Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 141 of 145
Found at i:46937831 original size:34 final size:34
Alignment explanation
Indices: 46937788--46937857 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
46937778 CTTAGAATAA
46937788 TATCGGATACACGAGAATCTCACACATTGTGTAC
1 TATCGGATACACGAGAATCTCACACATTGTGTAC
46937822 TATCGGATACACGAGAATCTCACACATTGTGTAC
1 TATCGGATACACGAGAATCTCACACATTGTGTAC
46937856 TA
1 TA
46937858 ACATATGGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (34 bp):
TATCGGATACACGAGAATCTCACACATTGTGTAC
Found at i:46947046 original size:13 final size:13
Alignment explanation
Indices: 46947028--46947057 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46947018 TCCAGCAACT
46947028 ATGAATTTATTTC
1 ATGAATTTATTTC
*
46947041 ATGAATTTATTTG
1 ATGAATTTATTTC
46947054 ATGA
1 ATGA
46947058 TGATCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:46947205 original size:50 final size:50
Alignment explanation
Indices: 46947147--46947389 Score: 301
Period size: 50 Copynumber: 4.8 Consensus size: 50
46947137 ATTTGGGTAA
46947147 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
*
46947197 AGAGGTCCCATGTAAGACCATGTCTGGGACAT-AGCATTGGCCCCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGA-CATTGGCACCGAGATG
* * * * * *
46947247 ATAGGTCCCATGTAAGACTATTTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
** * *
46947297 AGAGGTCCCCCGTAAGACCATGTCTGGGACAT-AGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGA-CATTGGCACCGAGATG
*** * *
46947347 AGAACACCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
46947390 TGTTATTATC
Statistics
Matches: 162, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.01
50 130 0.80
51 31 0.19
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
Found at i:46947322 original size:100 final size:101
Alignment explanation
Indices: 46947149--46947389 Score: 340
Period size: 100 Copynumber: 2.4 Consensus size: 101
46947139 TTGGGTAAAG
* *
46947149 AGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAGGTCCCATGTAAGA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACGTAAGA
* * * *
46947214 CCATGTCTGGGACATAGCATTGGCCCCGAGATGA-T
66 CCATGTCTGGGACATAGCATGGGCACCGACATGAGA
* * * * *
46947249 AGGTCCCATGTAAGACTATTTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACGTAAGA
46947314 CCATGTCTGGGACATAGCATGGGCACCGACATGAGA
66 CCATGTCTGGGACATAGCATGGGCACCGACATGAGA
*** *
46947350 ACACCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
46947390 TGTTATTATC
Statistics
Matches: 122, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
100 89 0.73
101 33 0.27
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (101 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACGTAAGA
CCATGTCTGGGACATAGCATGGGCACCGACATGAGA
Found at i:46949815 original size:16 final size:16
Alignment explanation
Indices: 46949785--46949814 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46949775 AATGTTGGCA
46949785 ATGTAAAATAATTTTC
1 ATGTAAAATAATTTTC
46949801 ATGT-AAATAATTTT
1 ATGTAAAATAATTTT
46949815 TGTAATGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (16 bp):
ATGTAAAATAATTTTC
Found at i:46954139 original size:21 final size:21
Alignment explanation
Indices: 46954115--46954164 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
46954105 CTTGAACTCC
*
46954115 AAGGTTCAGGATTTGAA-GTTT
1 AAGGTTCAAGATTT-AAGGTTT
46954136 AAGGTTCAAGATTTAAGGTTT
1 AAGGTTCAAGATTTAAGGTTT
46954157 AAGGTTCA
1 AAGGTTCA
46954165 TGGTTCAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (21 bp):
AAGGTTCAAGATTTAAGGTTT
Found at i:46954152 original size:14 final size:13
Alignment explanation
Indices: 46954130--46954205 Score: 64
Period size: 14 Copynumber: 5.5 Consensus size: 13
46954120 TCAGGATTTG
46954130 AAGTTTAAGGTTC
1 AAGTTTAAGGTTC
*
46954143 AAGATTTAAGGTTT
1 AAG-TTTAAGGTTC
* *
46954157 AAGGTTCATGGTTC
1 AA-GTTTAAGGTTC
*
46954171 AAGCATTTGA-GTTC
1 AAG--TTTAAGGTTC
46954185 AAGTTTAAGGATTC
1 AAGTTTAAGG-TTC
46954199 AAGTTTA
1 AAGTTTA
46954206 CGAGTTATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
12 4 0.08
13 5 0.10
14 37 0.76
15 3 0.06
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (13 bp):
AAGTTTAAGGTTC
Found at i:46954199 original size:28 final size:27
Alignment explanation
Indices: 46954130--46954205 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
46954120 TCAGGATTTG
*
46954130 AAGTTTAAGGTTCAAGATTTAAGGTTT
1 AAGTTTAAGGTTCAAGATTTAAGGTTC
* * *
46954157 AAGGTTCATGGTTCAAGCATTTGA-GTTC
1 AA-GTTTAAGGTTCAAG-ATTTAAGGTTC
46954185 AAGTTTAAGGATTCAAG-TTTA
1 AAGTTTAAGG-TTCAAGATTTA
46954206 CGAGTTATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
26 3 0.08
27 8 0.21
28 23 0.59
29 5 0.13
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (27 bp):
AAGTTTAAGGTTCAAGATTTAAGGTTC
Found at i:46968481 original size:46 final size:44
Alignment explanation
Indices: 46968428--46968718 Score: 202
Period size: 46 Copynumber: 6.7 Consensus size: 44
46968418 ATTATACATG
* * * *
46968428 TCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTGCAAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAG-ATAG-AAA
* * *
46968474 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATAGAAA
* * **
46968518 TCCTATCTCCTTGAGATTACAGTGGAGCAGA-TTAA-A-AG--A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATAGAAA
* * * *** * ** * *
46968557 TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTA-ACAG--G
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATAGAAA
** * * *
46968598 TCTTATCTCATTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAG-ATAG-AAA
* * *
46968644 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATAGAAA
* *
46968688 TCCTATCTCCTTGAGATTACAGTGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA
46968719 TTAAAGGATC
Statistics
Matches: 191, Mismatches: 47, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
39 24 0.13
40 2 0.01
41 31 0.16
42 1 0.01
43 4 0.02
44 59 0.31
45 6 0.03
46 64 0.34
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATAGAAA
Found at i:46968577 original size:39 final size:41
Alignment explanation
Indices: 46968428--46968935 Score: 226
Period size: 44 Copynumber: 11.8 Consensus size: 41
46968418 ATTATACATG
* * * * *
46968428 TCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTGCAAA
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATC-AA-AA-T--AGA
* *
46968474 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATCAAA-ATAG--A
* *
46968518 TCCTATCTC-CTTGAGATTACAGTGGAGCAGAT-TAAA-AGA
1 TCTTATCTCTC-TGAGATTACAGTGGAGCAGATCAAAATAGA
* * *** ** * *
46968557 TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTAACAGG
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATCAAAATAGA
*
46968598 TCTTATCTCAT-TGAGATTACAGTGGAGCAGACCGAAGAATTGCAGA
1 TCTTATCTC-TCTGAGATTACAGTGGAGCAGATC-AA-AA-T--AGA
* *
46968644 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATCAAA-ATAG--A
* * *
46968688 TCCTATCTC-CTTGAGATTACAGTGGAGCAGAT-TAAA-GGA
1 TCTTATCTCTC-TGAGATTACAGTGGAGCAGATCAAAATAGA
* * * *** ** *
46968727 TCATATCTCTCTGAGGTTACAGTAGAATGGATC-GTATCAGG
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATCAAAAT-AGA
* * *
46968768 TCTTATCTCCCTGAGATTACAGTGGAGAAGACCGAAGAATTGCAGA
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATC-AA-AA-T--AGA
* * * * **
46968814 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAA
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGA-TCAAAATAG--A
* * *
46968858 TCCTATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCTCTGAGA-TTACAGTGGAGCAGATCAAAAT--A-GA
* *
46968902 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCA
1 TCTTATCTCTCTGAGA-TTACAGTGGAGCAGATCA
46968936 CATCAGATTG
Statistics
Matches: 354, Mismatches: 74, Indels: 70
0.71 0.15 0.14
Matches are distributed among these distances:
39 51 0.14
40 4 0.01
41 56 0.16
42 8 0.02
43 13 0.04
44 119 0.34
45 8 0.02
46 95 0.27
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (41 bp):
TCTTATCTCTCTGAGATTACAGTGGAGCAGATCAAAATAGA
Found at i:46968622 original size:80 final size:80
Alignment explanation
Indices: 46968521--46968794 Score: 287
Period size: 80 Copynumber: 3.3 Consensus size: 80
46968511 ATAGTAATCC
46968521 TATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGATCTTATCTCTCTGAGGTTACAGTAGAATG
1 TATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGATCTTATCTCTCTGAGGTTACAGTAGAATG
46968586 GATCGTAACAGGTCT
66 GATCGTAACAGGTCT
* ** * *
46968601 TATCTCATTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTACAG
1 TATCTCCTTGAGATTACAGTGGAGCAGA--TTA-AA----AGATCTTATCTCTCTGAGGTTACAG
** *** ** * * *
46968666 CGGAGCAGATCAAAGATAGTAATCC
59 TAGAATGGATCGTA-ACAG--GTCT
* *
46968691 TATCTCCTTGAGATTACAGTGGAGCAGATTAAAGGATCATATCTCTCTGAGGTTACAGTAGAATG
1 TATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGATCTTATCTCTCTGAGGTTACAGTAGAATG
*
46968756 GATCGTATCAGGTCT
66 GATCGTAACAGGTCT
*
46968771 TATCTCCCTGAGATTACAGTGGAG
1 TATCTCCTTGAGATTACAGTGGAG
46968795 AAGACCGAAG
Statistics
Matches: 150, Mismatches: 34, Indels: 20
0.74 0.17 0.10
Matches are distributed among these distances:
80 52 0.35
82 3 0.02
83 30 0.20
87 32 0.21
88 4 0.03
90 29 0.19
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (80 bp):
TATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGATCTTATCTCTCTGAGGTTACAGTAGAATG
GATCGTAACAGGTCT
Found at i:46968709 original size:170 final size:170
Alignment explanation
Indices: 46968427--46968927 Score: 790
Period size: 170 Copynumber: 2.9 Consensus size: 170
46968417 CATTATACAT
* * *
46968427 GTCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTGCAAATCTTATCTCCCTGAGATT
1 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
46968492 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGA
66 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGA
46968557 TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTAACAG
131 TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTAACAG
**
46968597 GTCTTATCTCATTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
1 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
*
46968662 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAGGA
66 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGA
* *
46968727 TCATATCTCTCTGAGGTTACAGTAGAATGGATCGTATCAG
131 TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTAACAG
*
46968767 GTCTTATCTCCCTGAGATTACAGTGGAGAAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
1 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
* ** * *
46968832 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCT-CTCTGA-AGTTACAGTGGAGCGGATTAAAA
66 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCT-TGAGA-TTACAGTGGAGCAGATT---A
*
46968895 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
126 -AAA-GATCTTATCTCTCTGAGGTTACAGTAGA
46968928 GTAGATCACA
Statistics
Matches: 305, Mismatches: 19, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
169 3 0.01
170 273 0.90
173 1 0.00
174 2 0.01
175 26 0.09
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (170 bp):
GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGA
TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTAACAG
Found at i:46969027 original size:44 final size:44
Alignment explanation
Indices: 46968940--46969032 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
46968930 AGATCACATC
* * *
46968940 AGATTGAAGCCAGAGATCTTATCTCCCTCAGATTACAGTGGAGT
1 AGATTGAAGCCAGAGATCCTATCTCCCTAAGATTACAGCGGAGT
* *
46968984 AGATTGAAGCTAGTA-ATCCTATCTCCCTGAAG-TTGCAGCGGAGT
1 AGATTGAAGCCAG-AGATCCTATCTCCCT-AAGATTACAGCGGAGT
46969028 AGATT
1 AGATT
46969033 AAAACACAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 39 0.93
45 3 0.07
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATTGAAGCCAGAGATCCTATCTCCCTAAGATTACAGCGGAGT
Found at i:46969818 original size:21 final size:22
Alignment explanation
Indices: 46969783--46969827 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
46969773 TTGAGTACTC
*
46969783 TTCTTGGT-TTTTTTTATTTTAT
1 TTCTTGGTCTTTTTTT-GTTTAT
46969805 TTCTT-GTCTTTTTTTGTTTAT
1 TTCTTGGTCTTTTTTTGTTTAT
46969826 TT
1 TT
46969828 ATATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.78
Consensus pattern (22 bp):
TTCTTGGTCTTTTTTTGTTTAT
Found at i:46970594 original size:3 final size:3
Alignment explanation
Indices: 46970569--46970685 Score: 114
Period size: 3 Copynumber: 39.3 Consensus size: 3
46970559 CTTAGCATTC
* * * * *
46970569 TTA TTA TTT TTA ATA TTA CTA TTA TTA TCA TTA TCA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
46970616 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCT- TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * *
46970661 ATA TT- TATG TTA TTA TTA TCA TTA T
1 TTA TTA T-TA TTA TTA TTA TTA TTA T
46970686 ATTTCTACTT
Statistics
Matches: 93, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
2 4 0.04
3 87 0.94
4 2 0.02
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:46971318 original size:109 final size:109
Alignment explanation
Indices: 46971075--46971397 Score: 429
Period size: 109 Copynumber: 3.0 Consensus size: 109
46971065 TCAAAAAAGG
* * * * *
46971075 AAAATATTTCAAATTGAGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
1 AAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * * *
46971140 GGGTGTCGATTTTTTCTCGTTCGACCAAATAGCTAAATATCATTTT
65 GGGTGTTGA-TTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
** *
46971186 AGGAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
46971251 GGTGTTGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
66 GGTGTTGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
* * *
46971295 AAAAATTTCAAAATAAAGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * *
46971359 GGT-TTCGA--TTTCTCGTTTAACCAAATTGCCAAATATCCT
66 GGTGTT-GATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
46971398 CTTGAATTTT
Statistics
Matches: 190, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
106 28 0.15
107 2 0.01
108 23 0.12
109 73 0.38
110 62 0.33
111 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (109 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTTGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
Found at i:46979942 original size:58 final size:58
Alignment explanation
Indices: 46979852--46979966 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
46979842 TAACGACAAG
*
46979852 ACAAAAGTGGCTAGCTTTTTGGTTTGGTTTTAGATGGTAATCTTGTTTTGGGACACCA
1 ACAAAAGTGGCTAGCTTTTTGGTTTGGTTTTAGATGGTAATATTGTTTTGGGACACCA
* *
46979910 ACAAAAGTTGTTAGCTTTTTGGTTTGGTTTTAGATGGTAATATTGTTTTGGGACACC
1 ACAAAAGTGGCTAGCTTTTTGGTTTGGTTTTAGATGGTAATATTGTTTTGGGACACC
46979967 CAATTGAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (58 bp):
ACAAAAGTGGCTAGCTTTTTGGTTTGGTTTTAGATGGTAATATTGTTTTGGGACACCA
Found at i:46980767 original size:4 final size:4
Alignment explanation
Indices: 46980765--46980794 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
46980755 ACCAAAAAAA
*
46980765 AAAG AAAG AAAG AAAG AAAA AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
46980795 TTATTTTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:46980782 original size:12 final size:12
Alignment explanation
Indices: 46980758--46980794 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
46980748 AAATATAACC
46980758 AAAAAAA-AAAG
1 AAAAAAAGAAAG
*
46980769 AAAGAAAGAAAG
1 AAAAAAAGAAAG
46980781 AAAAAAAGAAAG
1 AAAAAAAGAAAG
46980793 AA
1 AA
46980795 TTATTTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:46983964 original size:44 final size:44
Alignment explanation
Indices: 46983890--46983988 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
46983880 TGATCTACTA
* * * **
46983890 CAACTTCAGGGATATAGGATTAGTAGCTTCAGTCTG-CTCCACTG
1 CAACTTCAGGGAGAAAAGATTAGTAGCTTCAACCTGTC-CCACTG
*
46983934 CAACTTCAGGGAGAAAAGACTTA-TATCTTCAACCTGTCCCACTG
1 CAACTTCAGGGAGAAAAGA-TTAGTAGCTTCAACCTGTCCCACTG
46983978 CAACTTCAGGG
1 CAACTTCAGGG
46983989 GGATAAGGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 43 0.91
45 4 0.09
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (44 bp):
CAACTTCAGGGAGAAAAGATTAGTAGCTTCAACCTGTCCCACTG
Found at i:46996492 original size:21 final size:21
Alignment explanation
Indices: 46996466--46996509 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
46996456 ATAATAATAC
46996466 TAATAATAAT-ATAAAGAACAA
1 TAATAATAATGATAAAG-ACAA
*
46996487 TAATAATAATGATAATGACAA
1 TAATAATAATGATAAAGACAA
46996508 TA
1 TA
46996510 TAACCGACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (21 bp):
TAATAATAATGATAAAGACAA
Found at i:46998131 original size:2 final size:2
Alignment explanation
Indices: 46998124--46998163 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
46998114 TTACATTGTT
46998124 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46998164 CTTTTACTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47000073 original size:39 final size:39
Alignment explanation
Indices: 47000004--47000078 Score: 100
Period size: 38 Copynumber: 1.9 Consensus size: 39
46999994 AAATAAGAAT
*
47000004 AAATAACAATAAAAACAATTTTAAATATATA-ATATAAA
1 AAATAACAATAAAAACAATTTTAAAAATATATATATAAA
*
47000042 AAATAAC-ATATAAAACAGTTTTAAAAAATATATATAT
1 AAATAACAATA-AAAACAATTTT-AAAAATATATATAT
47000079 GCAAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 3 0.09
38 17 0.53
39 8 0.25
40 4 0.12
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (39 bp):
AAATAACAATAAAAACAATTTTAAAAATATATATATAAA
Found at i:47001882 original size:9 final size:9
Alignment explanation
Indices: 47001832--47001883 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
47001822 CTGTGCTTCA
*
47001832 TAAAAAATA
1 TAAAAAATT
*
47001841 AAAAAATATT
1 TAAAAA-ATT
*
47001851 TAAAATATT
1 TAAAAAATT
*
47001860 TAAAAAAAT
1 TAAAAAATT
*
47001869 CAAAAAATT
1 TAAAAAATT
47001878 TAAAAA
1 TAAAAA
47001884 TTGTTCATAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAAATT
Found at i:47003486 original size:16 final size:15
Alignment explanation
Indices: 47003458--47003488 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47003448 TGACTATAAA
47003458 GATGAAGAAAATTTT
1 GATGAAGAAAATTTT
*
47003473 GATGAAGAAAAATTT
1 GATGAAGAAAATTTT
47003488 G
1 G
47003489 TAGATATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (15 bp):
GATGAAGAAAATTTT
Found at i:47014923 original size:15 final size:14
Alignment explanation
Indices: 47014902--47014937 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
47014892 ATAATCCTTA
*
47014902 ATAATTATCTTAAT
1 ATAATTATCCTAAT
47014916 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
47014931 ATAATTA
1 ATAATTA
47014938 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:47016618 original size:25 final size:25
Alignment explanation
Indices: 47016582--47016654 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 25
47016572 ATTAATATCC
*
47016582 AAAT-AAGTAATAAATAATAAAATA
1 AAATAAAGTAATAAATAATAAAAGA
47016606 AAATAAAGTAATAAATACAGT-AAAGA
1 AAATAAAGTAATAAATA-A-TAAAAGA
47016632 AAATAAA-TAATAAATAAATAAAA
1 AAATAAAGTAATAAAT-AATAAAA
47016655 AAATGGGTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
24 5 0.12
25 24 0.56
26 13 0.30
27 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.22
Consensus pattern (25 bp):
AAATAAAGTAATAAATAATAAAAGA
Found at i:47017890 original size:27 final size:26
Alignment explanation
Indices: 47017860--47017910 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
47017850 ATGAAATTCT
*
47017860 TACAAA-CAATATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
47017887 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
47017911 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:47020005 original size:44 final size:44
Alignment explanation
Indices: 47019940--47020640 Score: 187
Period size: 44 Copynumber: 15.1 Consensus size: 44
47019930 GATCTACTCT
*
47019940 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATCTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
* * * *
47019984 ACTGTAATCTCAGGGAAATAAGAT--TACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATCTT-AATCCGCTCC
* * * ** *
47020028 GCTGTAA-CTCAGGGAGATAAGATTTCTGGCTTGAATCTGGTGCGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTT-TATCT--T--AATCCGCTCC
* * * *
47020081 ACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCC
1 ACTGTAATCTCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
** * * *
47020125 ACTGTAATCTCAGGGAGATGGGAT--TACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATCTT-AATCCGCTCC
* * * * * *
47020169 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAACCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTTTATCTTAATCCG--CT-C-C
* *
47020222 TACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
* * * * *
47020267 ACTGTAATCTCAGGGAGATAGGAT--TAATAGCTTCATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATCTTAATCCGCTCC
* * * * *
47020310 GCTGTAATTTCAGGGAGATAAGATTTCTGGCTTCAGTC-TGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTTTA-TCTTAATCCG--CT-C-C
* * *
47020363 TACTGTAA-CTTCAGAGAGATAAGATACTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
* * * * * *
47020408 ACTGTAATATCAGGGAGATAGGAT--TAATAGCTTTATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATCTTAATCCGCTCC
* * * * * * *
47020451 GCTGTAATTTTAGGGAGATAAGATTTCTGGCTTCAGTC-TGATGCGATTTACTCT
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTTTA-TCTTAATCCG-----CTCC
* * *
47020505 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
* * * * * *
47020549 ACTGTAATATCAGGGAGATAGGAT--TAATAGCTTCATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATCTTAATCCGCTCC
* * * *
47020592 ACTGTAATCTCAGGGAGATAATAT-CTCTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCTTTATCTT-AATCCGCTCC
47020636 ACTGT
1 ACTGT
47020641 GGCTTAAATC
Statistics
Matches: 476, Mismatches: 113, Indels: 136
0.66 0.16 0.19
Matches are distributed among these distances:
42 5 0.01
43 126 0.26
44 168 0.35
45 7 0.01
46 4 0.01
47 4 0.01
48 5 0.01
49 42 0.09
50 11 0.02
51 5 0.01
52 10 0.02
53 17 0.04
54 72 0.15
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
Found at i:47020269 original size:283 final size:282
Alignment explanation
Indices: 47019921--47020631 Score: 1154
Period size: 283 Copynumber: 2.5 Consensus size: 282
47019911 GGGAGATAAG
* *
47019921 ACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATCTTAATCCGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* * *
47019986 TGTAATCTCAGGGAAATAAGATTACTAGCTTCAATCTGCTCCGCTGTAA-CTCAGGGAGATAAGA
66 TGTAATCTCAGGGAGATAGGATTAATAGCTTC-ATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* * * *
47020050 TTTCTGGCTTGAATCTGGTGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTT
130 TTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATACTTTATTTT
* * *
47020115 AATCCACTCCACTGTAATCTCAGGGAGATGGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTC
195 AATCCACTCCACTGTAATATCAGGGAGATAGGATTAATAGCTT-AATCTGCTCCGCTGTAATCTC
47020180 AGGGAGATAAGATTTCTGGCTTCA
259 AGGGAGATAAGATTTCTGGCTTCA
47020204 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
*
47020269 TGTAATCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATTTCAGGGAGATAAGAT
66 TGTAATCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
*
47020334 TTCTGGCTTCAGTCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATACTTTATTTTA
131 TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATACTTTATTTTA
* * * *
47020399 ATCCGCTCCACTGTAATATCAGGGAGATAGGATTAATAGCTTTATCTGCTCCGCTGTAATTTTAG
196 ATCCACTCCACTGTAATATCAGGGAGATAGGATTAATAGCTTAATCTGCTCCGCTGTAATCTCAG
47020464 GGAGATAAGATTTCTGGCTTCA
261 GGAGATAAGATTTCTGGCTTCA
** * *
47020486 GTCTGATGCGATTTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* * *
47020551 TGTAATATCAGGGAGATAGGATTAATAGCTTCATCTGCTCCACTGTAATCTCAGGGAGATAATAT
66 TGTAATCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
* *
47020616 CTCTAGCTTCAATCTG
131 TTCTGGCTTCAATCTG
47020632 CTCCACTGTG
Statistics
Matches: 398, Mismatches: 29, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
282 193 0.48
283 205 0.52
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (282 bp):
ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
TGTAATCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATACTTTATTTTA
ATCCACTCCACTGTAATATCAGGGAGATAGGATTAATAGCTTAATCTGCTCCGCTGTAATCTCAG
GGAGATAAGATTTCTGGCTTCA
Found at i:47020371 original size:141 final size:141
Alignment explanation
Indices: 47019926--47020631 Score: 1153
Period size: 141 Copynumber: 5.0 Consensus size: 141
47019916 ATAAGACCTA
*
47019926 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATCTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
* * *
47019991 TCTCAGGGAAATAAGATTACTAGCTTCAATCTGCTCCGCTGTAA-CTCAGGGAGATAAGATTTCT
66 TCTCAGGGAGATAGGATTAATAGCTTC-ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCT
*
47020055 GGCTTGAATCTG
130 GGCTTCAATCTG
* * *
47020067 GTGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
* *
47020132 TCTCAGGGAGATGGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCT
66 TCTCAGGGAGATAGGATTAATAGCTTC-ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCT
*
47020197 GGCTTCAACCTG
130 GGCTTCAATCTG
47020209 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
*
47020274 TCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATTTCAGGGAGATAAGATTTCTG
66 TCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTG
*
47020339 GCTTCAGTCTG
131 GCTTCAATCTG
*
47020350 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATACTTTATTTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
* * * *
47020415 TATCAGGGAGATAGGATTAATAGCTTTATCTGCTCCGCTGTAATTTTAGGGAGATAAGATTTCTG
66 TCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTG
*
47020480 GCTTCAGTCTG
131 GCTTCAATCTG
* *
47020491 ATGCGATTTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
* * * * *
47020556 TATCAGGGAGATAGGATTAATAGCTTCATCTGCTCCACTGTAATCTCAGGGAGATAATATCTCTA
66 TCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTG
47020621 GCTTCAATCTG
131 GCTTCAATCTG
47020632 CTCCACTGTG
Statistics
Matches: 532, Mismatches: 32, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
141 415 0.78
142 117 0.22
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (141 bp):
ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
TCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTG
GCTTCAATCTG
Found at i:47029305 original size:19 final size:19
Alignment explanation
Indices: 47029279--47029324 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
47029269 TTAATAATCT
* *
47029279 TGAATGCATATG-ATGACA
1 TGAATGCAGATGCATGAAA
47029297 TGCAATGCAGATGCATGAAA
1 TG-AATGCAGATGCATGAAA
47029317 TGAATGCA
1 TGAATGCA
47029325 AAAAAGAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (19 bp):
TGAATGCAGATGCATGAAA
Found at i:47032894 original size:27 final size:26
Alignment explanation
Indices: 47032864--47032914 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
47032854 ATGAAATTCT
*
47032864 TACAAA-CAATATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
47032891 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
47032915 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:47033311 original size:12 final size:12
Alignment explanation
Indices: 47033294--47033318 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47033284 TAAATAAAAT
47033294 AAAATACAATAG
1 AAAATACAATAG
47033306 AAAATACAATAG
1 AAAATACAATAG
47033318 A
1 A
47033319 CTTAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATACAATAG
Found at i:47035771 original size:3 final size:3
Alignment explanation
Indices: 47035765--47035796 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
47035755 AATAATAATA
47035765 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
47035797 AATCAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:47035848 original size:15 final size:13
Alignment explanation
Indices: 47035820--47035853 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
47035810 AACCGATAAT
47035820 AATAAAATAAAAA
1 AATAAAATAAAAA
47035833 AATAAGAATAAAAAA
1 AATAA-AAT-AAAAA
47035848 AATAAA
1 AATAAA
47035854 CTTTAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 4 0.21
15 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:47037384 original size:45 final size:43
Alignment explanation
Indices: 47037332--47037477 Score: 127
Period size: 45 Copynumber: 3.3 Consensus size: 43
47037322 TAAATCTATA
47037332 CCACTGCAACTTCAAGGAAATGAGATATGCTATCTTCAATCTGCT
1 CCACTGCAACTTCAAGGAAAT-AGAT-TGCTATCTTCAATCTGCT
*
47037377 CCACTGCAAGTTC-AGGAAGATACGACTTG-TATCTTCAATCTGAC-
1 CCACTGCAACTTCAAGGAA-ATA-GA-TTGCTATCTTCAATCTG-CT
* ** * *
47037421 CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCAGTCTACT
1 CCACTGCAACTTCAAGGAAAT-AGA-TTGCTATCTTCAATCTGCT
* *
47037466 CTACTACAACTT
1 CCACTGCAACTT
47037478 TAGAGAGATA
Statistics
Matches: 83, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 39 0.47
45 43 0.52
46 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
CCACTGCAACTTCAAGGAAATAGATTGCTATCTTCAATCTGCT
Found at i:47037412 original size:44 final size:43
Alignment explanation
Indices: 47037332--47038070 Score: 182
Period size: 44 Copynumber: 16.6 Consensus size: 43
47037322 TAAATCTATA
*
47037332 CCACTGCAACTTCAAGGAA-ATGAGA-TATGCTATCTTCAATCTGC
1 CCACTGCAACTTC-AGGAAGATAAGACT-TG-TATCTTCAATCTGC
* *
47037376 TCCACTGCAAGTTCAGGAAGATACGACTTGTATCTTCAATCTGAC
1 -CCACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTG-C
** * * *
47037421 CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCAGTCTAC
1 CCACTGCAACTTCAGGAAGATAAGACTTG-TATCTTCAATCTGC
* * * * *
47037465 TCTACTACAACTTTA-GAGAGATATGACTTGTAAT-TACAATCTGC
1 -CCACTGCAACTTCAGGA-AGATAAGACTTGT-ATCTTCAATCTGC
* *
47037509 CCTACTGCAACTTCA-GAGGGATAAGA-TTCG---CTAT-GATCTGC
1 CC-ACTGCAACTTCAGGA-AGATAAGACTT-GTATCT-TCAATCTGC
* * * *
47037550 TCTACTGCAACTTTA-GAGAGATAAGA-TCCG---CTAT-GATCTGC
1 -CCACTGCAACTTCAGGA-AGATAAGACT-TGTATCT-TCAATCTGC
* * *
47037591 TCTAC-GACAACTTCA-GATAGATAAGATCTGTGATTTATAGCTTTAATCTGTT
1 -CCACTG-CAACTTCAGGA-AGATAAGA-CT-TG---TAT--CTTCAATCTG-C
* * *
47037643 CCACTGTAACTTCAAGGAA-ATAAGATTTGCTATCTTCAGTCTGC
1 CCACTGCAACTTC-AGGAAGATAAGACTTG-TATCTTCAATCTGC
* * * * *
47037687 TCCACTGCATCTTCAGGGAGATAAGACTTGTAACTTCAACCTGTT
1 -CCACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTG-C
* * * * *
47037732 CCATTGCAACTTCAGGGAGATAAG-GTT-T-GCTAT-GATCTGC
1 CCACTGCAACTTCAGGAAGATAAGACTTGTATCT-TCAATCTGC
* * * * *
47037772 TCTACTGAAACTTCA-GAGAGATAAAATCTACAATTTATATCTTTAATCTGC
1 -CCACTGCAACTTCAGGA-AGAT--AA--GAC---TTGTATCTTCAATCTGC
* * * * * *
47037823 TCCAGTGCAACTTTAGGAAAATAAGATTTGCTATCTTCAGTCTTC
1 -CCACTGCAACTTCAGGAAGATAAGACTTG-TATCTTCAATCTGC
** * * *
47037868 TTTACTGCAACTTCAGGGAGATAAGACTTATAACTTCAA-CTTGTC
1 -CCACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATC-TG-C
* * ** * * * *
47037913 CCATTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTAC
1 CCACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTGC
* * * *
47037956 TCTACTACAACTTCA-GAGAGATAAGATTTGCTATCTTCAGTCTGC
1 -CCACTGCAACTTCAGGA-AGATAAGACTTG-TATCTTCAATCTGC
* * * **
47038001 TCCACTGTAATTTCAAGG-AGATAAGACTAGTGGCTTCAATCTGC
1 -CCACTGCAACTTC-AGGAAGATAAGACTTGTATCTTCAATCTGC
* *
47038045 TCCACTGCAACTTTAGGGAGATAAGA
1 -CCACTGCAACTTCAGGAAGATAAGA
47038071 TTCACCATGA
Statistics
Matches: 518, Mismatches: 119, Indels: 115
0.69 0.16 0.15
Matches are distributed among these distances:
40 2 0.00
41 84 0.16
42 3 0.01
43 15 0.03
44 201 0.39
45 145 0.28
46 2 0.00
47 5 0.01
49 6 0.01
50 4 0.01
51 44 0.08
52 5 0.01
53 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (43 bp):
CCACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTGC
Found at i:47037524 original size:89 final size:88
Alignment explanation
Indices: 47037332--47037572 Score: 260
Period size: 89 Copynumber: 2.8 Consensus size: 88
47037322 TAAATCTATA
* ** * * * * *
47037332 CCACTGCAACTTCAAGGAAATGAGATATGCTATCTTCAATCTGCTCCACTGCAAGTTCAG-GAAG
1 CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTC-ATCTGCTCTACTGCAACTTTAGAG-AG
*
47037396 ATACGACTTGTATCTTCAATCTGAC
64 ATACGACTTGTATCTACAATCTGAC
* *
47037421 CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCAGTCTACTCTACTACAACTTTAGAGAGA
1 CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCA-TCTGCTCTACTGCAACTTTAGAGAGA
*
47037486 TATGACTTGTAAT-TACAATCTG-C
65 TACGACTTGT-ATCTACAATCTGAC
* * *
47037509 CCTACTGCAACTTCAGAGGGATAAGATTCGCTA---TGATCTGCTCTACTGCAACTTTAGAGAGA
1 CC-ACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCATCTGCTCTACTGCAACTTTAGAGAGA
47037571 TA
65 TA
47037573 AGATCCGCTA
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
85 26 0.20
86 2 0.02
88 4 0.03
89 96 0.73
90 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (88 bp):
CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCATCTGCTCTACTGCAACTTTAGAGAGAT
ACGACTTGTATCTACAATCTGAC
Found at i:47037555 original size:41 final size:41
Alignment explanation
Indices: 47037503--47037618 Score: 171
Period size: 41 Copynumber: 2.8 Consensus size: 41
47037493 TGTAATTACA
* * *
47037503 ATCTGCCCTACTGCAACTTCAGAGGGATAAGATTCGCTATG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCGCTATG
*
47037544 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCCGCTATG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCGCTATG
*
47037585 ATCTGCTCTAC-GACAACTTCAGATAGATAAGATC
1 ATCTGCTCTACTG-CAACTTCAGAGAGATAAGATC
47037619 TGTGATTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 67 0.99
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (41 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCGCTATG
Found at i:47037859 original size:181 final size:182
Alignment explanation
Indices: 47037555--47038070 Score: 568
Period size: 181 Copynumber: 2.9 Consensus size: 182
47037545 TCTGCTCTAC
* * * ** * *
47037555 TGCAACTTTAGAGAGATAAGATCCGCTATGATCTGCTCTAC-GACAACTTCAGATAGATAAGATC
1 TGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGACAACTTCAGAGAGATAAAATC
*** * *
47037619 TGTGATTTATAGCTTTAATCTGTTCCACTGTAACTTCAAGGAAATAAGATTTGCTATCTTCAGTC
66 TACAATTTATAGCTTTAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTCAGTC
* * *
47037684 TGCTCCACTGCATCTTCAGGGAGATAAGACTTGTAACTTCAACCTGTTCCAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGTCCCAT
47037736 TGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGA-AACTTCAGAGAGATAAAATC
1 TGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGACAACTTCAGAGAGATAAAATC
* * *
47037800 TACAATTTATATCTTTAATCTGCTCCAGTGCAACTT-TAGGAAAATAAGATTTGCTATCTTCAGT
66 TACAATTTATAGCTTTAATCTGCTCCACTGCAACTTCAAGG-AAATAAGATTTGCTATCTTCAGT
* ** *
47037864 CTTCTTTACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACTTGTCCCAT
130 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGTCCCAT
* * * *
47037917 TGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACT-ACAACTTCAGAGAGATAAG
1 TGCAACTTCAGGGAGATAAGG-TT-T-GCTATGATCTGCTCTACTGACAACTTCAGAGAGATAAA
* * * * * * * * * **
47037981 ATTTGC----TAT--CTTCAGTCTGCTCCACTGTAATTTCAAGGAGATAAGACTAG-TGGCTTCA
63 ATCTACAATTTATAGCTTTAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTCA
* *
47038039 ATCTGCTCCACTGCAACTTTAGGGAGATAAGA
128 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA
47038071 TTCACCATGA
Statistics
Matches: 284, Mismatches: 44, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
177 33 0.12
178 28 0.10
179 3 0.01
180 6 0.02
181 173 0.61
182 4 0.01
183 2 0.01
184 35 0.12
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (182 bp):
TGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGACAACTTCAGAGAGATAAAATC
TACAATTTATAGCTTTAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTCAGTC
TGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGTCCCAT
Found at i:47039364 original size:15 final size:15
Alignment explanation
Indices: 47039344--47039376 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
47039334 CCCCGGTAAA
47039344 GTTTTT-TTTGTTTTT
1 GTTTTTATTT-TTTTT
47039359 GTTTTTATTTTTTTT
1 GTTTTTATTTTTTTT
47039374 GTT
1 GTT
47039377 GCCTCCACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (15 bp):
GTTTTTATTTTTTTT
Found at i:47044107 original size:13 final size:12
Alignment explanation
Indices: 47044085--47044132 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
47044075 AAAATAAAAT
47044085 CAATAATAATAA
1 CAATAATAATAA
47044097 CAATGAATAATAA
1 CAAT-AATAATAA
* *
47044110 CAGTAATAACAA
1 CAATAATAATAA
*
47044122 TAATAA-AATAA
1 CAATAATAATAA
47044133 ACACATAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 4 0.13
12 15 0.50
13 11 0.37
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.23
Consensus pattern (12 bp):
CAATAATAATAA
Found at i:47044283 original size:3 final size:3
Alignment explanation
Indices: 47044277--47044305 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
47044267 CATAATAATA
47044277 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
47044306 AATGGTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:47044650 original size:15 final size:15
Alignment explanation
Indices: 47044625--47044659 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
47044615 GACTCTATTT
*
47044625 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
47044639 TAATTAATATTAAGA
1 TAATTAATATTAAGA
47044654 TAATTA
1 TAATTA
47044660 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:47048618 original size:5 final size:5
Alignment explanation
Indices: 47048588--47048668 Score: 80
Period size: 5 Copynumber: 16.4 Consensus size: 5
47048578 TCAACCCAAT
*
47048588 TTTTA TTTT- TATTA TTATTA -TTTA TTTTA TTTTA TTTTA TTTTA -TTTA
1 TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
47048636 -TTTA CTTTA TTTATTA CTTTA TTTTA TTTTA TT
1 TTTTA TTTTA -TT-TTA TTTTA TTTTA TTTTA TT
47048669 ATTTATTACT
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
4 14 0.22
5 43 0.66
6 5 0.08
7 3 0.05
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:47048627 original size:25 final size:25
Alignment explanation
Indices: 47048588--47048683 Score: 98
Period size: 24 Copynumber: 4.1 Consensus size: 25
47048578 TCAACCCAAT
*
47048588 TTTTATTTT-TATTATTATTATTTA
1 TTTTATTTTATTTTATTATTATTTA
47048612 TTTTATTTTATTTTATT-TTATTTA
1 TTTTATTTTATTTTATTATTATTTA
* *
47048636 -TTTACTTTA-TTTATTA--CTTTA
1 TTTTATTTTATTTTATTATTATTTA
* *
47048657 TTTTATTTTATTAT-TTATTACTTA
1 TTTTATTTTATTTTATTATTATTTA
47048681 TTT
1 TTT
47048684 GGATATTAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
21 4 0.07
22 17 0.29
23 10 0.17
24 22 0.37
25 6 0.10
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTATTTTATTTTATTATTATTTA
Found at i:47048646 original size:40 final size:37
Alignment explanation
Indices: 47048589--47048683 Score: 114
Period size: 35 Copynumber: 2.7 Consensus size: 37
47048579 CAACCCAATT
*
47048589 TTTATTTTTATTA-TTATTA-TTTA-TT-TTATTTTAT
1 TTTA-TTTTATTATTTATTACTTTATTTATTACTTTAT
*
47048623 TTTATTTTATT-TAT-TTACTTTATTTATTACTTTAT
1 TTTATTTTATTATTTATTACTTTATTTATTACTTTAT
47048658 TTTATTTTATTATTTATTAC-TTATTT
1 TTTATTTTATTATTTATTACTTTATTT
47048684 GGATATTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
32 3 0.06
33 12 0.23
34 6 0.12
35 19 0.37
36 8 0.15
37 4 0.08
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (37 bp):
TTTATTTTATTATTTATTACTTTATTTATTACTTTAT
Found at i:47050020 original size:15 final size:15
Alignment explanation
Indices: 47049987--47050038 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
47049977 TATAAATAAT
**
47049987 AAATAAATCAAAATCA
1 AAATAAAT-AAAAAGA
47050003 AAATAAATAAAAAGA
1 AAATAAATAAAAAGA
* *
47050018 AAAAAAAGAAAAAGA
1 AAATAAATAAAAAGA
*
47050033 ATATAA
1 AAATAA
47050039 TTTGGGGACT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 22 0.73
16 8 0.27
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (15 bp):
AAATAAATAAAAAGA
Found at i:47050021 original size:16 final size:16
Alignment explanation
Indices: 47049987--47050033 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
47049977 TATAAATAAT
* **
47049987 AAATAAATCAAAATCA
1 AAATAAATAAAAAGAA
47050003 AAATAAATAAAAAGAA
1 AAATAAATAAAAAGAA
*
47050019 AAA-AAAGAAAAAGAA
1 AAATAAATAAAAAGAA
47050034 TATAATTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.11
Consensus pattern (16 bp):
AAATAAATAAAAAGAA
Found at i:47050616 original size:15 final size:15
Alignment explanation
Indices: 47050591--47050625 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
47050581 AACTCTATTT
*
47050591 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
47050605 TAATTAATATTAAGA
1 TAATTAATATTAAGA
47050620 TAATTA
1 TAATTA
47050626 TTCAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:47057442 original size:29 final size:29
Alignment explanation
Indices: 47057410--47057500 Score: 66
Period size: 26 Copynumber: 3.1 Consensus size: 29
47057400 AGTTTCTTTG
47057410 TTTTCAATTATGAATTGTTTGATTTATATT
1 TTTTCAATTATGAATTGTTTGATTTATA-T
** * *
47057440 TTTATGCAA-TAAAACATTAGTTT--CTT-TGT
1 TTT-T-CAATTATGA-ATT-GTTTGATTTATAT
47057469 -TTTCAATTATGAATTGTTTGATTTATAT
1 TTTTCAATTATGAATTGTTTGATTTATAT
47057497 TTTT
1 TTTT
47057501 ATGCAATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 19
0.62 0.11 0.27
Matches are distributed among these distances:
25 4 0.09
26 6 0.14
27 6 0.14
28 4 0.09
29 4 0.09
30 4 0.09
31 6 0.14
32 6 0.14
33 4 0.09
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.57
Consensus pattern (29 bp):
TTTTCAATTATGAATTGTTTGATTTATAT
Found at i:47057455 original size:58 final size:58
Alignment explanation
Indices: 47057365--47057544 Score: 344
Period size: 58 Copynumber: 3.1 Consensus size: 58
47057355 GATGTATTCT
*
47057365 ATTGTTTGATTTATACTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
1 ATTGTTTGATTTATATTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
47057423 ATTGTTTGATTTATATTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
1 ATTGTTTGATTTATATTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
47057481 ATTGTTTGATTTATATTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
1 ATTGTTTGATTTATATTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
47057539 A-TGTTT
1 ATTGTTT
47057545 AATTGTTCTT
Statistics
Matches: 121, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
57 5 0.04
58 116 0.96
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (58 bp):
ATTGTTTGATTTATATTTTTATGCAATAAAACATTAGTTTCTTTGTTTTCAATTATGA
Found at i:47058532 original size:20 final size:18
Alignment explanation
Indices: 47058490--47058532 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
47058480 AATTTGGAAT
*
47058490 TTTTTATAAATATTTTAA
1 TTTTTAAAAATATTTTAA
*
47058508 ATTTTAAAAATTACTTTTAA
1 TTTTTAAAAA-TA-TTTTAA
47058528 TTTTT
1 TTTTT
47058533 TTAATTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 10 0.50
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTAAAAATATTTTAA
Found at i:47059214 original size:76 final size:74
Alignment explanation
Indices: 47059100--47059257 Score: 212
Period size: 76 Copynumber: 2.1 Consensus size: 74
47059090 CAACTTTTTC
47059100 AAAAAAAGCAATTAAGCCCTTCCTCTTCTTTTTTTTTTTTTGCACTCAATT-GAGCACTTGAACT
1 AAAAAAAGCAATTAAG--CTTCCTCTTCTTTTTTTTTTTTTGCACTCAATTGGA-CACTTGAACT
47059164 TTCAAAATGCAT
63 TTCAAAATGCAT
* * *
47059176 AAAAAAAGCAATTAAG-TTCTCTTTTTTTTTTCCTTTTTTTTGCACTCAATTGGATACTTGAACT
1 AAAAAAAGCAATTAAGCTTC-CTCTTCTTTTT--TTTTTTTTGCACTCAATTGGACACTTGAACT
47059240 TTCAAAATGCAT
63 TTCAAAATGCAT
*
47059252 CAAAAA
1 AAAAAA
47059258 GACCCTTAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
73 3 0.04
74 9 0.12
76 60 0.81
77 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (74 bp):
AAAAAAAGCAATTAAGCTTCCTCTTCTTTTTTTTTTTTTGCACTCAATTGGACACTTGAACTTTC
AAAATGCAT
Found at i:47059346 original size:19 final size:18
Alignment explanation
Indices: 47059322--47059379 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
47059312 TAAAAGCAAA
47059322 TAAATTTTAGATAAATTAT
1 TAAATTTTA-ATAAATTAT
*
47059341 TAAATTTTAATAAAATAT
1 TAAATTTTAATAAATTAT
* *
47059359 AAAATTTTAA-AATTTAT
1 TAAATTTTAATAAATTAT
47059376 TAAA
1 TAAA
47059380 AATTAGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 8 0.24
18 17 0.50
19 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TAAATTTTAATAAATTAT
Found at i:47059418 original size:29 final size:29
Alignment explanation
Indices: 47059359--47059457 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
47059349 AATAAAATAT
* * *
47059359 AAAATTTTAAAATTTATTAAAAATTAGAA
1 AAAATTTTAAAAATTATAAAAAAGTAGAA
*
47059388 AAAATTTTATAAAATTGTAAAAAAGTA-AA
1 AAAATTTTA-AAAATTATAAAAAAGTAGAA
* * * *
47059417 AAAATTGTAAAATTTTATAAAAAA-CATAA
1 AAAATTTTAAAA-ATTATAAAAAAGTAGAA
*
47059446 AAAATTATAAAA
1 AAAATTTTAAAA
47059458 TACATCAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
28 4 0.07
29 41 0.71
30 13 0.22
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAATTTTAAAAATTATAAAAAAGTAGAA
Found at i:47059438 original size:19 final size:19
Alignment explanation
Indices: 47059359--47059439 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
47059349 AATAAAATAT
*
47059359 AAAATTTTAAAA-TTTATTA
1 AAAATTGTAAAATTTTA-TA
*
47059378 AAAATTAGAAAAAATTTTAT-
1 AAAATT-G-TAAAATTTTATA
*** *
47059398 AAAATTGTAAAAAAGTAAA
1 AAAATTGTAAAATTTTATA
47059417 AAAATTGTAAAATTTTATA
1 AAAATTGTAAAATTTTATA
47059436 AAAA
1 AAAA
47059440 ACATAAAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
18 6 0.13
19 26 0.55
20 6 0.13
21 5 0.11
22 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
AAAATTGTAAAATTTTATA
Found at i:47059446 original size:19 final size:19
Alignment explanation
Indices: 47059431--47059470 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
47059421 TTGTAAAATT
47059431 TTATAAAAAACATAAAAAA
1 TTATAAAAAACATAAAAAA
*
47059450 TTATAAAATACATCAAAAAA
1 TTATAAAAAACAT-AAAAAA
47059470 T
1 T
47059471 CCTTTTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (19 bp):
TTATAAAAAACATAAAAAA
Found at i:47059455 original size:10 final size:10
Alignment explanation
Indices: 47059367--47059457 Score: 69
Period size: 10 Copynumber: 9.3 Consensus size: 10
47059357 ATAAAATTTT
* *
47059367 AAAATTTATT
1 AAAAATTATA
*
47059377 AAAAATTAGA
1 AAAAATTATA
*
47059387 AAAAATTTTA
1 AAAAATTATA
* *
47059397 TAAAATTGTA
1 AAAAATTATA
*
47059407 AAAAAGTA-A
1 AAAAATTATA
*
47059416 AAAAATTGTA
1 AAAAATTATA
**
47059426 AAATTTTATA
1 AAAAATTATA
*
47059436 AAAAA-CATA
1 AAAAATTATA
47059445 AAAAATTATA
1 AAAAATTATA
47059455 AAA
1 AAA
47059458 TACATCAAAA
Statistics
Matches: 60, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
9 15 0.25
10 45 0.75
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:47059723 original size:29 final size:30
Alignment explanation
Indices: 47059690--47059759 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
47059680 TTACATTTTG
47059690 TATAATTTTCTTT-TGA-CTTTATAAAATTT
1 TATAATTTT-TTTATGATCTTTATAAAATTT
*
47059719 TATAATTTTTTTATGATTTTTATAAAATTT
1 TATAATTTTTTTATGATCTTTATAAAATTT
*
47059749 TACAATTTTTT
1 TATAATTTTTT
47059760 ATATTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 3 0.08
29 12 0.32
30 22 0.59
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (30 bp):
TATAATTTTTTTATGATCTTTATAAAATTT
Found at i:47063852 original size:43 final size:43
Alignment explanation
Indices: 47063802--47064154 Score: 476
Period size: 43 Copynumber: 8.2 Consensus size: 43
47063792 AGAAAAGAAT
* *
47063802 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTTCCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
* *
47063845 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTGCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
* *
47063888 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTGCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
* *
47063931 GCCGCTAAAGACCAAGACCTTTAGCGGCGGTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
* * *
47063974 GCCGCTATAGACCAAGACCTTTAGCGGCGCTTTTCCCGA-AAGC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCC-ACAAAC
* **
47064017 GCCGCTATAGACCACTACCTTTAGCGACGCTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
* **
47064060 GCCGCTATAGACCACTACCTTTAGCGACGCTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
* ** **
47064103 GCCGCTATAGACCACTACCTTTAGC-AGCGCTTTTATCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGA-CGCTTTTCCCACAAAC
47064146 GCCGCTAAA
1 GCCGCTAAA
47064155 AATATAACCT
Statistics
Matches: 292, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
42 2 0.01
43 289 0.99
44 1 0.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.21
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAAC
Found at i:47064502 original size:24 final size:24
Alignment explanation
Indices: 47064468--47064530 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
47064458 TAATACATAT
47064468 GAAAAATTAAAACACAGACAGTAAC
1 GAAAAA-TAAAACACAGACAGTAAC
*
47064493 GAAAACTAAAACACAGACAGTAAC
1 GAAAAATAAAACACAGACAGTAAC
*
47064517 GAAAAATTAAACAC
1 GAAAAATAAAACAC
47064531 CACACAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 30 0.86
25 5 0.14
ACGTcount: A:0.60, C:0.17, G:0.11, T:0.11
Consensus pattern (24 bp):
GAAAAATAAAACACAGACAGTAAC
Found at i:47066791 original size:68 final size:68
Alignment explanation
Indices: 47066707--47066858 Score: 270
Period size: 68 Copynumber: 2.2 Consensus size: 68
47066697 CTCAGGTATG
*
47066707 ATCCAAAGCCGA-TAAAAGTTAAAAAGGATAAGCTATTAAAAGTTAAATAAAAGTTGCACATTAC
1 ATCC-AAGCCGATTAAAAGTTAAAAAAGATAAGCTATTAAAAGTTAAATAAAAGTTGCACATTAC
47066771 CCAC
65 CCAC
*
47066775 ATCCAAGCCGATTAAAAGTTAAAAAAGATAAGCTCTTAAAAGTTAAATAAAAGTTGCACATTACC
1 ATCCAAGCCGATTAAAAGTTAAAAAAGATAAGCTATTAAAAGTTAAATAAAAGTTGCACATTACC
47066840 CAC
66 CAC
47066843 ATCCAAGCCGATTAAA
1 ATCCAAGCCGATTAAA
47066859 TTATACTTAA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
67 7 0.09
68 74 0.91
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (68 bp):
ATCCAAGCCGATTAAAAGTTAAAAAAGATAAGCTATTAAAAGTTAAATAAAAGTTGCACATTACC
CAC
Found at i:47070888 original size:33 final size:32
Alignment explanation
Indices: 47070846--47070912 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
47070836 AATTAATCTA
* *
47070846 AATCCTAAACCCTAACCCGACCCTAAATCTCT
1 AATCCTAAACCCTAACCCAACCCTAAATCCCT
* *
47070878 AATCCTTAAACCCTAACTCAACCCTGAATCCCT
1 AATCC-TAAACCCTAACCCAACCCTAAATCCCT
47070911 AA
1 AA
47070913 CCCCTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.36, C:0.39, G:0.03, T:0.22
Consensus pattern (32 bp):
AATCCTAAACCCTAACCCAACCCTAAATCCCT
Found at i:47071046 original size:14 final size:14
Alignment explanation
Indices: 47071029--47071058 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47071019 ACCCCTAACC
47071029 CATAAACCTTAAAT
1 CATAAACCTTAAAT
*
47071043 CATAACCCTTAAAT
1 CATAAACCTTAAAT
47071057 CA
1 CA
47071059 GAATCCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (14 bp):
CATAAACCTTAAAT
Found at i:47071633 original size:109 final size:109
Alignment explanation
Indices: 47071455--47071858 Score: 774
Period size: 109 Copynumber: 3.7 Consensus size: 109
47071445 ATGTTTAGCT
47071455 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
47071520 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
66 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
47071564 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
47071629 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
66 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
47071673 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
47071738 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
66 CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
*
47071782 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAA-TTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* *
47071846 CTAAATATTGCCT
66 CAAAACATTGCCT
47071859 CAATTGGAAA
Statistics
Matches: 292, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
108 20 0.07
109 272 0.93
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (109 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATATTAAGCC
Found at i:47074502 original size:15 final size:15
Alignment explanation
Indices: 47074482--47074511 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47074472 AATAAACTGT
47074482 GATTGAAAAATAATA
1 GATTGAAAAATAATA
*
47074497 GATTGAATAATAATA
1 GATTGAAAAATAATA
47074512 ATAAATAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
GATTGAAAAATAATA
Found at i:47074780 original size:41 final size:41
Alignment explanation
Indices: 47074723--47075000 Score: 364
Period size: 41 Copynumber: 6.8 Consensus size: 41
47074713 TTTTATTATT
* ** *
47074723 ATTAGCGACGCTTTTTCAAAAACGATGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
47074764 ATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGGCCAAAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
*
47074805 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
* * *
47074846 GTTAGCGGCGCTTTAAT-AAAAACGTCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTT-TTCAAAAACGCCGCTAAAGGCCAGAGC
* *
47074887 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
47074928 GTTAGCGGCGCTTTAAT-AAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTT-TTCAAAAACGCCGCTAAAGGCCAGAGC
* *
47074969 ATTAGCGGTGCTTTAAT-AAAAACGCCGCTAAA
1 ATTAGCGGCGCTTT-TTCAAAAACGCCGCTAAA
47075001 TGCCCCAAAA
Statistics
Matches: 210, Mismatches: 24, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
40 1 0.00
41 207 0.99
42 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:47074867 original size:82 final size:82
Alignment explanation
Indices: 47074723--47075005 Score: 426
Period size: 82 Copynumber: 3.5 Consensus size: 82
47074713 TTTTATTATT
* ** * *
47074723 ATTAGCGACGCTTTTTCAAAAACGATGCTAAAGGCCCGAGCATTAGCGGCGCTTT-TTCAAAAAC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAAT-AAAAAC
* *
47074787 GCCACTAAAGGCCAAAGC
65 GCCGCTAAAGGCCAGAGC
47074805 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAATAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAATAAAAACG
*
47074870 TCGCTAAAGGCCAGAGC
66 CCGCTAAAGGCCAGAGC
*
47074887 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAATAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAATAAAAACG
47074952 CCGCTAAAGGCCAGAGC
66 CCGCTAAAGGCCAGAGC
* * *
47074969 ATTAGCGGTGCTTTAAT-AAAAACGCCGCTAAATGCCC
1 ATTAGCGGCGCTTT-TTCAAAAACGCCGCTAAAGGCCC
47075006 CAAAAACTCA
Statistics
Matches: 185, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
82 183 0.99
83 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (82 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCGTTAGCGGCGCTTTAATAAAAACG
CCGCTAAAGGCCAGAGC
Found at i:47075175 original size:40 final size:41
Alignment explanation
Indices: 47075069--47075175 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 41
47075059 AAAAATGCCA
*
47075069 CTAATGCTT-ATTTTTAGCGGCG-TTTTACAAAAAGCGCTG
1 CTAATGCTTGATTTTTAGCGGCGTTTTTACAAAAAGCGCCG
* ** *
47075108 CTAATGCTCGACCTTTAGCGGCGTTTTTA-TAAAAGCGCCG
1 CTAATGCTTGATTTTTAGCGGCGTTTTTACAAAAAGCGCCG
*
47075148 CTAATGCTTGATTTTTAGTGGCGTTTTT
1 CTAATGCTTGATTTTTAGCGGCGTTTTT
47075176 TTGTCCAAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 8 0.14
40 44 0.77
41 5 0.09
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (41 bp):
CTAATGCTTGATTTTTAGCGGCGTTTTTACAAAAAGCGCCG
Found at i:47075199 original size:12 final size:12
Alignment explanation
Indices: 47075182--47075207 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47075172 TTTTTTGTCC
47075182 AAACGCCGCTAA
1 AAACGCCGCTAA
47075194 AAACGCCGCTAA
1 AAACGCCGCTAA
47075206 AA
1 AA
47075208 GCATGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:47075943 original size:86 final size:86
Alignment explanation
Indices: 47075853--47076039 Score: 230
Period size: 86 Copynumber: 2.2 Consensus size: 86
47075843 CGCTTCGACC
* * * **
47075853 ACAAACGCCACTAAAGAACCAAATCTTTAGCGGCGCTTTCCCCACAAATGCCGCTAAAGACCATG
1 ACAAACGCCACTAAAGAACCAAATCTTTAGCGGCGCTTTCACCAAAAACGCCGCTAAAGACCAAC
*
47075918 ATCTTTAGTGGCGCTTTTTCT
66 ACCTTTAGTGGCGCTTTTTCT
* * ** * * *
47075939 ACAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGGCCAAC
1 ACAAACGCCACTAAAGAACCAAATCTTTAGCGGCGCTTTCACCAAAAACGCCGCTAAAGACCAAC
* *
47076004 ACCTTTAGTGGCGTTTTTTTT
66 ACCTTTAGTGGCGCTTTTTCT
*
47076025 AAAAACGCCACTAAA
1 ACAAACGCCACTAAA
47076040 TTTGGCAGAT
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (86 bp):
ACAAACGCCACTAAAGAACCAAATCTTTAGCGGCGCTTTCACCAAAAACGCCGCTAAAGACCAAC
ACCTTTAGTGGCGCTTTTTCT
Found at i:47076010 original size:43 final size:42
Alignment explanation
Indices: 47075833--47076039 Score: 173
Period size: 43 Copynumber: 4.8 Consensus size: 42
47075823 AAGATTAGGG
** * *
47075833 TCTTTAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCAAA
1 TCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAG-ACCAAA
*** * *
47075876 TCTTTAGCGGCGCTTTCCCCACAAATGCCGCTAAAGACCATGA
1 TCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCA-AA
* **
47075919 TCTTTAGTGGCGCTTTT-TCTACAAACGCCGCTAAAGACCCTTA
1 TCTTTAGCGGCGCTTTTATC-ACAAACGCCGCTAAAGA-CCAAA
* *
47075962 TCTTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGGCCAACA
1 TCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCAA-A
* * * * * * *
47076005 CCTTTAGTGGCGTTTTTTTTAAAAACGCCACTAAA
1 TCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAA
47076040 TTTGGCAGAT
Statistics
Matches: 136, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
42 7 0.05
43 125 0.92
44 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (42 bp):
TCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGACCAAA
Found at i:47076478 original size:21 final size:21
Alignment explanation
Indices: 47076436--47076481 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
47076426 TTGAACCTCA
* *
47076436 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
*
47076457 GCTTCTCTCGTTGCCGCATCT
1 GCTTCTCTCGCTGCCGCATCT
47076478 GCTT
1 GCTT
47076482 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.39, G:0.20, T:0.39
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Found at i:47076689 original size:42 final size:42
Alignment explanation
Indices: 47076625--47076717 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
47076615 TTTGACGCTG
* **
47076625 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACCTCCCTCGCTGCAGC
* * * *
47076667 CTCTGCTTCCCTCGCTGTAGCCTGTACCTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTACCTCCCTCGCTGCAGC
47076709 CTCTGCTTC
1 CTCTGCTTC
47076718 TCTTGTTGCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.05, C:0.45, G:0.16, T:0.33
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTACCTCCCTCGCTGCAGC
Found at i:47076720 original size:21 final size:21
Alignment explanation
Indices: 47076625--47076717 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
47076615 TTTGACGCTG
47076625 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
47076646 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
47076667 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
47076688 CTGTACCTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
47076709 CTCTGCTTC
1 CTCTGCTTC
47076718 TCTTGTTGCC
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.05, C:0.45, G:0.16, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:47076824 original size:66 final size:65
Alignment explanation
Indices: 47076728--47076878 Score: 198
Period size: 66 Copynumber: 2.3 Consensus size: 65
47076718 TCTTGTTGCC
* * * *
47076728 GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATA-CTTTCATTGAACCTCAGCTTCTCTCGCTG
1 GCATCTCCTTTAAGTTG-TGCTGGAATTCTTCATATCTTT-ATTGAACCTCAGCTTCTCTCGATG
47076792 TT
64 TT
*
47076794 GCATCTCCTTTAAGTTGTAGCTGGAATTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGT
1 GCATCTCCTTTAAGTTGT-GCTGGAATTCTTCATATCTTTATTGAACCTCAGCTTCTCTCGATGT
47076859 T
65 T
*
47076860 GCCTC-CGCTTTAAGTTGTG
1 GCATCTC-CTTTAAGTTGTG
47076879 TAATTTGCTC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
65 3 0.04
66 69 0.91
67 4 0.05
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (65 bp):
GCATCTCCTTTAAGTTGTGCTGGAATTCTTCATATCTTTATTGAACCTCAGCTTCTCTCGATGTT
Found at i:47083617 original size:9 final size:9
Alignment explanation
Indices: 47083568--47083735 Score: 141
Period size: 9 Copynumber: 20.3 Consensus size: 9
47083558 AATTGCACGG
47083568 GTAAGTTAT
1 GTAAGTTAT
47083577 GT-A-TTAT
1 GTAAGTTAT
*
47083584 GTAAGCTAT
1 GTAAGTTAT
*
47083593 GTAAGTTGT
1 GTAAGTTAT
47083602 GT-A-TTAT
1 GTAAGTTAT
47083609 GTAAGTTAT
1 GTAAGTTAT
47083618 -T-A-TTAT
1 GTAAGTTAT
47083624 GTAAGTTAT
1 GTAAGTTAT
*
47083633 GTAAGTAAT
1 GTAAGTTAT
47083642 GT-A-TTAT
1 GTAAGTTAT
*
47083649 GTAAGTTGT
1 GTAAGTTAT
*
47083658 GT-A-TAAT
1 GTAAGTTAT
*
47083665 GTTAGTTAT
1 GTAAGTTAT
**
47083674 CAAAGTTAT
1 GTAAGTTAT
47083683 GT-A-TTAT
1 GTAAGTTAT
47083690 GTAAGTTAT
1 GTAAGTTAT
*
47083699 TTAAGTTAT
1 GTAAGTTAT
*
47083708 GTAAGTTGT
1 GTAAGTTAT
47083717 GT-A-TTAT
1 GTAAGTTAT
47083724 GTAAGTTAT
1 GTAAGTTAT
47083733 GTA
1 GTA
47083736 NNNNNNNNNN
Statistics
Matches: 125, Mismatches: 19, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
6 4 0.03
7 33 0.26
8 14 0.11
9 74 0.59
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:47083660 original size:16 final size:16
Alignment explanation
Indices: 47083590--47083735 Score: 113
Period size: 16 Copynumber: 8.9 Consensus size: 16
47083580 TTATGTAAGC
*
47083590 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
47083606 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
47083621 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
*
47083639 AATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
47083655 TGTGT-A-TAATGTTAGT
1 TATGTAAGTTATG-TA-T
**
47083671 TATCAAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
47083687 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
47083705 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
47083721 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
47083736 NNNNNNNNNN
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
15 15 0.14
16 62 0.58
17 8 0.07
18 22 0.21
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.48
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:47083660 original size:25 final size:25
Alignment explanation
Indices: 47083574--47083651 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
47083564 ACGGGTAAGT
*
47083574 TATGTATTATGTAAGCTATGTAAGT
1 TATGTATTATGTAAGTTATGTAAGT
*
47083599 TGTGTATTATGTAAGTTAT-T-A-T
1 TATGTATTATGTAAGTTATGTAAGT
*
47083621 TATGTAAGTTATGTAAGTAATGT-A-T
1 TATGT-A-TTATGTAAGTTATGTAAGT
47083646 TATGTA
1 TATGTA
47083652 AGTTGTGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 5 0.11
23 2 0.04
24 14 0.30
25 25 0.54
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.47
Consensus pattern (25 bp):
TATGTATTATGTAAGTTATGTAAGT
Found at i:47083673 original size:25 final size:24
Alignment explanation
Indices: 47083617--47083735 Score: 107
Period size: 25 Copynumber: 4.8 Consensus size: 24
47083607 ATGTAAGTTA
47083617 TTATTATGTAAGTTATGTAAGTAATG
1 TTATTATGTAAGTTATGT-A-TAATG
*
47083643 -TATTATGTAAGTTGTGTATAATG
1 TTATTATGTAAGTTATGTATAATG
** *
47083666 TTAGTTATCAAAGTTATGTATTATG
1 TTA-TTATGTAAGTTATGTATAATG
* * *
47083691 TAAGTTATTTAAGTTATGTA-AGTTG
1 TTA-TTATGTAAGTTATGTATA-ATG
47083716 TGTATTATGTAAGTTATGTA
1 T-TATTATGTAAGTTATGTA
47083736 NNNNNNNNNN
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.06
24 3 0.04
25 68 0.88
26 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (24 bp):
TTATTATGTAAGTTATGTATAATG
Found at i:47083706 original size:34 final size:34
Alignment explanation
Indices: 47083668--47083732 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
47083658 GTATAATGTT
47083668 AGTTATCAAAGTTATGTATTATGTAAGTTATTTA
1 AGTTATCAAAGTTATGTATTATGTAAGTTATTTA
** *
47083702 AGTTATGTAAGTTGTGTATTATGTAAGTTAT
1 AGTTATCAAAGTTATGTATTATGTAAGTTAT
47083733 GTANNNNNNN
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (34 bp):
AGTTATCAAAGTTATGTATTATGTAAGTTATTTA
Found at i:47087211 original size:173 final size:173
Alignment explanation
Indices: 47086922--47087816 Score: 1790
Period size: 173 Copynumber: 5.2 Consensus size: 173
47086912 AATTTTTTGT
47086922 GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
1 GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
47086987 CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
66 CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
47087052 TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
131 TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
47087095 GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
1 GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
47087160 CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
66 CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
47087225 TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
131 TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
47087268 GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
1 GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
47087333 CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
66 CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
47087398 TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
131 TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
47087441 GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
1 GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
47087506 CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
66 CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
47087571 TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
131 TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
47087614 GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
1 GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
47087679 CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
66 CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
47087744 TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
131 TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
47087787 GGCGTTTACGAATAAAACGCCGCTAATGCC
1 GGCGTTTACGAATAAAACGCCGCTAATGCC
47087817 GTTAATATGC
Statistics
Matches: 722, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 722 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (173 bp):
GGCGTTTACGAATAAAACGCCGCTAATGCCCATTTTTCTGGCGTTTTTATTTTTTACAAAAACGC
CACTAACAAATTAAATTCTTCTATTGAAACGGCACCGTTTTTTAGAAATTTTAAAACATTGTTTT
TTTAATTCATATTTAAAAAACACAATATATAATTACAAATTGC
Found at i:47088332 original size:7 final size:7
Alignment explanation
Indices: 47088320--47088433 Score: 68
Period size: 7 Copynumber: 15.4 Consensus size: 7
47088310 CTTAATTGAC
47088320 ACCCTAA
1 ACCCTAA
47088327 ACCCTAA
1 ACCCTAA
47088334 ATCCCTAA
1 A-CCCTAA
47088342 ATCCCTAA
1 A-CCCTAA
*
47088350 CCCCTAA
1 ACCCTAA
*
47088357 CCCCTAA
1 ACCCTAA
*
47088364 ATCTCCTAG
1 A-C-CCTAA
*
47088373 CCCCTAA
1 ACCCTAA
*
47088380 ATTCCTAA
1 A-CCCTAA
*
47088388 CCCCT-A
1 ACCCTAA
47088394 ACTCCTAA
1 AC-CCTAA
*
47088402 CCCCTAA
1 ACCCTAA
*
47088409 ATCTCTAA
1 A-CCCTAA
*
47088417 CCCCTAA
1 ACCCTAA
*
47088424 CCCCTAA
1 ACCCTAA
47088431 ACC
1 ACC
47088434 TTATATCTCA
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
6 2 0.02
7 50 0.60
8 28 0.33
9 4 0.05
ACGTcount: A:0.32, C:0.46, G:0.01, T:0.21
Consensus pattern (7 bp):
ACCCTAA
Found at i:47088341 original size:15 final size:15
Alignment explanation
Indices: 47088321--47088423 Score: 111
Period size: 15 Copynumber: 6.9 Consensus size: 15
47088311 TTAATTGACA
*
47088321 CCCTAAACCCTAAAT
1 CCCTAACCCCTAAAT
* *
47088336 CCCTAAATCCCT-AAC
1 CCCT-AACCCCTAAAT
47088351 CCCTAACCCCTAAAT
1 CCCTAACCCCTAAAT
*
47088366 CTCCTAGCCCCTAAAT
1 C-CCTAACCCCTAAAT
* *
47088382 TCCTAACCCCTAACT
1 CCCTAACCCCTAAAT
47088397 -CCTAACCCCTAAAT
1 CCCTAACCCCTAAAT
*
47088411 CTCTAACCCCTAA
1 CCCTAACCCCTAA
47088424 CCCCTAAACC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
14 19 0.26
15 36 0.49
16 19 0.26
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (15 bp):
CCCTAACCCCTAAAT
Found at i:47088361 original size:22 final size:22
Alignment explanation
Indices: 47088321--47088431 Score: 116
Period size: 22 Copynumber: 5.0 Consensus size: 22
47088311 TTAATTGACA
* *
47088321 CCCTAAACCCTAAATCCCTAAAT
1 CCCTAACCCCT-AACCCCTAAAT
47088344 CCCTAACCCCTAACCCCTAAAT
1 CCCTAACCCCTAACCCCTAAAT
* ** *
47088366 CTCCTAGCCCCTAAATTCCT-AAC
1 C-CCTAACCCCT-AACCCCTAAAT
*
47088389 CCCTAACTCCTAACCCCTAAAT
1 CCCTAACCCCTAACCCCTAAAT
*
47088411 CTCTAACCCCTAACCCCTAAA
1 CCCTAACCCCTAACCCCTAAA
47088432 CCTTATATCT
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.07
22 40 0.56
23 22 0.31
24 5 0.07
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (22 bp):
CCCTAACCCCTAACCCCTAAAT
Found at i:47088402 original size:45 final size:45
Alignment explanation
Indices: 47088323--47088433 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
47088313 AATTGACACC
* *
47088323 CTAAACCCTAAATCCCTAAATCCCTAACCCCTAACCCCTAAATCT
1 CTAACCCCTAAATCCCTAAACCCCTAACCCCTAACCCCTAAATCT
* * *
47088368 CCTAGCCCCTAAATTCCT-AACCCCTAACTCCTAACCCCTAAATCT
1 -CTAACCCCTAAATCCCTAAACCCCTAACCCCTAACCCCTAAATCT
*
47088413 CTAACCCCT-AACCCCTAAACC
1 CTAACCCCTAAATCCCTAAACC
47088434 TTATATCTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 5 0.09
44 12 0.21
45 25 0.45
46 14 0.25
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (45 bp):
CTAACCCCTAAATCCCTAAACCCCTAACCCCTAACCCCTAAATCT
Found at i:47088441 original size:29 final size:29
Alignment explanation
Indices: 47088374--47088448 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
47088364 ATCTCCTAGC
* *
47088374 CCCTAAAT-TCCTAACCCCTAACTCCTAAC
1 CCCTAAATCT-CTAACCCCTAACCCCTAAA
47088403 CCCTAAATCTCTAACCCCTAACCCCTAAA
1 CCCTAAATCTCTAACCCCTAACCCCTAAA
* * *
47088432 CCTTATATCTCAAACCC
1 CCCTAAATCTCTAACCC
47088449 TAATAATCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 39 0.98
30 1 0.03
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (29 bp):
CCCTAAATCTCTAACCCCTAACCCCTAAA
Found at i:47094147 original size:31 final size:31
Alignment explanation
Indices: 47094089--47094147 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
47094079 CTATTGCGTA
*
47094089 ATAAATGTGAAAATTTGAATGACTATAGAGT
1 ATAAATGTGAAAAATTGAATGACTATAGAGT
* *
47094120 ATAAATGT-ATAAAATTGATTGATTATAG
1 ATAAATGTGA-AAAATTGAATGACTATAG
47094148 GGATGATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.36
Consensus pattern (31 bp):
ATAAATGTGAAAAATTGAATGACTATAGAGT
Found at i:47094822 original size:22 final size:20
Alignment explanation
Indices: 47094797--47094837 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
47094787 ATGCGAGATT
47094797 TTCTTTCTTTTTCCTTTCTCCC
1 TTCTTTC-TTTTCC-TTCTCCC
47094819 TTCTTTCTTTTCCTTCTCC
1 TTCTTTCTTTTCCTTCTCC
47094838 TTTATTCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (20 bp):
TTCTTTCTTTTCCTTCTCCC
Found at i:47099937 original size:2 final size:2
Alignment explanation
Indices: 47099930--47099961 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47099920 GTTTCTATTG
47099930 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
47099962 GAAAGTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47100653 original size:24 final size:25
Alignment explanation
Indices: 47100586--47100687 Score: 84
Period size: 24 Copynumber: 4.2 Consensus size: 25
47100576 AGCATTCTGT
**
47100586 TTATAGGCTCTTTGTGAGCTTCCCG
1 TTATAGGCTCTTTGAAAGCTTCCCG
* * * *
47100611 TTAAAGGCTCCTCG-GAGCTTCCCG
1 TTATAGGCTCTTTGAAAGCTTCCCG
*
47100635 TTA-AGTGCTCTTT-AAAGCTACCCG
1 TTATAG-GCTCTTTGAAAGCTTCCCG
* **
47100659 ATATAGGCTCTTTGTGAGCTTCCCG
1 TTATAGGCTCTTTGAAAGCTTCCCG
47100684 TTAT
1 TTAT
47100688 TAAGCCTGGA
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
23 2 0.03
24 35 0.57
25 24 0.39
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (25 bp):
TTATAGGCTCTTTGAAAGCTTCCCG
Found at i:47103297 original size:20 final size:19
Alignment explanation
Indices: 47103264--47103303 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
47103254 AAGACAACAT
47103264 CTTATTTTTATTTTATTTA
1 CTTATTTTTATTTTATTTA
*
47103283 CTTAGTTTTTCTTTTATTTA
1 CTTA-TTTTTATTTTATTTA
47103303 C
1 C
47103304 CAATTTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (19 bp):
CTTATTTTTATTTTATTTA
Found at i:47108226 original size:39 final size:41
Alignment explanation
Indices: 47108171--47108257 Score: 124
Period size: 39 Copynumber: 2.2 Consensus size: 41
47108161 TCAAGAATAT
* **
47108171 AGCTGTCGATCAGAACGTAGC-AGTCAGT-CTACTCACACA
1 AGCTGTCCATCAGAACGTAGCTACACAGTGCTACTCACACA
*
47108210 AGCTGTCCATCGGAACGTAGCTACACAGTGCTACTCACACA
1 AGCTGTCCATCAGAACGTAGCTACACAGTGCTACTCACACA
47108251 AGCTGTC
1 AGCTGTC
47108258 AAGTAACTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 19 0.45
40 5 0.12
41 18 0.43
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (41 bp):
AGCTGTCCATCAGAACGTAGCTACACAGTGCTACTCACACA
Found at i:47116145 original size:41 final size:41
Alignment explanation
Indices: 47116100--47116244 Score: 236
Period size: 41 Copynumber: 3.5 Consensus size: 41
47116090 GACTATACGT
* *
47116100 CTAGCAGGCTAAGTGCCGGTGATCTGATTCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
47116141 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
* * *
47116182 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATGAGC
1 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
*
47116223 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCAGTGA
47116245 ATCTATTAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
Found at i:47118687 original size:8 final size:8
Alignment explanation
Indices: 47118674--47118698 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
47118664 TATACTAAAC
47118674 AATAAAAT
1 AATAAAAT
47118682 AATAAAAT
1 AATAAAAT
47118690 AATAAAAT
1 AATAAAAT
47118698 A
1 A
47118699 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:47120066 original size:15 final size:15
Alignment explanation
Indices: 47120046--47120076 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47120036 GTTATGTAAG
47120046 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
47120061 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
47120076 T
1 T
47120077 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:47124333 original size:15 final size:15
Alignment explanation
Indices: 47124313--47124343 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47124303 GTTATGTAAG
47124313 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
47124328 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
47124343 T
1 T
47124344 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:47129814 original size:30 final size:29
Alignment explanation
Indices: 47129780--47129851 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
47129770 AAATTTAAAA
47129780 AAAAATCTAATTAAATTTTCTAAAAGTTCT
1 AAAAATCTAATTAAA-TTTCTAAAAGTTCT
* * * *
47129810 AAAAATTTCAAGTAAATTTCTAAAATTTTT
1 AAAAATCT-AATTAAATTTCTAAAAGTTCT
47129840 AAAAACTCTAAT
1 AAAAA-TCTAAT
47129852 CTTCTTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 26 0.76
31 8 0.24
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.39
Consensus pattern (29 bp):
AAAAATCTAATTAAATTTCTAAAAGTTCT
Found at i:47134659 original size:17 final size:17
Alignment explanation
Indices: 47134637--47134670 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47134627 TGTCTCCTAT
47134637 ATTTAATATATTAAAGG
1 ATTTAATATATTAAAGG
47134654 ATTTAATATATTAAAGG
1 ATTTAATATATTAAAGG
47134671 GTTAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
ATTTAATATATTAAAGG
Found at i:47136176 original size:109 final size:110
Alignment explanation
Indices: 47136048--47136252 Score: 299
Period size: 109 Copynumber: 1.9 Consensus size: 110
47136038 AAAAATTAGA
** *
47136048 AAAAACTAAAAAAAATTAAAAGT-TATAAATATTATTAAATTTTAATT-AAAATTTTCAAATATT
1 AAAAACTAAAAAAAATTAAAA-TCTATAAATATTATTAAATTTTAATTAAAAAAATTAAAATATT
47136111 AAAAATTAGAAAAAATATAAAAT-ATAAAAAAACCCCTGCTTTTATT
65 AAAAATTAGAAAAAATA-AAAATCATAAAAAAACCCCTGCTTTTATT
* *
47136157 AAAAATTATAAAAAATTAAAATCTATAAATATTATTAAATTTTAATTAAAAAAATTAAAATATTA
1 AAAAACTAAAAAAAATTAAAATCTATAAATATTATTAAATTTTAATTAAAAAAATTAAAATATTA
* * *
47136222 GAAATTAGAAAAAGTAAAAATCGTAAAAAAA
66 AAAATTAGAAAAAATAAAAATCATAAAAAAA
47136253 TATAAAAAAC
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
108 1 0.01
109 48 0.56
110 36 0.42
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.32
Consensus pattern (110 bp):
AAAAACTAAAAAAAATTAAAATCTATAAATATTATTAAATTTTAATTAAAAAAATTAAAATATTA
AAAATTAGAAAAAATAAAAATCATAAAAAAACCCCTGCTTTTATT
Found at i:47136296 original size:20 final size:20
Alignment explanation
Indices: 47136236--47136300 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
47136226 TTAGAAAAAG
47136236 TAAAAATCGTAAAAAAA-TA
1 TAAAAATCGTAAAAAAATTA
* ***
47136255 TAAAAAACTGTAAAATTTTTA
1 TAAAAATC-GTAAAAAAATTA
*
47136276 TAAAAATCATAAAAAAATTA
1 TAAAAATCGTAAAAAAATTA
47136296 TAAAA
1 TAAAA
47136301 TATATAGAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
19 7 0.20
20 19 0.54
21 9 0.26
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
TAAAAATCGTAAAAAAATTA
Found at i:47136324 original size:10 final size:10
Alignment explanation
Indices: 47136311--47136336 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
47136301 TATATAGAAA
47136311 TATAAAATTT
1 TATAAAATTT
47136321 TATAAAATTT
1 TATAAAATTT
47136331 TATAAA
1 TATAAA
47136337 GTTGTAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TATAAAATTT
Found at i:47136594 original size:20 final size:20
Alignment explanation
Indices: 47136569--47136609 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
47136559 TGTTAAAGAG
47136569 ATTTTTTGATGCA-TTTTATA
1 ATTTTTTGATG-ATTTTTATA
*
47136589 ATTTTTTTATGATTTTTATA
1 ATTTTTTGATGATTTTTATA
47136609 A
1 A
47136610 AATTTTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
ATTTTTTGATGATTTTTATA
Found at i:47136659 original size:37 final size:37
Alignment explanation
Indices: 47136591--47136661 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
47136581 ATTTTATAAT
** **
47136591 TTTTTTATGATTTTTATAAAATTTTACAATTTTTTAC
1 TTTTTTACAATTTTTATAAAAAATTACAATTTTTTAC
47136628 TTTTTTACAATTTTTATAAAAAATT-CTAATTTTT
1 TTTTTTACAATTTTTATAAAAAATTAC-AATTTTT
47136662 AATAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 1 0.03
37 28 0.97
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (37 bp):
TTTTTTACAATTTTTATAAAAAATTACAATTTTTTAC
Found at i:47136815 original size:90 final size:94
Alignment explanation
Indices: 47136719--47136920 Score: 265
Period size: 89 Copynumber: 2.2 Consensus size: 94
47136709 AGAGCAGGGC
* * * *
47136719 CTTAATTGTTTTTTTTTTGAA-AAATTTTGAGGGTCATTTTGATACATTTTGAAAGTTCAAGT-A
1 CTTAATTGTTTTTTTTTTGAAGAAA-TTTGAGGGCCATTTTAATACATTTTAAAAGTTCAAGTGC
47136782 TCCAATTGAGTGCAAAAAAAA-A-AGGA-A-
65 T-CAATTGAGTGCAAAAAAAAGAGAGGAGAG
* * *
47136809 CTTAATTG-CTTTTTTTTGAAGAAATTTGAGGGCCTTTTTAATGCATTTTAAAAGTTCAAGTGCT
1 CTTAATTGTTTTTTTTTTGAAGAAATTTGAGGGCCATTTTAATACATTTTAAAAGTTCAAGTGCT
47136873 CAATTGAGTGCAAAAAAAAGAGAGGAGGAG
66 CAATTGAGTGCAAAAAAAAGAGAGGA-GAG
47136903 CTTAATTGTTTTTTTTTT
1 CTTAATTGTTTTTTTTTT
47136921 TTTTTGAAGT
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
89 62 0.65
90 13 0.14
91 4 0.04
93 1 0.01
94 8 0.08
95 8 0.08
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (94 bp):
CTTAATTGTTTTTTTTTTGAAGAAATTTGAGGGCCATTTTAATACATTTTAAAAGTTCAAGTGCT
CAATTGAGTGCAAAAAAAAGAGAGGAGAG
Found at i:47137744 original size:31 final size:32
Alignment explanation
Indices: 47137685--47137745 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
47137675 TATCATTTCA
* *
47137685 ACTCTTTTTCAAAACGTTGATGGTCAAATTCG
1 ACTCTTTTTCAAAACATTGAGGGTCAAATTCG
*
47137717 ACTCTTTTT-AAAATATTGAGGGTCAAATT
1 ACTCTTTTTCAAAACATTGAGGGTCAAATT
47137746 TAGTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (32 bp):
ACTCTTTTTCAAAACATTGAGGGTCAAATTCG
Found at i:47139172 original size:6 final size:6
Alignment explanation
Indices: 47139161--47139203 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
47139151 ATCCAACTAA
*
47139161 TTCTTT TTCTTT TTCTTT CTT-TTT TCCTTCT TTCTTT TTCTTT
1 TTCTTT TTCTTT TTCTTT -TTCTTT TTCTT-T TTCTTT TTCTTT
47139204 CTTTTTTCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 1 0.03
6 24 0.75
7 7 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:47139181 original size:4 final size:4
Alignment explanation
Indices: 47139172--47139237 Score: 63
Period size: 4 Copynumber: 18.0 Consensus size: 4
47139162 TCTTTTTCTT
* *
47139172 TTTC TTTC TTT- TTTC CTTC TTTC -TT- TTTC TTTC TTT- TTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
47139216 -TTC TTCC TTTC TTTC TTT- TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC
47139238 ATCTTCTCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
3 16 0.31
4 35 0.69
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:47139191 original size:15 final size:16
Alignment explanation
Indices: 47139173--47139234 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
47139163 CTTTTTCTTT
47139173 TTCTTTCTTTT-TTCC
1 TTCTTTCTTTTCTTCC
*
47139188 TTCTTTCTTTTTCTTTC
1 TTCTTTC-TTTTCTTCC
*
47139205 TTTTTTCCTTCTTCTTCC
1 TTCTTT-CTT-TTCTTCC
47139223 TTTCTTTCTTTT
1 -TTCTTTCTTTT
47139235 TTCATCTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 7 0.18
16 4 0.11
17 12 0.32
18 10 0.26
19 5 0.13
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTCTTTTCTTCC
Found at i:47139197 original size:25 final size:25
Alignment explanation
Indices: 47139166--47139237 Score: 119
Period size: 25 Copynumber: 2.8 Consensus size: 25
47139156 ACTAATTCTT
47139166 TTTCTTTTTCTTTCTTTTTTCCTTC
1 TTTCTTTTTCTTTCTTTTTTCCTTC
47139191 TTTCTTTTTCTTTCTTTTTTCCTTC
1 TTTCTTTTTCTTTCTTTTTTCCTTC
47139216 -TTCTTCCTTTCTTTCTTTTTTC
1 TTTCTT--TTTCTTTCTTTTTTC
47139238 ATCTTCTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
24 5 0.11
25 25 0.56
26 15 0.33
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTCTTTTTCTTTCTTTTTTCCTTC
Found at i:47139217 original size:36 final size:35
Alignment explanation
Indices: 47139166--47139235 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
47139156 ACTAATTCTT
* *
47139166 TTTCTTTTTCTTTCTTTTTTCC-TTCTTTCTTTTTC
1 TTTCTTTTTCCTTC-TTCTTCCTTTCTTTCTTTTTC
47139201 TTTCTTTTTTCCTTCTTCTTCCTTTCTTTCTTTTT
1 TTTC-TTTTTCCTTCTTCTTCCTTTCTTTCTTTTT
47139236 TCATCTTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 10 0.32
36 21 0.68
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (35 bp):
TTTCTTTTTCCTTCTTCTTCCTTTCTTTCTTTTTC
Found at i:47139219 original size:14 final size:14
Alignment explanation
Indices: 47139177--47139220 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
47139167 TTCTTTTTCT
47139177 TTCTTTTTTCCTTC
1 TTCTTTTTTCCTTC
47139191 TT-TCTTTTT-C-T-
1 TTCT-TTTTTCCTTC
47139202 TTCTTTTTTCCTTC
1 TTCTTTTTTCCTTC
47139216 TTCTT
1 TTCTT
47139221 CCTTTCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
11 7 0.28
12 3 0.12
13 3 0.12
14 12 0.48
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTCTTTTTTCCTTC
Found at i:47139237 original size:11 final size:11
Alignment explanation
Indices: 47139166--47139229 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
47139156 ACTAATTCTT
47139166 TTTC-TTTTTC
1 TTTCTTTTTTC
47139176 TTTCTTTTTTCC
1 TTTCTTTTTT-C
*
47139188 TTCTTTCTTTTTC
1 TT-TCT-TTTTTC
47139201 TTTCTTTTTTC
1 TTTCTTTTTTC
* * *
47139212 CTTCTTCTTCC
1 TTTCTTTTTTC
47139223 TTTCTTT
1 TTTCTTT
47139230 CTTTTTTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
10 4 0.09
11 24 0.56
12 5 0.12
13 5 0.12
14 5 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:47139242 original size:22 final size:22
Alignment explanation
Indices: 47139175--47139243 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
47139165 TTTTCTTTTT
* *
47139175 CTTTCTTTTTTCCTTCTTTCTTTTT
1 CTTTCTTTTTTCCTTC-ATC--TTC
*
47139200 CTTTCTTTTTTCCTTCTTCTTC
1 CTTTCTTTTTTCCTTCATCTTC
*
47139222 CTTTCTTTCTTT-TTTCATCTTC
1 CTTTCTTT-TTTCCTTCATCTTC
47139244 TCAAACCTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
22 18 0.45
23 3 0.08
24 3 0.08
25 16 0.40
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (22 bp):
CTTTCTTTTTTCCTTCATCTTC
Found at i:47140028 original size:30 final size:30
Alignment explanation
Indices: 47139992--47140069 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 30
47139982 GTCAAGGGGT
47139992 CAAAATGTAATTTTAAGAAAAA-CTGAGAGC
1 CAAAATGTAATTTTAAGAAAAATCTG-GAGC
* * *
47140022 CAAAATGTAATTTTAGGAAAAATTTTGGGGC
1 CAAAATGTAATTTTAAGAAAAA-TCTGGAGC
47140053 CAAAATGTAAATTTTAA
1 CAAAATGT-AATTTTAA
47140070 ATTTTTGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 21 0.51
31 11 0.27
32 9 0.22
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (30 bp):
CAAAATGTAATTTTAAGAAAAATCTGGAGC
Found at i:47140540 original size:151 final size:150
Alignment explanation
Indices: 47140378--47140995 Score: 758
Period size: 151 Copynumber: 4.1 Consensus size: 150
47140368 GTCTATTTTT
* * * * * *
47140378 TTTTTGAAAAACAGAAATCGAAAATAGCTCAGCGTGCGATCCAAAGTTCAACTCACATATCAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTATCAGAT
* * * * * * *
47140443 TCTGAATTGATCTTTGAAAAATAGAATTTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCA
66 TATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTCA
47140508 CCTCTCGGATTATGAATTGA
131 CCTCTCGGATTATGAATTGA
* * ** * * * * *
47140528 TTTTTGGAAAAACAAAAATTGAAAATAGCTCATTGTGTGACCCATGGCTTAACTCACCTCTCGGA
1 TTTTT-GAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTATCAGA
* * *
47140593 TTATGATTTGATTTTTGAAAACTAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTTAACTC
65 TTATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTC
*
47140658 ACCTCTCGAATTAT-AAGTTGA
130 ACCTCTCGGATTATGAA-TTGA
* * * * *
47140679 TTTTTGAAAAAAAAGAAATTAAAAATACCTCAGCGTACGACCCGAGGCTCAACTCACCTCTC-GA
1 TTTTTG-AAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTATCAG-
* * * *
47140743 ATTATGAGTTGATTTTTGAAAATTAGAAATTGAAAATACCTCAACGTGCGACCTGAGGCTCAACT
64 ATTATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACT
*
47140808 CACCTCTCGGATTATGAGTTGA
129 CACCTCTCGGATTATGAATTGA
* * * **
47140830 -TTTTGAAAAACATAAATTGAAAACACCTCAGCTTGCGACCTGAGGCTCAACTCACCTATCAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTATCAGAT
*
47140894 TATGAGTTGATTTTTG-AAAATCTGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTC
66 TATGAGTTGATTTTTGAAAAAT-AGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTC
** *
47140958 ACCTCTTAGATTATGAGTTGA
130 ACCTCTCGGATTATGAATTGA
47140979 TTTTTGAAAAACAGAAA
1 TTTTTGAAAAACAGAAA
47140996 AAGAAGTGGT
Statistics
Matches: 402, Mismatches: 58, Indels: 16
0.84 0.12 0.03
Matches are distributed among these distances:
148 4 0.01
149 122 0.30
150 30 0.07
151 245 0.61
152 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (150 bp):
TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCCAAGGCTCAACTCACCTATCAGAT
TATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTCA
CCTCTCGGATTATGAATTGA
Found at i:47140566 original size:76 final size:74
Alignment explanation
Indices: 47140378--47140995 Score: 727
Period size: 75 Copynumber: 8.2 Consensus size: 74
47140368 GTCTATTTTT
* * * * * * * *
47140378 TTTTTGAAAAACAGAAATCGAAAATAGCTCAGCGTGCGATCCAAAGTTCAACTCACATATCAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGA-CCGAGGCTCAACTCACCTCTCGGAT
* *
47140443 TCTGAATTGA
65 TATGAGTTGA
* * * *
47140453 TCTTTGAAAAATAGAATTTGAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGAC-CGAGGCTCAACTCACCTCTCGGAT
*
47140518 TATGAATTGA
65 TATGAGTTGA
* * ** * * *
47140528 TTTTTGGAAAAACAAAAATTGAAAATAGCTCATTGTGTGACCCATGGCTTAACTCACCTCTCGGA
1 TTTTT-GAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCGA-GGCTCAACTCACCTCTCGGA
*
47140593 TTATGATTTGA
64 TTATGAGTTGA
* * *
47140604 TTTTTG-AAAACTAGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTTAACTCACCTCTCGAA
1 TTTTTGAAAAAC-AGAAATTGAAAATACCTCAGCGTGCGA-CCGAGGCTCAACTCACCTCTCGGA
*
47140668 TTATAAGTTGA
64 TTATGAGTTGA
* * * *
47140679 TTTTTGAAAAAAAAGAAATTAAAAATACCTCAGCGTACGACCCGAGGCTCAACTCACCTCTCGAA
1 TTTTTG-AAAAACAGAAATTGAAAATACCTCAGCGTGCGA-CCGAGGCTCAACTCACCTCTCGGA
47140744 TTATGAGTTGA
64 TTATGAGTTGA
** *
47140755 TTTTTGAAAATTAGAAATTGAAAATACCTCAACGTGCGACCTGAGGCTCAACTCACCTCTCGGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACC-GAGGCTCAACTCACCTCTCGGAT
47140820 TATGAGTTGA
65 TATGAGTTGA
* * * * *
47140830 -TTTTGAAAAACATAAATTGAAAACACCTCAGCTTGCGACCTGAGGCTCAACTCACCTATCAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACC-GAGGCTCAACTCACCTCTCGGAT
47140894 TATGAGTTGA
65 TATGAGTTGA
* * * **
47140904 TTTTTGAAAATCTGAAATTGAAAATACATCAGCGTGCGACCCGAGGCTCAACTCACCTCTTAGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGA-CCGAGGCTCAACTCACCTCTCGGAT
47140969 TATGAGTTGA
65 TATGAGTTGA
47140979 TTTTTGAAAAACAGAAA
1 TTTTTGAAAAACAGAAA
47140996 AAGAAGTGGT
Statistics
Matches: 470, Mismatches: 63, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
74 74 0.16
75 260 0.55
76 132 0.28
77 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (74 bp):
TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGCGACCGAGGCTCAACTCACCTCTCGGATT
ATGAGTTGA
Found at i:47146364 original size:22 final size:20
Alignment explanation
Indices: 47146336--47146384 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
47146326 ATCTATTGTG
*
47146336 CAATTTAACTAAGTAACCTAAT
1 CAATTTAACTAA--AACATAAT
*
47146358 CAATTTATCTAAAACATAAT
1 CAATTTAACTAAAACATAAT
47146378 CAATTTA
1 CAATTTA
47146385 TCTCATATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 14 0.56
22 11 0.44
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (20 bp):
CAATTTAACTAAAACATAAT
Done.