5048948 original size:176 final size:177
Alignment explanation
Indices: 5048652--5049004 Score: 530
Period size: 176 Copynumber: 2.0 Consensus size: 177
5048642 AGATGTATTA
* * *
5048652 AAAAACGTTTCAATGAGATTCCAGATACAATAGCATTAAGTTTTTCCGTTTATGAATTACTTTGT
1 AAAAACGTTTCAATGAGATTCCAAATACAATAGCATTAAGTTTTTCAGTTTATGAATTAATTTGT
* ** **
5048717 TGAATCTTAAGCTACAAGAGTTTCTTACTAAGTACAATATTAGTGATTGCAGTTTTCAGAATGTT
66 TGAATCTTAAACTACAAGAGTTTCTTAAGAAGTACAATATTAGCAATTGCAGTTTTCAGAATGTT
*
5048782 TAAAATGAGAATTATATTAATTTCAAAA-C-AAAATTTCTGGCAAGTT
131 TAAAATGAGAATTACATTAATTT-AAAACCAAAAATTTCTGGCAAGTT
** *
5048828 AAAAACGTTTTGATGAGATTTCAAATACAATAGCATTAAGTTTTTCAGTTTATGAATTAATTTGT
1 AAAAACGTTTCAATGAGATTCCAAATACAATAGCATTAAGTTTTTCAGTTTATGAATTAATTTGT
* * * *
5048893 TGAATCTTAAACTACAATAGTTTCTTAAGGAGTATAATATTAGCAATTTCAGTTTTCAGAATGTT
66 TGAATCTTAAACTACAAGAGTTTCTTAAGAAGTACAATATTAGCAATTGCAGTTTTCAGAATGTT
*
5048958 TAAAATGAGAGTTACATTAATTTAAAACCAAAAATTTCTGGCAAGTT
131 TAAAATGAGAATTACATTAATTTAAAACCAAAAATTTCTGGCAAGTT
5049005 TTCAGAATGT
Statistics
Matches: 158, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
175 4 0.03
176 137 0.87
177 17 0.11
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (177 bp):
AAAAACGTTTCAATGAGATTCCAAATACAATAGCATTAAGTTTTTCAGTTTATGAATTAATTTGT
TGAATCTTAAACTACAAGAGTTTCTTAAGAAGTACAATATTAGCAATTGCAGTTTTCAGAATGTT
TAAAATGAGAATTACATTAATTTAAAACCAAAAATTTCTGGCAAGTT
Found at i:5058442 original size:2 final size:2
Alignment explanation
Indices: 5058429--5058490 Score: 108
Period size: 2 Copynumber: 31.5 Consensus size: 2
5058419 TAACACTTAC
*
5058429 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5058470 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
5058491 AATGGGAAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5058847 original size:2 final size:2
Alignment explanation
Indices: 5058834--5058890 Score: 84
Period size: 2 Copynumber: 29.5 Consensus size: 2
5058824 TAACACTTAC
5058834 AT AT ACT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT -T AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5058875 AT AT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
5058891 AATGGAAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.06
2 46 0.90
3 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5058859 original size:13 final size:12
Alignment explanation
Indices: 5058834--5058890 Score: 84
Period size: 11 Copynumber: 4.9 Consensus size: 12
5058824 TAACACTTAC
5058834 ATATACTATATAT
1 ATATA-TATATAT
5058847 ATATATATA-AT
1 ATATATATATAT
5058858 ATATATATATAT
1 ATATATATATAT
5058870 AT-TATATATAT
1 ATATATATATAT
5058881 A-ATATATATA
1 ATATATATATA
5058891 AATGGAAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
11 29 0.69
12 8 0.19
13 5 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATATATAT
Found at i:5058859 original size:15 final size:15
Alignment explanation
Indices: 5058841--5058890 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
5058831 TACATATACT
5058841 ATATATATATATATA
1 ATATATATATATATA
5058856 ATATATATATATATA
1 ATATATATATATATA
*
5058871 TTATATATATA-AT-
1 ATATATATATATATA
5058884 ATATATA
1 ATATATA
5058891 AATGGAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
13 6 0.18
14 2 0.06
15 25 0.76
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:5059073 original size:399 final size:404
Alignment explanation
Indices: 5058329--5059132 Score: 1557
Period size: 399 Copynumber: 2.0 Consensus size: 404
5058319 AAATAAAAAT
5058329 AAAAAAAAAAAAGATCTTTGGTAAATCGTTATAAGGAGCCTTAGTTGTATCCAAAAACCGAATTC
1 AAAAAAAAAAAAGATCTTTGGTAAATCGTTATAAGGAGCCTTAGTTGTATCCAAAAACCGAATTC
5058394 TATTTACTACAAGAACTAGGAGAAGTAACACTTACATATACATATATATATATATATATATATAT
66 TATTTACTACAAGAACTAGGAGAAGTAACACTTACATATACATATATATATATATATATATATAT
5058459 ATATATAATATATATATATATATATATATATAAATGGGAAACATAACTCAGATTTCACAGTGAAA
131 ATATATAATATATATATATATATATATATATAAATGGGAAACATAACTCAGATTTCACAGTGAAA
5058524 ACCAGTAGATCGAAAAACAGAACAACAAAGCCATGTCTCCTGATTTACTAGAAACATTAGTAGCG
196 ACCAGTAGATCGAAAAACAGAACAACAAAGCCATGTCTCCTGATTTACTAGAAACATTAGTAGCG
5058589 TATCTTGTTTTCACCCTTAATGGCATGGGATTCGCCTCCTTTTTGTTCAGCGTCATCTTTCAATG
261 TATCTTGTTTTCACCCTTAATGGCATGGGATTCGCCTCCTTTTTGTTCAGCGTCATCTTTCAATG
5058654 CTGGGGTTTTTTCTTTAACAGAAACCAAAACCAGCAGGGTGATGTTGAATCATCAGCTGGTGATA
326 CTGGGGTTTTTTCTTTAACAGAAACCAAAACCAGCAGGGTGATGTTGAATCATCAGCTGGTGATA
5058719 TCGAATTAGGTGAA
391 TCGAATTAGGTGAA
5058733 NAAAAAAAAAAAAGATCTTTGGTAAATCGTTATAAGGAGCCTTAGTTGTATCCAAAAACCGAATT
1 -AAAAAAAAAAAAGATCTTTGGTAAATCGTTATAAGGAGCCTTAGTTGTATCCAAAAACCGAATT
5058798 CTATTTACTACAAGAACTAGGAGAAGTAACACTTACATATAC-TATATATATATATATA-ATATA
65 CTATTTACTACAAGAACTAGGAGAAGTAACACTTACATATACATATATATATATATATATATATA
5058861 TATATAT-ATAT-TATATATATA-ATATATATAAAT-GGAAACATAACTCAGATTTCACAGTGAA
130 TATATATAATATATATATATATATATATATATAAATGGGAAACATAACTCAGATTTCACAGTGAA
5058922 AACCAGTAGATCGAAAAACAGAACAACAAAGCCATGTCTCCTGATTTACTAGAAACATTAGTAGC
195 AACCAGTAGATCGAAAAACAGAACAACAAAGCCATGTCTCCTGATTTACTAGAAACATTAGTAGC
5058987 GTATCTTGTTTTCACCCTTAATGGCATGGGATTCGCCTCCTTTTTGTTCAGCGTCATCTTTCAAT
260 GTATCTTGTTTTCACCCTTAATGGCATGGGATTCGCCTCCTTTTTGTTCAGCGTCATCTTTCAAT
5059052 GCTGGGGTTTTTTCTTTAACAGAAACCAAAACCAGCAGGGTGATGTTGAATCATCAGCTGGTGAT
325 GCTGGGGTTTTTTCTTTAACAGAAACCAAAACCAGCAGGGTGATGTTGAATCATCAGCTGGTGAT
5059117 ATCGAATTAGGTGAA
390 ATCGAATTAGGTGAA
5059132 A
1 A
5059133 CTAGTAATCC
Statistics
Matches: 399, Mismatches: 0, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
398 1 0.00
399 238 0.60
400 12 0.03
401 10 0.03
402 4 0.01
403 12 0.03
404 16 0.04
405 106 0.27
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (404 bp):
AAAAAAAAAAAAGATCTTTGGTAAATCGTTATAAGGAGCCTTAGTTGTATCCAAAAACCGAATTC
TATTTACTACAAGAACTAGGAGAAGTAACACTTACATATACATATATATATATATATATATATAT
ATATATAATATATATATATATATATATATATAAATGGGAAACATAACTCAGATTTCACAGTGAAA
ACCAGTAGATCGAAAAACAGAACAACAAAGCCATGTCTCCTGATTTACTAGAAACATTAGTAGCG
TATCTTGTTTTCACCCTTAATGGCATGGGATTCGCCTCCTTTTTGTTCAGCGTCATCTTTCAATG
CTGGGGTTTTTTCTTTAACAGAAACCAAAACCAGCAGGGTGATGTTGAATCATCAGCTGGTGATA
TCGAATTAGGTGAA
Found at i:5063320 original size:36 final size:37
Alignment explanation
Indices: 5063238--5063325 Score: 117
Period size: 39 Copynumber: 2.4 Consensus size: 37
5063228 CTTTTAAATG
* *
5063238 TGATAATATAAAATTGATATTAACTTCCTCTGACCGCTT
1 TGATAATGTAAAACTGATATTAACTT-CTCT-ACCGCTT
5063277 TGATAATGTAAAACTGATATTAACTT-TCT-CCTGCTT
1 TGATAATGTAAAACTGATATTAACTTCTCTACC-GCTT
5063313 TGATAATGTAAAA
1 TGATAATGTAAAA
5063326 ATGCTACTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
35 2 0.04
36 17 0.37
37 3 0.07
39 24 0.52
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (37 bp):
TGATAATGTAAAACTGATATTAACTTCTCTACCGCTT
Found at i:5072227 original size:14 final size:14
Alignment explanation
Indices: 5072201--5072242 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
5072191 TAAATCAAAC
*
5072201 AATATTTTATATAT
1 AATATTATATATAT
5072215 AA-ATTAGTATATAT
1 AATATTA-TATATAT
5072229 AATATTATATATAT
1 AATATTATATATAT
5072243 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 18 0.72
15 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
AATATTATATATAT
Found at i:5072603 original size:67 final size:67
Alignment explanation
Indices: 5072520--5072671 Score: 225
Period size: 67 Copynumber: 2.3 Consensus size: 67
5072510 CTCACTCTTA
* ** *
5072520 GTCCCAAATAGGTGTTAATAGTTGAGATCTGGTGTTAAGTTGAATATTTATA-CAGTGTGCAGGT
1 GTCCCAAATAGGTGTTAACAGTTGAGATCTGGTGTTAAGTTGAATACCTATAGCA-TGTGCAGAT
*
5072584 TGT
65 TAT
* *
5072587 GTCCCAAATAGGTGTTAACAGTTGAGATCTGGTGTTAAGTTGAATACCTGTAGCATGTTCAGATT
1 GTCCCAAATAGGTGTTAACAGTTGAGATCTGGTGTTAAGTTGAATACCTATAGCATGTGCAGATT
5072652 AT
66 AT
5072654 GTCCCAAATAGGTGTTAA
1 GTCCCAAATAGGTGTTAA
5072672 GTTGAATATC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
67 75 0.97
68 2 0.03
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (67 bp):
GTCCCAAATAGGTGTTAACAGTTGAGATCTGGTGTTAAGTTGAATACCTATAGCATGTGCAGATT
AT
Found at i:5072817 original size:79 final size:79
Alignment explanation
Indices: 5072730--5072876 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 79
5072720 GTTTTTAATT
* * *
5072730 TTTTTTTATTTTTATGTATATAAAATTCAAAATATATAGCTTT-ACCACCTTTAAATAAATCAAA
1 TTTTTTTATTTTTATGTATATAAAATTCAAAATATATAACTTTGA-CACCCTTAAATAAACCAAA
5072794 TGAACCTTGCTTCAA
65 TGAACCTTGCTTCAA
* *
5072809 TTTTTTTATTTTTATGTGTATAAAATTCAAAATATATAACTTTGACACCCTTAATTAAACCAAAT
1 TTTTTTTATTTTTATGTATATAAAATTCAAAATATATAACTTTGACACCCTTAAATAAACCAAAT
5072874 GAA
66 GAA
5072877 TTATTGTGGA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 61 0.98
80 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.43
Consensus pattern (79 bp):
TTTTTTTATTTTTATGTATATAAAATTCAAAATATATAACTTTGACACCCTTAAATAAACCAAAT
GAACCTTGCTTCAA
Found at i:5073115 original size:60 final size:60
Alignment explanation
Indices: 5073051--5073163 Score: 181
Period size: 60 Copynumber: 1.9 Consensus size: 60
5073041 CATCTTATTT
*
5073051 TTTTTTTTGGTTTTCACCCTTTCACTTGGGTGTTTACCCTTCATCTATTTTTTTTTAAAA
1 TTTTTTTTGGTTTTCACCATTTCACTTGGGTGTTTACCCTTCATCTATTTTTTTTTAAAA
* * * *
5073111 TTTTTTTTGGTTTTCATCATTTCTCTTGGGTGTTTACCTTTCATCTCTTTTTT
1 TTTTTTTTGGTTTTCACCATTTCACTTGGGTGTTTACCCTTCATCTATTTTTT
5073164 CTTTTTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.12, C:0.18, G:0.11, T:0.60
Consensus pattern (60 bp):
TTTTTTTTGGTTTTCACCATTTCACTTGGGTGTTTACCCTTCATCTATTTTTTTTTAAAA
Found at i:5074329 original size:52 final size:52
Alignment explanation
Indices: 5074251--5074350 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
5074241 CTGAGTTCAA
5074251 GTTGTGTCCCAAATAAGTGTTAATAGTTGAGATATGGTGTTAAGTTGATCAG
1 GTTGTGTCCCAAATAAGTGTTAATAGTTGAGATATGGTGTTAAGTTGATCAG
* *
5074303 GTTGTGTCCTAAATAAGTGTTAATAGTTGAGATCTGGTGTTAAGTTGA
1 GTTGTGTCCCAAATAAGTGTTAATAGTTGAGATATGGTGTTAAGTTGA
5074351 ATATTTGTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.28, C:0.07, G:0.27, T:0.38
Consensus pattern (52 bp):
GTTGTGTCCCAAATAAGTGTTAATAGTTGAGATATGGTGTTAAGTTGATCAG
Found at i:5075967 original size:40 final size:40
Alignment explanation
Indices: 5075909--5075998 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
5075899 CCTTGCATGT
** *
5075909 TGATGTGGCACTGCCATGTCTGCAACACACACTTAAATGG
1 TGATGTGGCACTGCCATGTCAACAACACACACTTAAATAG
* * * *
5075949 TGATGTGGCAGTGTCATGTCAACAACCCATACTTAAATAG
1 TGATGTGGCACTGCCATGTCAACAACACACACTTAAATAG
5075989 TGATGTGGCA
1 TGATGTGGCA
5075999 ACGCCACATC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (40 bp):
TGATGTGGCACTGCCATGTCAACAACACACACTTAAATAG
Found at i:5079027 original size:55 final size:55
Alignment explanation
Indices: 5078939--5079043 Score: 174
Period size: 55 Copynumber: 1.9 Consensus size: 55
5078929 ATTCATCCAA
* *
5078939 AGAGAATGTGAAAGAAAATTGTTACAGGGTAATTGGCTTTCTAGAAAATTTTACT
1 AGAGAACGTGAAAGAAAATTGTTACAGGCTAATTGGCTTTCTAGAAAATTTTACT
* *
5078994 AGAGAACGTGAAAGAAAATTGTTATAGGCTAATTGGCTTTCTTGAAAATT
1 AGAGAACGTGAAAGAAAATTGTTACAGGCTAATTGGCTTTCTAGAAAATT
5079044 GGGTATGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (55 bp):
AGAGAACGTGAAAGAAAATTGTTACAGGCTAATTGGCTTTCTAGAAAATTTTACT
Found at i:5086707 original size:54 final size:54
Alignment explanation
Indices: 5086616--5086721 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
5086606 TATTTGTACC
*
5086616 CAATTGAACTATATTTTCTTTATTTTACCCAAATGAGTGTATACGTGAAATCTA
1 CAATTGAACCATATTTTCTTTATTTTACCCAAATGAGTGTATACGTGAAATCTA
** * *
5086670 CAATTGAACCATA-TTTCTTTTATTTTGTCCAATTGAGTGTATATGTGAAATC
1 CAATTGAACCATATTTTC-TTTATTTTACCCAAATGAGTGTATACGTGAAATC
5086722 AAACATGGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 4 0.09
54 42 0.91
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (54 bp):
CAATTGAACCATATTTTCTTTATTTTACCCAAATGAGTGTATACGTGAAATCTA
Found at i:5094206 original size:60 final size:59
Alignment explanation
Indices: 5094142--5094266 Score: 187
Period size: 60 Copynumber: 2.1 Consensus size: 59
5094132 AATCCTATGA
* * *
5094142 TAATTATGTTCGGCAAATGCCAAAAAGTACATTCGTTTTACACTAATTAATAAGCAAATT
1 TAATTATGTTAGGCAAAAGCCAAAAAGTACATTCGTTGTACACTAATTAATAAG-AAATT
* * *
5094202 TAATTATGTTAGGCAAAAGCCGAAGAGTACATTCGTTGTACACTAATTAATAAGAATTT
1 TAATTATGTTAGGCAAAAGCCAAAAAGTACATTCGTTGTACACTAATTAATAAGAAATT
5094261 TAATTA
1 TAATTA
5094267 AATCGAAGAG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 10 0.17
60 49 0.83
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (59 bp):
TAATTATGTTAGGCAAAAGCCAAAAAGTACATTCGTTGTACACTAATTAATAAGAAATT
Found at i:5097406 original size:28 final size:29
Alignment explanation
Indices: 5097365--5097424 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
5097355 GTCTATGGGC
*
5097365 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
5097393 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
5097423 AA
1 AA
5097425 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:5101827 original size:105 final size:105
Alignment explanation
Indices: 5101700--5101907 Score: 353
Period size: 105 Copynumber: 2.0 Consensus size: 105
5101690 TGGTAAGGGG
* *
5101700 ATATAAAATTTTACTTAAAAAATGTTGTGAAAGAATAAAATAGAGTTATGTGCGCACTCGATGAA
1 ATATAAAATTTTACTTAAAAAATGTTGTGAAAGAATAAAATAGAGTTAGGTGCGCACTCAATGAA
*
5101765 TTCCAAACATCTCTATTCTCATTTCTTAAAAGGAAAAAAA
66 TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAAAAAA
* * * *
5101805 ATATACAATTTTACTTCAAAAATGTTGTGAAAGAATAAACTAGAGTTAGGTGCGCACTCAATGAG
1 ATATAAAATTTTACTTAAAAAATGTTGTGAAAGAATAAAATAGAGTTAGGTGCGCACTCAATGAA
5101870 TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAAAA
66 TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAAAA
5101908 GAAAATTCAG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (105 bp):
ATATAAAATTTTACTTAAAAAATGTTGTGAAAGAATAAAATAGAGTTAGGTGCGCACTCAATGAA
TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAAAAAA
Found at i:5103106 original size:228 final size:227
Alignment explanation
Indices: 5102708--5103160 Score: 897
Period size: 228 Copynumber: 2.0 Consensus size: 227
5102698 ATTAAATTTT
5102708 TCTTTTTCAATTGATAATACAGTCCATCCATTTATTCTTTCTTGATATATCGTTGATCTTAATAA
1 TCTTTTTCAATTGATAATACAGTCCATCCATTTATTCTTTCTTGATATATCGTTGATCTTAATAA
5102773 AATTTTATTAATTTTAGTTTTGATAAACTTTTTTCTCATCAAGCAACACTTACTATAATTATTAA
66 AATTTTATTAATTTTAGTTTTGATAAACTTTTTTCTCATCAAGCAACACTTACTATAATTATTAA
5102838 TATATGTGTTTAGAAAAAAATCAAATCTACTCATATGATTAAATATGTCGATTGGACTATTATTT
131 TATATGTGTTTAGAAAAAAATCAAATCTACTCATATGATTAAATATGTCGATTGGACTATTATTT
5102903 TTCATTTATATAATTTTTTTTAAAATTTTTAC
196 TTCATTTATATAATTTTTTTTAAAATTTTTAC
5102935 TNCTTTTTCAATTGATAATACAGTCCATCCATTTATTCTTTCTTGATATATCGTTGATCTTAATA
1 T-CTTTTTCAATTGATAATACAGTCCATCCATTTATTCTTTCTTGATATATCGTTGATCTTAATA
5103000 AAATTTTATTAATTTTAGTTTTGATAAACTTTTTTCTCATCAAGCAACACTTACTATAATTATTA
65 AAATTTTATTAATTTTAGTTTTGATAAACTTTTTTCTCATCAAGCAACACTTACTATAATTATTA
5103065 ATATATGTGTTTAGAAAAAAATCAAATCTACTCATATGATTAAATATGTCGATTGGACTATTATT
130 ATATATGTGTTTAGAAAAAAATCAAATCTACTCATATGATTAAATATGTCGATTGGACTATTATT
5103130 TTTCATTTATATAATTTTTTTTAAAATTTTT
195 TTTCATTTATATAATTTTTTTTAAAATTTTT
5103161 TACTTTAAAA
Statistics
Matches: 225, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
227 1 0.00
228 224 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (227 bp):
TCTTTTTCAATTGATAATACAGTCCATCCATTTATTCTTTCTTGATATATCGTTGATCTTAATAA
AATTTTATTAATTTTAGTTTTGATAAACTTTTTTCTCATCAAGCAACACTTACTATAATTATTAA
TATATGTGTTTAGAAAAAAATCAAATCTACTCATATGATTAAATATGTCGATTGGACTATTATTT
TTCATTTATATAATTTTTTTTAAAATTTTTAC
Found at i:5104666 original size:183 final size:183
Alignment explanation
Indices: 5104070--5104986 Score: 1284
Period size: 183 Copynumber: 5.0 Consensus size: 183
5104060 TTTCGGATGG
* * * * *
5104070 AAAGGACATTATCGATTTAAAATTTTTGATAATTATGAATCAACCAATGGTTCTAAGGAGC-CAA
1 AAAGG-CATTATTGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTCTGAGGTGCGGAA
* * *
5104134 AAAAATTGAATGATTAATTTCCCTAAATTATTTAATGAAAATTTTTAACTCCATAAAAAA-ATCC
65 AAAAATTGAATGATTAATTTCTCTAAATTATTTAATGAAAATTTTAAATTCCATAAAAAATATCC
** * * * **
5104198 TTTTCCGCTAAATTAGTTGTAAAAAGAGTAACAAAGGGATAATCAATGATACCC
130 TTTTCTACTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAA
* * * *
5104252 AAAGGCATTATTGATTTAAAATTTTCGATAAATATGAATCAATAAATGGTTCTGCGGTGCGGAAA
1 AAAGGCATTATTGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTCTGAGGTGCGGAAA
* * * *
5104317 AAATTTGAATGATTAATTTCTCTAAATTATTTAATGAAAATTTTAAATTGCATAAAAAATACCCC
66 AAAATTGAATGATTAATTTCTCTAAATTATTTAATGAAAATTTTAAATTCCATAAAAAATATCCT
*
5104382 TTTCTATTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATAC-A
131 TTTCTACTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAA
* * * * *
5104434 AAAGGCATTATTGATTTAAAATTTTCGATAATCATGAATCAATCAATGGTTGTGAAGTGTGGAAA
1 AAAGGCATTATTGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTCTGAGGTGCGGAAA
* * *
5104499 AAAATTGAATGATTAATTTCTCTAAATTATCTAATGAAAATTTTATACTCCATAAAAAATATCCT
66 AAAATTGAATGATTAATTTCTCTAAATTATTTAATGAAAATTTTAAATTCCATAAAAAATATCCT
** *
5104564 TTTCTACTAAATTATTTGTAAAAAGTGTAATGAAGGGATAACCAATGCTACAA
131 TTTCTACTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAA
* * *
5104617 AAAGGCATTATTGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTGTGGGGTGCGGGAA
1 AAAGGCATTATTGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTCTGAGGTGCGGAAA
* * *
5104682 AAAATTAAATGATTAATTT-TCCTAAATTATTTAATAAAAATTTTAAATTCCATAAAAGATATCC
66 AAAATTGAATGATTAATTTCT-CTAAATTATTTAATGAAAATTTTAAATTCCATAAAAAATATCC
* *
5104746 TTTTCTACTAAATTATTTGTAAAAAGTGTAACAAATGGATAATCAATGATACAA
130 TTTTCTACTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAA
* * * *
5104800 AAAGGCATTATCGATTTAAAATTTTTTATAATTATGAATCAATCAATGGTTTTGAGGTGTGGAAA
1 AAAGGCATTATTGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTCTGAGGTGCGGAAA
* * *
5104865 AAAATTGAATGATTAATTTCTTTAAATTATTTAATAAAAATTTTAAATTTCATAAAAAATATCCT
66 AAAATTGAATGATTAATTTCTCTAAATTATTTAATGAAAATTTTAAATTCCATAAAAAATATCCT
* * * * * *
5104930 TTTTTGCTAAATTATTTTTAAAACGTATAACAAAGGGATAACCAATGGTACAA
131 TTTCTACTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAA
5104983 AAAG
1 AAAG
5104987 TATAGAATTG
Statistics
Matches: 654, Mismatches: 76, Indels: 9
0.88 0.10 0.01
Matches are distributed among these distances:
181 47 0.07
182 226 0.35
183 380 0.58
184 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (183 bp):
AAAGGCATTATTGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTCTGAGGTGCGGAAA
AAAATTGAATGATTAATTTCTCTAAATTATTTAATGAAAATTTTAAATTCCATAAAAAATATCCT
TTTCTACTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAA
Found at i:5104801 original size:365 final size:366
Alignment explanation
Indices: 5104070--5104986 Score: 1326
Period size: 365 Copynumber: 2.5 Consensus size: 366
5104060 TTTCGGATGG
* * *
5104070 AAAGGACATTATCGATTTAAAATTTTTGATAATTATGAATCAACCAATGGTTCT-AAG-GAGCCA
1 AAAGG-CATTATCGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTCTGAAGTGTG-GA
*
5104133 AAAAAATTGAATGATTAATTTCCCTAAATTATTTAATGAAAATTTT-TAACTCCATAAAAAA-AT
64 AAAAAATTGAATGATTAATTTCTCTAAATTATTTAATGAAAATTTTAT-ACTCCATAAAAAATAT
* * * * **
5104196 CCTTTTCCGCTAAATTAGTTGTAAAAAGAGTAACAAAGGGATAATCAATGATACCCAAAGGCATT
128 CCTTTTCTGCTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAAAAAGGCATT
*
5104261 ATTGATTTAAAATTTTCGATAAATATGAATCAATAAATGGTTCTGCGGTGCGGAAAAAATTTGAA
193 ATTGATTTAAAATTTTCGATAAATATGAATCAATAAATGGTTCTGCGGTGCGGAAAAAATTTAAA
* * *
5104326 TGATTAATTTCTCTAAATTATTTAATGAAAATTTTAAATTGCATAAAAAATACCCCTTTCTATTA
258 TGATTAATTTCTCTAAATTATTTAATAAAAATTTTAAATTCCATAAAAAATACCCCTTTCTACTA
5104391 AATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATAC-A
323 AATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAA
* * * *
5104434 AAAGGCATTATTGATTTAAAATTTTCGATAATCATGAATCAATCAATGGTTGTGAAGTGTGGAAA
1 AAAGGCATTATCGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTCTGAAGTGTGGAAA
*
5104499 AAAATTGAATGATTAATTTCTCTAAATTATCTAATGAAAATTTTATACTCCATAAAAAATATCCT
66 AAAATTGAATGATTAATTTCTCTAAATTATTTAATGAAAATTTTATACTCCATAAAAAATATCCT
* ** *
5104564 TTTCTACTAAATTATTTGTAAAAAGTGTAATGAAGGGATAACCAATGCTACAAAAAGGCATTATT
131 TTTCTGCTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAAAAAGGCATTATT
* * * * *
5104629 GATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTGTGGGGTGCGGGAAAAAA-TTAAATG
196 GATTTAAAATTTTCGATAAATATGAATCAATAAATGGTTCTGCGGTGC-GGAAAAAATTTAAATG
* * *
5104693 ATTAATTT-TCCTAAATTATTTAATAAAAATTTTAAATTCCATAAAAGATATCCTTTTCTACTAA
260 ATTAATTTCT-CTAAATTATTTAATAAAAATTTTAAATTCCATAAAAAATACCCCTTTCTACTAA
* *
5104757 ATTATTTGTAAAAAGTGTAACAAATGGATAATCAATGATACAA
324 ATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAA
* * *
5104800 AAAGGCATTATCGATTTAAAATTTTTTATAATTATGAATCAATCAATGGTTTTGAGGTGTGGAAA
1 AAAGGCATTATCGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTCTGAAGTGTGGAAA
* * * * *
5104865 AAAATTGAATGATTAATTTCTTTAAATTATTTAATAAAAATTTTAAATTTCATAAAAAATATCCT
66 AAAATTGAATGATTAATTTCTCTAAATTATTTAATGAAAATTTTATACTCCATAAAAAATATCCT
* * * * *
5104930 TTTTTGCTAAATTATTTTTAAAACGTATAACAAAGGGATAACCAATGGTACAAAAAG
131 TTTCTGCTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAAAAAG
5104987 TATAGAATTG
Statistics
Matches: 493, Mismatches: 53, Indels: 12
0.88 0.09 0.02
Matches are distributed among these distances:
363 43 0.09
364 67 0.14
365 207 0.42
366 176 0.36
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (366 bp):
AAAGGCATTATCGATTTAAAATTTTTGATAATTATGAATCAATCAATGGTTCTGAAGTGTGGAAA
AAAATTGAATGATTAATTTCTCTAAATTATTTAATGAAAATTTTATACTCCATAAAAAATATCCT
TTTCTGCTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAAAAAGGCATTATT
GATTTAAAATTTTCGATAAATATGAATCAATAAATGGTTCTGCGGTGCGGAAAAAATTTAAATGA
TTAATTTCTCTAAATTATTTAATAAAAATTTTAAATTCCATAAAAAATACCCCTTTCTACTAAAT
TATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAA
Found at i:5111113 original size:18 final size:18
Alignment explanation
Indices: 5111090--5111125 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
5111080 AGAGTCCTTG
5111090 ACGCTTGTCAGAATGGAT
1 ACGCTTGTCAGAATGGAT
5111108 ACGCTTGTCAGAATGGAT
1 ACGCTTGTCAGAATGGAT
5111126 TATGTTCAAT
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:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (18 bp):
ACGCTTGTCAGAATGGAT
Found at i:5114292 original size:25 final size:25
Alignment explanation
Indices: 5114267--5114325 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
5114257 TTTATTTTTA
*
5114267 TTTCTTATTGGGCCATGCCCACTTAT
1 TTTC-TATTGGACCATGCCCACTTAT
*
5114293 TTTCTATTGGATCATGCCCACTTAT
1 TTTCTATTGGACCATGCCCACTTAT
5114318 TTTCTATT
1 TTTCTATT
5114326 TCTTTTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 27 0.87
26 4 0.13
ACGTcount: A:0.17, C:0.24, G:0.12, T:0.47
Consensus pattern (25 bp):
TTTCTATTGGACCATGCCCACTTAT
Found at i:5114352 original size:16 final size:16
Alignment explanation
Indices: 5114317--5114356 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
5114307 TGCCCACTTA
*
5114317 TTTTCTATTTCTTTTC
1 TTTTCTCTTTCTTTTC
5114333 TTTTCTCTTTC-TTTC
1 TTTTCTCTTTCTTTTC
5114348 TTTTTCTCT
1 -TTTTCTCT
5114357 CTTCCACCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTCTCTTTCTTTTC
Found at i:5114401 original size:22 final size:22
Alignment explanation
Indices: 5114373--5114420 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
5114363 CCGTCACTCC
*
5114373 CTTCACCACCATGTCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
*
5114395 CTTCACCACCGTGGCTTCCTCT
1 CTTCACCACCATGGCTTCCTCT
5114417 CTTC
1 CTTC
5114421 CTTTCCTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.46, G:0.08, T:0.35
Consensus pattern (22 bp):
CTTCACCACCATGGCTTCCTCT
Found at i:5114592 original size:34 final size:34
Alignment explanation
Indices: 5114554--5114674 Score: 170
Period size: 34 Copynumber: 3.6 Consensus size: 34
5114544 CACAAAGCTG
* * **
5114554 TCCAATTTTCCTGCACAAACTACCAGCAAACAGC
1 TCCAATTTTTCTGCACAAAATGGCAGCAAACAGC
* *
5114588 TCCAATTTTTCTGCACAAAAGGGCAACAAACAGC
1 TCCAATTTTTCTGCACAAAATGGCAGCAAACAGC
*
5114622 TCCAATTTTTCTGCACAAATTGGCAGCAAACAGC
1 TCCAATTTTTCTGCACAAAATGGCAGCAAACAGC
*
5114656 TCAAATTTTTCTGCACAAA
1 TCCAATTTTTCTGCACAAA
5114675 GTTGTCCTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 77 1.00
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.25
Consensus pattern (34 bp):
TCCAATTTTTCTGCACAAAATGGCAGCAAACAGC
Found at i:5115111 original size:16 final size:17
Alignment explanation
Indices: 5115092--5115125 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5115082 TTTTACACTC
5115092 TTTTCTTTTGT-TTTCT
1 TTTTCTTTTGTCTTTCT
*
5115108 TTTTTTTTTGTCTTTCT
1 TTTTCTTTTGTCTTTCT
5115125 T
1 T
5115126 CCATTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTGTCTTTCT
Found at i:5120465 original size:60 final size:60
Alignment explanation
Indices: 5120401--5120526 Score: 200
Period size: 60 Copynumber: 2.1 Consensus size: 60
5120391 AATCCTATAA
* *
5120401 TAATTATGTTAGGCAAATGCCCAAAAGTACATTCGTTTTACACTAATTAATAAGCAAA-TT
1 TAATTATGTTAGGCAAAAGCCCAAAAGTACATTCGTTGTACACTAATTAATAAG-AAATTT
* *
5120461 TAATTATGTTAGGCAAAAGCCGAAGAGTACATTCGTTGTACACTAATTAATAAGAAATTT
1 TAATTATGTTAGGCAAAAGCCCAAAAGTACATTCGTTGTACACTAATTAATAAGAAATTT
5120521 TAATTA
1 TAATTA
5120527 AATCAAAGAG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
59 3 0.05
60 58 0.95
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (60 bp):
TAATTATGTTAGGCAAAAGCCCAAAAGTACATTCGTTGTACACTAATTAATAAGAAATTT
Found at i:5124928 original size:105 final size:105
Alignment explanation
Indices: 5124746--5125056 Score: 586
Period size: 105 Copynumber: 3.0 Consensus size: 105
5124736 CGGTAGGGGG
* * *
5124746 ATATAAAATTTTACTTCAAAAATGTTGTGAAAGAATAAAATAAAGTTATGTGCGCACTCGATGAG
1 ATATACAATTTTACTTTAAAAATGTTGTGAAAGAATAAAATAGAGTTATGTGCGCACTCGATGAG
5124811 TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAAGAAA
66 TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAAGAAA
5124851 ATATACAATTTTACTTTAAAAATGTTGTGAAAGAATAAAATAGAGTTATGTGCGCACTCGATGAG
1 ATATACAATTTTACTTTAAAAATGTTGTGAAAGAATAAAATAGAGTTATGTGCGCACTCGATGAG
5124916 TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAAGAAA
66 TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAAGAAA
*
5124956 ATATACAATTTTACTTTAAAAATGTTGTGAAAGAATAAAATAGAGTTATGTGCGCACTCAATGAG
1 ATATACAATTTTACTTTAAAAATGTTGTGAAAGAATAAAATAGAGTTATGTGCGCACTCGATGAG
5125021 TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAA
66 TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAA
5125057 AAGAAAATTC
Statistics
Matches: 202, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 202 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (105 bp):
ATATACAATTTTACTTTAAAAATGTTGTGAAAGAATAAAATAGAGTTATGTGCGCACTCGATGAG
TTCCAAACATCTCTATTCCCATTTCTTAAAAGGAAAGAAA
Found at i:5128259 original size:184 final size:183
Alignment explanation
Indices: 5127811--5128482 Score: 1006
Period size: 184 Copynumber: 3.7 Consensus size: 183
5127801 AACTACTACT
* * *
5127811 AAAAAATTGAATGATTAATTTCTCTAAATTATTTAATAAAAAATTTAAATTTCATAAAAAATACC
1 AAAAAATTGAATGATTAATTTCTCTAAATTATTTAATAAAAATTTTAAATTCCATAAAAAATATC
** *
5127876 CTTTTCTATTAAATTATTTGTAAAAAGTGTAACGAAGGGATAACCAATGATAC-AAAAGGCATTA
66 CTTTTCTGCTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAAAAAGGCATTA
* * *
5127940 TTGATTTAAAAT-TTTCGATAATCATGAATCAATCAATGGTTGTGAGGTGTGGA
131 TCGATTTAAAATATTT-GATAATTATGAATCAATCAATGGTTGTGAGGTGCGGA
* * *
5127993 AAAAAATTGAATGATTAATTTCTCTAAATTATCTAATAAAAATTTTAAACTCCATAAAAAAAATC
1 AAAAAATTGAATGATTAATTTCTCTAAATTATTTAATAAAAATTTTAAATTCCATAAAAAATATC
* *
5128058 CTTTTCTGCTAAATTATTTGTAAAAAGTGTAACAAATGGATAATCAATGATACAAAAAGGCATTA
66 CTTTTCTGCTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAAAAAGGCATTA
5128123 TCGATTTAAAATATTTGATAATTATGAATCAATCAATGGTTGTGAGGTGCGAGA
131 TCGATTTAAAATATTTGATAATTATGAATCAATCAATGGTTGTGAGGTGCG-GA
* * * * *
5128177 AAAAAATTAAATGATAAATTTCCCTAAATTATTTAATGAAAATTTTAAATTCCATAAAAGATATC
1 AAAAAATTGAATGATTAATTTCTCTAAATTATTTAATAAAAATTTTAAATTCCATAAAAAATATC
* * * *
5128242 CTCTTCTGTTAAATTATTTGTAAAAAGTGTAACAAAGGGATAATCAATGATACACAAAGGCATTA
66 CTTTTCTGCTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAAAAAGGCATTA
*
5128307 TCGATTTAAAATATTTGATAATTATGAATCAATCAATGGTTTTGAGGTGCGGA
131 TCGATTTAAAATATTTGATAATTATGAATCAATCAATGGTTGTGAGGTGCGGA
* * *
5128360 AAAAAGTTGAATGATTAATTTCTTTAAATTATTTAATGAAAATTTTAAATTCCATAAAAAATATC
1 AAAAAATTGAATGATTAATTTCTCTAAATTATTTAATAAAAATTTTAAATTCCATAAAAAATATC
* * * * * * *
5128425 CTTTTTTGCTAAATTATTTTTAAAACGTATAGCAAATGGATAACCAATGGTACAAAAA
66 CTTTTCTGCTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAAAAA
5128483 AAAAGTACAT
Statistics
Matches: 443, Mismatches: 44, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
182 107 0.24
183 163 0.37
184 173 0.39
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (183 bp):
AAAAAATTGAATGATTAATTTCTCTAAATTATTTAATAAAAATTTTAAATTCCATAAAAAATATC
CTTTTCTGCTAAATTATTTGTAAAAAGTGTAACAAAGGGATAACCAATGATACAAAAAGGCATTA
TCGATTTAAAATATTTGATAATTATGAATCAATCAATGGTTGTGAGGTGCGGA
Found at i:5128959 original size:22 final size:25
Alignment explanation
Indices: 5128917--5128973 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
5128907 TTATCATATC
5128917 GTCATCCACCACAAGAGAAGAGTGA
1 GTCATCCACCACAAGAGAAGAGTGA
*
5128942 GTCATCCACCACAAAAGAAGAGTGA
1 GTCATCCACCACAAGAGAAGAGTGA
5128967 GTCATCC
1 GTCATCC
5128974 TAGGTTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (25 bp):
GTCATCCACCACAAGAGAAGAGTGA
Found at i:5129693 original size:16 final size:15
Alignment explanation
Indices: 5129674--5129716 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
5129664 TTACTTATTT
5129674 TTAGTTATTTTTATAA
1 TTAGTTATTTTTA-AA
*
5129690 TTAGTTTATTTTTAAG
1 TTAG-TTATTTTTAAA
*
5129706 TGAGTTATTTT
1 TTAGTTATTTT
5129717 AATTTTATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (15 bp):
TTAGTTATTTTTAAA
Found at i:5152602 original size:18 final size:18
Alignment explanation
Indices: 5152579--5152615 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
5152569 TACCAAGTAT
*
5152579 GCCTAATGTATTGACAAG
1 GCCTAATGTATCGACAAG
5152597 GCCTAATGTATCGACAAG
1 GCCTAATGTATCGACAAG
5152615 G
1 G
5152616 TCTGGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (18 bp):
GCCTAATGTATCGACAAG
Found at i:5153335 original size:13 final size:13
Alignment explanation
Indices: 5153317--5153341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5153307 TTTGGACAGT
5153317 GAGAAAGTGAGAA
1 GAGAAAGTGAGAA
5153330 GAGAAAGTGAGA
1 GAGAAAGTGAGA
5153342 GAAAAGTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.40, T:0.08
Consensus pattern (13 bp):
GAGAAAGTGAGAA
Found at i:5154258 original size:41 final size:41
Alignment explanation
Indices: 5154198--5154275 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
5154188 ATCTTTACCG
*
5154198 TTTGATTGTTAATACCGTTAATAAACAGTTAAAAAAATTCA
1 TTTGATTGTTAATACCGTTAATAAACAATTAAAAAAATTCA
* *
5154239 TTTGATTGTTAATATCGTTAGTAAACAATTAAAAAAA
1 TTTGATTGTTAATACCGTTAATAAACAATTAAAAAAA
5154276 ATAAACCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (41 bp):
TTTGATTGTTAATACCGTTAATAAACAATTAAAAAAATTCA
Found at i:5154866 original size:28 final size:29
Alignment explanation
Indices: 5154831--5154887 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
5154821 TTTTTTTAAA
5154831 AAAATTAAATAAATTTTTAT-TTATTATT
1 AAAATTAAATAAATTTTTATATTATTATT
* *
5154859 AAAATTAATTAAATTTTTATATTTTTATT
1 AAAATTAAATAAATTTTTATATTATTATT
5154888 TTGAGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
AAAATTAAATAAATTTTTATATTATTATT
Found at i:5155694 original size:26 final size:27
Alignment explanation
Indices: 5155645--5155695 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
5155635 TTAACTAGAT
*
5155645 AATAATATTATACAATAATTTTAATTA
1 AATAATATTATACAATAATCTTAATTA
* *
5155672 AATAAT-TTATATAATTATCTTAAT
1 AATAATATTATACAATAATCTTAAT
5155696 AATATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
AATAATATTATACAATAATCTTAATTA
Found at i:5157415 original size:2 final size:2
Alignment explanation
Indices: 5157410--5157493 Score: 87
Period size: 2 Copynumber: 42.0 Consensus size: 2
5157400 AGAGAGAGAC
* * * * * **
5157410 AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT AT AT AC AC AC GC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
5157452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5157494 CTTTTAGCAT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.40
Consensus pattern (2 bp):
AT
Found at i:5189101 original size:41 final size:41
Alignment explanation
Indices: 5189039--5189122 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
5189029 TTGGAACACT
* * * *
5189039 TAAAACCTACCGTACATAGCATGATGGGTAGTATCAATGGC
1 TAAAACCTACCATACACAGCATGATAGGAAGTATCAATGGC
*
5189080 TAAAACCTACTATACACAGCATGATAGGAAGTATCAATGGC
1 TAAAACCTACCATACACAGCATGATAGGAAGTATCAATGGC
5189121 TA
1 TA
5189123 CTACAAACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (41 bp):
TAAAACCTACCATACACAGCATGATAGGAAGTATCAATGGC
Found at i:5189954 original size:23 final size:21
Alignment explanation
Indices: 5189927--5189991 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 21
5189917 AAAATATCCT
5189927 TTATAAGTTTAAAAAATTACATA
1 TTATAA-TTTAAAAAATTA-ATA
5189950 TTATATATTATAAAAAA-TAATA
1 TTATA-ATT-TAAAAAATTAATA
*
5189972 TT-TAAATTTTAAAAATTAAT
1 TTAT-AATTTAAAAAATTAAT
5189992 TAAAATTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
20 6 0.16
21 8 0.22
22 6 0.16
23 9 0.24
24 8 0.22
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TTATAATTTAAAAAATTAATA
Found at i:5190115 original size:41 final size:41
Alignment explanation
Indices: 5190024--5190121 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
5190014 ATAATAACAT
* * *
5190024 TTAAATTATAAATAAAATATTAATATTGTAAAATTTTAATGA
1 TTAAATTATATAT-AAATATTAATATTGTAAAATATCAATGA
*
5190066 TTAAATTATATATAAATATTAATATT-TAAAATATCAATTA
1 TTAAATTATATATAAATATTAATATTGTAAAATATCAATGA
5190106 TTAATATTAT-TATAAA
1 TTAA-ATTATATATAAA
5190122 AAAGAAAGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 21 0.41
41 18 0.35
42 12 0.24
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (41 bp):
TTAAATTATATATAAATATTAATATTGTAAAATATCAATGA
Found at i:5190263 original size:77 final size:78
Alignment explanation
Indices: 5190101--5190273 Score: 187
Period size: 77 Copynumber: 2.2 Consensus size: 78
5190091 TTAAAATATC
* *
5190101 AATTATTAATATTATTATAAAAAAGAAAGAAGTTTAAATTTTTAATTATATATTGTAAAAAATAA
1 AATTATTAATATTATTATAAAAAAGAAAGAAGTTTAAATTTATAATAATATATTGTAAAAAAT-A
* *
5190166 ACATTTTAATTGAT
65 ACATTTTAATTAAA
* *
5190180 AATTATTAATATTATTAT-GAAAAGAAA-AAGTTTAAATTTATAGTAATATA-T-TACAAAAAT-
1 AATTATTAATATTATTATAAAAAAGAAAGAAGTTTAAATTTATAATAATATATTGTA-AAAAATA
*
5190240 ATATTTTAAAATTAAA
65 ACATTTT--AATTAAA
5190256 AATTTATTAA-AGTTATTA
1 AA-TTATTAATA-TTATTA
5190274 ATATTTTAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
74 6 0.07
75 2 0.02
76 15 0.18
77 33 0.40
78 8 0.10
79 18 0.22
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (78 bp):
AATTATTAATATTATTATAAAAAAGAAAGAAGTTTAAATTTATAATAATATATTGTAAAAAATAA
CATTTTAATTAAA
Found at i:5190328 original size:23 final size:23
Alignment explanation
Indices: 5190306--5190349 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
5190296 TAAATTATGA
5190306 ATAAAATATTAATA-TTTAAATG
1 ATAAAATATTAATATTTTAAATG
* *
5190328 ATCAATTATTAATATTTTAAAT
1 ATAAAATATTAATATTTTAAAT
5190350 TAATTATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATAAAATATTAATATTTTAAATG
Found at i:5202825 original size:29 final size:29
Alignment explanation
Indices: 5202767--5202825 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 29
5202757 AGAATGTCTC
*
5202767 TTTCTCTTTCTCTCCTTTTTGTTTTTTTT
1 TTTCTCTTTCTCTCCTTCTTGTTTTTTTT
* * *
5202796 TTTCTGTTTCTCT-C-TCTTGTTCTTTCT
1 TTTCTCTTTCTCTCCTTCTTGTTTTTTTT
5202823 TTT
1 TTT
5202826 AACTCTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 13 0.50
28 1 0.04
29 12 0.46
ACGTcount: A:0.00, C:0.22, G:0.05, T:0.73
Consensus pattern (29 bp):
TTTCTCTTTCTCTCCTTCTTGTTTTTTTT
Done.