Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 384 of 427
Found at i:111687353 original size:31 final size:31
Alignment explanation
Indices: 111687315--111687393 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
111687305 TTGCATTCAC
* * *
111687315 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
*
111687346 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
111687377 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
111687394 AGTTCTGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:111689412 original size:27 final size:26
Alignment explanation
Indices: 111689381--111689475 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
111689371 TTAGTTTACC
* *
111689381 AAATTACTGAAATACCTTCGACTTGTA
1 AAATTACTCAAATACC-TCGATTTGTA
* * *
111689408 AAATTAC-CAATGTACCCCCGATTTATA
1 AAATTACTCAA-ATA-CCTCGATTTGTA
*
111689435 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATA-CCTCGATTTGTA
* *
111689462 AAATCACTGAAATA
1 AAATTACTCAAATA
111689476 AGATAGAATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
26 2 0.04
27 46 0.87
28 5 0.09
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATTACTCAAATACCTCGATTTGTA
Found at i:111689520 original size:27 final size:27
Alignment explanation
Indices: 111689480--111689755 Score: 365
Period size: 27 Copynumber: 10.3 Consensus size: 27
111689470 GAAATAAGAT
*
111689480 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
111689507 AGAATTACCGTTTTACCC-CGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* * *
111689533 AAAATTACTGTTTTACCCTCGATGTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
111689560 AGAATTACCGTTTTACCATTGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* * *
111689587 AAAATTACCGTTTTACCATCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
**
111689614 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
111689641 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
* * * *
111689668 AGAATTATCATTTTACCATCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
111689695 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
111689722 AGAATTACTGTTTTATCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
111689749 AAAATTA
1 AGAATTA
111689756 TTGAAATACC
Statistics
Matches: 218, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 24 0.11
27 194 0.89
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (27 bp):
AGAATTACCGTTTTACCCTCGATTTAC
Found at i:111689789 original size:27 final size:26
Alignment explanation
Indices: 111689759--111689901 Score: 126
Period size: 27 Copynumber: 5.3 Consensus size: 26
111689749 AAAATTATTG
111689759 AAATACCCTTAGTTTTCAAAATTACCA
1 AAATACCCTTAGTTTT-AAAATTACCA
**
111689786 AAATACCCTT-GATCAATAAAATTACCA
1 AAATACCCTTAG-T-TTTAAAATTACCA
* * * *
111689813 AAATACCCCTGGTTTGTAAAACTACTA
1 AAATACCCTTAGTTT-TAAAATTACCA
* * *
111689840 AAATACCCCTGGTTTGTAAAATTACTA
1 AAATACCCTTAGTTT-TAAAATTACCA
* *
111689867 AAATACCCTTGACTTGTAAAATTACCA
1 AAATACCCTT-AGTTTTAAAATTACCA
111689894 AAATACCC
1 AAATACCC
111689902 CTGATTTGTG
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 93 0.95
28 4 0.04
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (26 bp):
AAATACCCTTAGTTTTAAAATTACCA
Found at i:111689910 original size:27 final size:27
Alignment explanation
Indices: 111689776--111689956 Score: 204
Period size: 27 Copynumber: 6.7 Consensus size: 27
111689766 CTTAGTTTTC
* ***
111689776 AAAATTACCAAAATACCCTTGATCAAT
1 AAAATTACCAAAATACCCCTGATTTGT
*
111689803 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
111689830 AAAACTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
111689857 AAAATTACTAAAATACCCTTGACTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
111689884 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
111689911 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
111689938 ATAA-TACCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
111689957 ATAGGGTAGA
Statistics
Matches: 131, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 12 0.09
27 119 0.91
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:111689910 original size:54 final size:54
Alignment explanation
Indices: 111689749--111689956 Score: 208
Period size: 54 Copynumber: 3.9 Consensus size: 54
111689739 CTCGATTTAC
* * * ***
111689749 AAAATTATTGAAATACCCTT-AGTTT-TCAAAATTACCAAAATACCCTTGATCAAT
1 AAAATTACTAAAATACCCTTGA-TTTGT-AAAATTACCAAAATACCCCTGATTTGT
* * * * * *
111689803 AAAATTACCAAAATACCCCTGGTTTGTAAAACTACTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGT
*
111689857 AAAATTACTAAAATACCCTTGACTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * *
111689911 GAAATTA-TCAAAATACTCTCGATTTGTATAA-TACCAAAATACCCCT
1 AAAATTACT-AAAATACCCTTGATTTGTAAAATTACCAAAATACCCCT
111689957 ATAGGGTAGA
Statistics
Matches: 127, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
53 16 0.13
54 110 0.87
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:111689988 original size:27 final size:27
Alignment explanation
Indices: 111689942--111690248 Score: 458
Period size: 27 Copynumber: 11.4 Consensus size: 27
111689932 ATTTGTATAA
* *
111689942 TACCAAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
111689969 TATC-ACAATACCCCTGTAGGGTAGAAT
1 TACCGA-AATACCCCTGTAGGGTAGAAT
*
111689996 TACCGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
111690023 TATCGCAATA-CCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
111690049 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
111690076 TACCGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
111690103 TATCGTAATA-CCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
111690129 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
111690156 TATCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
111690183 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
111690210 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
111690237 TACCGAGATACC
1 TACCGAAATACC
111690249 TTGTGAGGTA
Statistics
Matches: 252, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
26 47 0.19
27 204 0.81
28 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:111689997 original size:80 final size:80
Alignment explanation
Indices: 111689942--111690248 Score: 438
Period size: 80 Copynumber: 3.8 Consensus size: 80
111689932 ATTTGTATAA
* * *
111689942 TACCAAAATACCCCTATAGGGTAGAATTATC-ACAATACCCCTGTAGGGTAGAATTACCGAAATA
1 TACCGAAATA-CCCTGTAGGGTAGAATTACCGA-AATACCCCTGTAGGGTAGAATTACCGAAATA
*
111690006 CCCCTATAGGGTAGAAT
64 CCCCGATAGGGTAGAAT
* *
111690023 TATCGCAATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACC
1 TACCGAAATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACC
*
111690088 CCTATAGGGTAGAAT
66 CCGATAGGGTAGAAT
* * *
111690103 TATCGTAATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACC
1 TACCGAAATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACC
* *
111690168 CTTG-TAGGGTAGAAA
66 C-CGATAGGGTAGAAT
* *
111690183 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAGATAC
1 TACCGAAATA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATAC
111690248 C
65 C
111690249 TTGTGAGGTA
Statistics
Matches: 208, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
80 148 0.71
81 60 0.29
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (80 bp):
TACCGAAATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACC
CCGATAGGGTAGAAT
Found at i:111690705 original size:6 final size:6
Alignment explanation
Indices: 111690668--111690755 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
111690658 TTGCATTCAC
* * *
111690668 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
111690717 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
111690756 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:111690713 original size:31 final size:31
Alignment explanation
Indices: 111690668--111690771 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 31
111690658 TTGCATTCAC
* *
111690668 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
111690699 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
111690730 ATTCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
111690760 TTTCTTATTCTG
1 ATTCTGATTCTG
111690772 TAATGGGTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
30 16 0.26
31 43 0.70
32 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:111690803 original size:31 final size:32
Alignment explanation
Indices: 111690768--111690832 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
111690758 TGTTTCTTAT
*
111690768 TCTG-TAATGGGTTAAAGCCC-ATCTGGTACTG
1 TCTGTTAATGGGCTAAAGCCCAAT-TGGTACTG
111690799 TCTGTTATAATGGGCTAAAGCCCAATTGGTACTG
1 TCTG-T-TAATGGGCTAAAGCCCAATTGGTACTG
111690833 AAACTGTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 4 0.14
34 23 0.79
35 2 0.07
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (32 bp):
TCTGTTAATGGGCTAAAGCCCAATTGGTACTG
Found at i:111697113 original size:44 final size:45
Alignment explanation
Indices: 111697023--111697151 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
111697013 GACAGAACGA
*
111697023 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
111697069 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
111697113 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
111697152 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:111701366 original size:24 final size:23
Alignment explanation
Indices: 111701339--111701383 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
111701329 TTAGTTATAC
*
111701339 TTAATTATTGGTTTTGTTAATTTG
1 TTAATTATTAG-TTTGTTAATTTG
111701363 TTAATTATTAGTTTGTTAATT
1 TTAATTATTAGTTTGTTAATT
111701384 GGTATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTAATTATTAGTTTGTTAATTTG
Found at i:111701394 original size:23 final size:23
Alignment explanation
Indices: 111701340--111701387 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
111701330 TAGTTATACT
* *
111701340 TAATTATTGGTTTTGTTAATTTGT
1 TAATTATTAG-TTTGTTAATTTGG
111701364 TAATTATTAGTTTGTTAA-TTGG
1 TAATTATTAGTTTGTTAATTTGG
111701386 TA
1 TA
111701388 TTGTATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 8 0.36
24 9 0.41
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.58
Consensus pattern (23 bp):
TAATTATTAGTTTGTTAATTTGG
Found at i:111702294 original size:11 final size:10
Alignment explanation
Indices: 111702281--111702324 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
111702271 TTGATCTTAT
111702281 TAAAAAAATA
1 TAAAAAAATA
*
111702291 T-TAAAAATA
1 TAAAAAAATA
*
111702300 TAAAAATATA
1 TAAAAAAATA
111702310 TAAAAAAAT-
1 TAAAAAAATA
111702319 TAAAAA
1 TAAAAA
111702325 TTTTAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:111702298 original size:9 final size:9
Alignment explanation
Indices: 111702284--111702331 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
111702274 ATCTTATTAA
111702284 AAAAATATT
1 AAAAATATT
111702293 AAAAATA-T
1 AAAAATATT
111702301 AAAAATATAT
1 AAAAATAT-T
*
111702311 AAAAAAATT
1 AAAAATATT
*
111702320 AAAAATTTT
1 AAAAATATT
111702329 AAA
1 AAA
111702332 TTAACCATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 8 0.24
9 18 0.53
10 8 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATATT
Found at i:111702316 original size:19 final size:19
Alignment explanation
Indices: 111702284--111702325 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
111702274 ATCTTATTAA
*
111702284 AAAAATAT-TAAAAATA-T
1 AAAAATATATAAAAAAATT
111702301 AAAAATATATAAAAAAATT
1 AAAAATATATAAAAAAATT
111702320 AAAAAT
1 AAAAAT
111702326 TTTAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 7 0.32
19 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATATATAAAAAAATT
Found at i:111703357 original size:2 final size:2
Alignment explanation
Indices: 111703350--111703387 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
111703340 GAAATAGCAA
111703350 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111703388 TAATTCTCGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111704016 original size:15 final size:15
Alignment explanation
Indices: 111703952--111704021 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
111703942 TATTAGTGAA
111703952 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
111703965 CAAAT-TTTTAATAAT
1 -AAATATTTTAATAAT
*
111703980 AAATATTTGTACAATTAT
1 AAATATTT-T--AATAAT
*
111703998 AAATATATTAATAAT
1 AAATATTTTAATAAT
111704013 AAATATTTT
1 AAATATTTT
111704022 GTAGTATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 14 0.30
15 18 0.39
16 1 0.02
17 1 0.02
18 12 0.26
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:111704846 original size:19 final size:18
Alignment explanation
Indices: 111704822--111704865 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
111704812 ATTCAAATAC
111704822 AAAAAATATTAATT-TTTTT
1 AAAAAATA--AATTATTTTT
111704841 AAAAAATAAATTATTTTT
1 AAAAAATAAATTATTTTT
*
111704859 TAAAAAT
1 AAAAAAT
111704866 TATTTTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 11 0.48
19 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAAAATAAATTATTTTT
Found at i:111711053 original size:11 final size:11
Alignment explanation
Indices: 111711037--111711061 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
111711027 ATGATGTCTG
111711037 GTCTGGTTGCT
1 GTCTGGTTGCT
111711048 GTCTGGTTGCT
1 GTCTGGTTGCT
111711059 GTC
1 GTC
111711062 AAATACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.20, G:0.36, T:0.44
Consensus pattern (11 bp):
GTCTGGTTGCT
Found at i:111713737 original size:46 final size:44
Alignment explanation
Indices: 111713678--111713792 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
111713668 ACAGGACAGA
* *
111713678 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
111713724 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
111713768 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
111713793 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:111713773 original size:44 final size:45
Alignment explanation
Indices: 111713678--111713811 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
111713668 ACAGGACAGA
* *
111713678 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
111713724 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
111713768 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
111713812 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:111719683 original size:46 final size:44
Alignment explanation
Indices: 111719624--111719738 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
111719614 ACAGGACAGA
* *
111719624 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
111719670 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
111719714 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
111719739 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:111719719 original size:44 final size:45
Alignment explanation
Indices: 111719624--111719757 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
111719614 ACAGGACAGA
* *
111719624 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
111719670 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
111719714 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
111719758 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:111725497 original size:16 final size:16
Alignment explanation
Indices: 111725476--111725509 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
111725466 TTATATGTAG
*
111725476 TATAATATGTTAGATT
1 TATAATATGTTACATT
*
111725492 TATAATATTTTACATT
1 TATAATATGTTACATT
111725508 TA
1 TA
111725510 ATAGTATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TATAATATGTTACATT
Found at i:111726155 original size:18 final size:18
Alignment explanation
Indices: 111726132--111726169 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
111726122 GGACTCCCAA
111726132 AGGTGCTAGAGTAAACAT
1 AGGTGCTAGAGTAAACAT
111726150 AGGTGCTAGAGTAAACAT
1 AGGTGCTAGAGTAAACAT
111726168 AG
1 AG
111726170 AGTGGTGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (18 bp):
AGGTGCTAGAGTAAACAT
Found at i:111727029 original size:24 final size:24
Alignment explanation
Indices: 111726993--111727040 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
111726983 ATAGAATACA
*
111726993 GTTTATCTAATTTTTAAATTATTG
1 GTTTATCTAATTTTAAAATTATTG
* *
111727017 GTTTATTTTATTTTAAAATTATTG
1 GTTTATCTAATTTTAAAATTATTG
111727041 TAAAATCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.60
Consensus pattern (24 bp):
GTTTATCTAATTTTAAAATTATTG
Found at i:111728142 original size:25 final size:25
Alignment explanation
Indices: 111728093--111728152 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
111728083 TTCTACCATC
*
111728093 CTATATTTTAAATAAATATCTAAAA
1 CTATATTTTAAATAAAAATCTAAAA
111728118 CTAT-TTTTAAATATGAAAATC-AAAA
1 CTATATTTTAAATA--AAAATCTAAAA
*
111728143 CATAAATTTT
1 C-TATATTTT
111728153 CCTTTTAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 9 0.31
25 9 0.31
26 7 0.24
27 4 0.14
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (25 bp):
CTATATTTTAAATAAAAATCTAAAA
Found at i:111736221 original size:2 final size:2
Alignment explanation
Indices: 111736214--111736247 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
111736204 TTGGAGTTAA
111736214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111736248 TTACGTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111736679 original size:26 final size:26
Alignment explanation
Indices: 111736640--111736690 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
111736630 TTGTGTTACA
* *
111736640 AGCCGAAGTCAAGTGCTAAGCCTAAC
1 AGCCCAAGTCAAGTACTAAGCCTAAC
*
111736666 AGCCCAAGTTAAGTACTAAGCCTAA
1 AGCCCAAGTCAAGTACTAAGCCTAA
111736691 TTTATGCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (26 bp):
AGCCCAAGTCAAGTACTAAGCCTAAC
Found at i:111737921 original size:23 final size:23
Alignment explanation
Indices: 111737895--111737942 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
111737885 TTATTTATAC
111737895 TAAACTCACGAATTAAGATTCAT
1 TAAACTCACGAATTAAGATTCAT
111737918 TAAACTCACGAATTAAGATTCAT
1 TAAACTCACGAATTAAGATTCAT
111737941 TA
1 TA
111737943 CATGTAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (23 bp):
TAAACTCACGAATTAAGATTCAT
Found at i:111748300 original size:25 final size:25
Alignment explanation
Indices: 111748253--111748300 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
111748243 AAAAGTTTTG
* * *
111748253 AAATATTTTACTAATATATTAAAGT
1 AAATATTTTAATAATAAAGTAAAGT
*
111748278 AAATATTTTAATATTAAAGTAAA
1 AAATATTTTAATAATAAAGTAAA
111748301 TATATTTTAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
AAATATTTTAATAATAAAGTAAAGT
Found at i:111748777 original size:29 final size:30
Alignment explanation
Indices: 111748744--111748800 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
111748734 CACTACTGCT
*
111748744 ACTTT-GCTTCTTCTTTTTTTACTTTTTAC
1 ACTTTCGCTTCTTCTTTTTTTAATTTTTAC
* *
111748773 ACTTTCGTTTCTTTTTTTTTTAATTTTT
1 ACTTTCGCTTCTTCTTTTTTTAATTTTT
111748801 TTATGTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.11, C:0.16, G:0.04, T:0.70
Consensus pattern (30 bp):
ACTTTCGCTTCTTCTTTTTTTAATTTTTAC
Found at i:111748829 original size:4 final size:4
Alignment explanation
Indices: 111748820--111748852 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
111748810 GTTTTTTATC
111748820 TTTA TTTA TTTA TTTA TTTTA TTTA TTT- TTTA T
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA T
111748853 GATTAATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:111748842 original size:9 final size:9
Alignment explanation
Indices: 111748814--111748848 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
111748804 TGTTTTGTTT
111748814 TTTATCTTTA
1 TTTAT-TTTA
111748824 TTTA-TTTA
1 TTTATTTTA
111748832 TTTATTTTA
1 TTTATTTTA
111748841 TTTATTTT
1 TTTATTTT
111748849 TTATGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 12 0.50
10 4 0.17
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:111748842 original size:17 final size:17
Alignment explanation
Indices: 111748811--111748852 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
111748801 TTATGTTTTG
111748811 TTTTTTATCTTTATTTA
1 TTTTTTATCTTTATTTA
111748828 TTTATTTAT-TTTATTTA
1 TTT-TTTATCTTTATTTA
111748845 TTTTTTAT
1 TTTTTTAT
111748853 GATTAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.21
17 14 0.58
18 5 0.21
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTATCTTTATTTA
Found at i:111748914 original size:25 final size:23
Alignment explanation
Indices: 111748875--111748941 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
111748865 AAAACTTGAA
* *
111748875 ATATATATTTGAATTGTTTTATAAT
1 ATATATTTTTAAATT-TTTTAT-AT
**
111748900 ATATATTTTTAAATTTTAAATAT
1 ATATATTTTTAAATTTTTTATAT
*
111748923 ATATATTTTTAGATTTTTT
1 ATATATTTTTAAATTTTTT
111748942 TAAATTTTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 18 0.51
24 4 0.11
25 13 0.37
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
ATATATTTTTAAATTTTTTATAT
Found at i:111748963 original size:21 final size:20
Alignment explanation
Indices: 111748937--111749000 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
111748927 ATTTTTAGAT
*
111748937 TTTTTTAAATTTTAAAAATGA
1 TTTTTTAAATATTAAAAAT-A
* *
111748958 TTTTTTAAATATTGAATATA
1 TTTTTTAAATATTAAAAATA
*
111748978 TTTTTT-AATAATATAAAATA
1 TTTTTTAAATATTA-AAAATA
111748998 TTT
1 TTT
111749001 AAATATTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 5 0.14
20 15 0.42
21 16 0.44
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTTTTAAATATTAAAAATA
Found at i:111749369 original size:25 final size:25
Alignment explanation
Indices: 111749341--111749390 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
111749331 GGGTAAAATA
* * *
111749341 TCTTTACTTTAATATTAAAATATTT
1 TCTTTAATATAATAATAAAATATTT
*
111749366 TCTTTAATATATTAATAAAATATTT
1 TCTTTAATATAATAATAAAATATTT
111749391 CAAAAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (25 bp):
TCTTTAATATAATAATAAAATATTT
Found at i:111749382 original size:20 final size:22
Alignment explanation
Indices: 111749334--111749375 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
111749324 TTACTTTGGG
111749334 TAAAATATCTTTACTTTAATAT
1 TAAAATATCTTTACTTTAATAT
111749356 TAAAATAT-TTT-CTTTAATAT
1 TAAAATATCTTTACTTTAATAT
111749376 ATTAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAAATATCTTTACTTTAATAT
Found at i:111749925 original size:14 final size:13
Alignment explanation
Indices: 111749908--111749943 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
111749898 TCTTTTAACT
111749908 TTTTTTATGTTTTA
1 TTTTTTATG-TTTA
111749922 TTTTTTATGTTTA
1 TTTTTTATGTTTA
111749935 TTTATTTAT
1 TTT-TTTAT
111749944 TTATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (13 bp):
TTTTTTATGTTTA
Found at i:111749938 original size:17 final size:17
Alignment explanation
Indices: 111749918--111749957 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
111749908 TTTTTTATGT
111749918 TTTATTT-TTTATGTTTA
1 TTTATTTATTTAT-TTTA
111749935 TTTATTTATTTATTTTA
1 TTTATTTATTTATTTTA
111749952 TTTATT
1 TTTATT
111749958 ATTATCAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATTTATTTATTTTA
Found at i:111749951 original size:13 final size:13
Alignment explanation
Indices: 111749917--111749962 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
111749907 TTTTTTTATG
111749917 TTTTATTT-TTTA
1 TTTTATTTATTTA
111749929 TGTTTATTTATTTA
1 T-TTTATTTATTTA
111749943 -TTTATTTTATTTA
1 TTTTA-TTTATTTA
111749956 TTATTAT
1 TT-TTAT
111749963 CAACTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 5 0.17
13 15 0.52
14 6 0.21
15 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:111750045 original size:21 final size:22
Alignment explanation
Indices: 111750021--111750096 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 22
111750011 TTAAATATAT
*
111750021 ATTTTGAA-ATTACTTTTTAAA
1 ATTTTAAATATTACTTTTTAAA
*
111750042 ATTTTAAATATTA-TTTTTTAA
1 ATTTTAAATATTACTTTTTAAA
* *
111750063 ATATTAAATA-TATTTTTTAATA
1 ATTTTAAATATTACTTTTTAA-A
* *
111750085 ATATAAAATATT
1 ATTTTAAATATT
111750097 TAAATATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
20 2 0.04
21 29 0.63
22 14 0.30
23 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (22 bp):
ATTTTAAATATTACTTTTTAAA
Found at i:111750059 original size:22 final size:22
Alignment explanation
Indices: 111750029--111750096 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
111750019 ATATTTTGAA
* *
111750029 ATTACTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATATTAAAT
111750051 ATTATTTTTT-AAATATTAAAT
1 ATTATTTTTTAAAATATTAAAT
*
111750072 A-TATTTTTTAATAATATAAAAT
1 ATTATTTTTTAA-AATATTAAAT
111750094 ATT
1 ATT
111750097 TAAATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
20 8 0.20
21 12 0.30
22 19 0.47
23 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATTTTTTAAAATATTAAAT
Found at i:111750079 original size:20 final size:21
Alignment explanation
Indices: 111750029--111750096 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
111750019 ATATTTTGAA
* *
111750029 ATTACTTTTTAAAATTTTAAAT
1 ATTA-TTTTTTAAATATTAAAT
111750051 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
*
111750072 A-TATTTTTTAATAATATAAAAT
1 ATTATTTTTT-A-AATATTAAAT
111750094 ATT
1 ATT
111750097 TAAATATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
20 8 0.20
21 17 0.43
22 14 0.35
23 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:111750171 original size:10 final size:10
Alignment explanation
Indices: 111750129--111750174 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
111750119 TTGTTATTAG
111750129 TTTTATAATA
1 TTTTATAATA
111750139 TTTTA-AATA
1 TTTTATAATA
111750148 TTATT-TAATTTA
1 TT-TTATAA--TA
111750160 TTTTATAATA
1 TTTTATAATA
111750170 TTTTA
1 TTTTA
111750175 AATTATGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
9 6 0.19
10 16 0.52
11 2 0.06
12 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTATAATA
Found at i:111750178 original size:21 final size:21
Alignment explanation
Indices: 111750019--111750178 Score: 61
Period size: 21 Copynumber: 7.6 Consensus size: 21
111750009 TTTTAAATAT
111750019 ATATTTTGAAA-TTACTTTT-TA
1 ATATTTT-AAATTTA-TTTTATA
* *
111750040 AAATTTTAAATATTATTTTTTA
1 ATATTTTAAAT-TTATTTTATA
* * *
111750062 A-ATATTAAATATATTTTTTA
1 ATATTTTAAATTTATTTTATA
* * *
111750082 ATAATATAAA-ATA-TTTA-A
1 ATATTTTAAATTTATTTTATA
111750100 ATATTTTAAACTTTCAAATTTGT-TA
1 ATATTTTAAA-TTT---ATTT-TATA
*
111750125 TTAGTTTTATAA--TATTTTA-A
1 ATA-TTTTA-AATTTATTTTATA
*
111750145 ATATTATTTAATTTATTTTATA
1 ATATT-TTAAATTTATTTTATA
111750167 ATATTTTAAATT
1 ATATTTTAAATT
111750179 ATGATTTTTA
Statistics
Matches: 106, Mismatches: 14, Indels: 38
0.67 0.09 0.24
Matches are distributed among these distances:
18 9 0.08
19 7 0.07
20 23 0.22
21 40 0.38
22 12 0.11
23 1 0.01
24 3 0.03
25 4 0.04
26 5 0.05
27 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATATTTTAAATTTATTTTATA
Found at i:111750194 original size:29 final size:30
Alignment explanation
Indices: 111750131--111750194 Score: 69
Period size: 31 Copynumber: 2.1 Consensus size: 30
111750121 GTTATTAGTT
* **
111750131 TTATAATATTTTAAATATTATTTAATTTATT
1 TTATAATATTTTAAATATGATTT-ATTTAAA
111750162 TTATAATATTTTAAATTATGA-TT-TTTAAA
1 TTATAATATTTTAAA-TATGATTTATTTAAA
111750191 TTAT
1 TTAT
111750195 CTTTAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 8 0.28
31 17 0.59
32 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
TTATAATATTTTAAATATGATTTATTTAAA
Found at i:111750498 original size:15 final size:15
Alignment explanation
Indices: 111750478--111750533 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
111750468 GTATCTTGGG
111750478 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
111750493 TTTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
*
111750508 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
111750523 TTTCTTTATTC
1 TTTCTTTATTC
111750534 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:111752980 original size:46 final size:46
Alignment explanation
Indices: 111752930--111753105 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
111752920 TGGTTGAGCA
*
111752930 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
111752976 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
111753023 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
111753069 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111753106 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:111753086 original size:93 final size:93
Alignment explanation
Indices: 111752927--111753098 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
111752917 GGATGGTTGA
* * *
111752927 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
111752992 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
111753020 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
111753085 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
111753099 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:111754782 original size:2 final size:2
Alignment explanation
Indices: 111754775--111754803 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
111754765 CTAATATGAT
111754775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111754804 GGATTTAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111755302 original size:14 final size:15
Alignment explanation
Indices: 111755285--111755317 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
111755275 TTAATCATAA
111755285 AAAATAAAT-AAAAT
1 AAAATAAATAAAAAT
111755299 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
111755314 AAAA
1 AAAA
111755318 GACAAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:111755362 original size:30 final size:30
Alignment explanation
Indices: 111755328--111755386 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
111755318 GACAAAACAT
* * *
111755328 AAAAAAATTTAAAAA-AAAGAAACGAAAGTG
1 AAAAAAAGTAAAAAACAAAAAAAC-AAAGTG
111755358 AAAAAAAGTAAAAAACAAAAAAACAAAGT
1 AAAAAAAGTAAAAAACAAAAAAACAAAGT
111755387 AACAACAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.75, C:0.05, G:0.10, T:0.10
Consensus pattern (30 bp):
AAAAAAAGTAAAAAACAAAAAAACAAAGTG
Found at i:111755496 original size:25 final size:26
Alignment explanation
Indices: 111755448--111755497 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
111755438 GAATGGTTAA
111755448 TAACAAATTAAAATAAATTATAAAAC
1 TAACAAATTAAAATAAATTATAAAAC
111755474 TAACAAATT-AAATAATATT-TAAAA
1 TAACAAATTAAAATAA-ATTATAAAA
111755498 TATTATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (26 bp):
TAACAAATTAAAATAAATTATAAAAC
Found at i:111755579 original size:21 final size:21
Alignment explanation
Indices: 111755539--111755606 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 21
111755529 AAAATATTTA
*
111755539 AATATTTTATATTATTAAAAAAT
1 AATATTTAATA-T-TTAAAAAAT
111755562 -ATATTTAATATTTAAAAAAT
1 AATATTTAATATTTAAAAAAT
*
111755582 AATATTTAAAATTTAAAAAAGT
1 AATATTTAATATTTAAAAAA-T
111755604 AAT
1 AAT
111755607 TTCAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
20 9 0.22
21 19 0.46
22 13 0.32
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:111755608 original size:20 final size:20
Alignment explanation
Indices: 111755553--111755614 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 20
111755543 TTTTATATTA
*
111755553 TTAAAAAATATATTTAATAT
1 TTAAAAAATATATTTAAAAT
111755573 TTAAAAAATAATATTTAAAAT
1 TTAAAAAAT-ATATTTAAAAT
111755594 TTAAAAAAGTA-ATTTCAAAAT
1 TTAAAAAA-TATATTT-AAAAT
111755615 ATATATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
20 13 0.34
21 24 0.63
22 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTAAAAAATATATTTAAAAT
Found at i:111755747 original size:19 final size:19
Alignment explanation
Indices: 111755704--111755747 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
111755694 AACAAAACAT
*
111755704 AAAAAATAAAGTCAAAAAA
1 AAAAAAAAAAGTCAAAAAA
** *
111755723 GTAAAAAAAAGTTAAAAAA
1 AAAAAAAAAAGTCAAAAAA
111755742 AAAAAA
1 AAAAAA
111755748 GAAACTAACA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAAAAAAAAGTCAAAAAA
Found at i:111756456 original size:21 final size:21
Alignment explanation
Indices: 111756432--111756471 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
111756422 TAAAATATTA
* *
111756432 ATATAAAAATTATTATTATAT
1 ATATAAAAACTAATATTATAT
*
111756453 ATATTAAAACTAATATTAT
1 ATATAAAAACTAATATTAT
111756472 TTAAAAAAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATAAAAACTAATATTATAT
Found at i:111785187 original size:52 final size:52
Alignment explanation
Indices: 111785109--111785214 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
111785099 TAGAATTTTC
*
111785109 AGTTTAACTGATTTAATGGTTATAAAAAAAAAATTATATTAAAAAAGAAACT
1 AGTTTAACTGATTTAATAGTTATAAAAAAAAAATTATATTAAAAAAGAAACT
111785161 AGTTTAACTGATTTAATAGTTATAAAAAAAAAATTATATTAAAAAAGAAACT
1 AGTTTAACTGATTTAATAGTTATAAAAAAAAAATTATATTAAAAAAGAAACT
111785213 AG
1 AG
111785215 GAGAAAATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (52 bp):
AGTTTAACTGATTTAATAGTTATAAAAAAAAAATTATATTAAAAAAGAAACT
Found at i:111791524 original size:35 final size:35
Alignment explanation
Indices: 111791480--111791646 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
111791470 TCCTCATTGA
** *
111791480 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
111791515 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
111791555 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
111791590 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
111791625 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
111791647 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:111791563 original size:75 final size:73
Alignment explanation
Indices: 111791475--111791646 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
111791465 GGTTTTCCTC
** * * **
111791475 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
111791539 TCAGTATGG
65 TCAGTATGG
*
111791548 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
111791613 CTCAGTATGG
64 CTCAGTATGG
111791623 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
111791647 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:111799010 original size:35 final size:35
Alignment explanation
Indices: 111798966--111799132 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
111798956 TCCTCATTGA
** *
111798966 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
111799001 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
111799041 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
111799076 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
111799111 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
111799133 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:111799049 original size:75 final size:73
Alignment explanation
Indices: 111798961--111799132 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
111798951 GGTTTTCCTC
** * * **
111798961 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
111799025 TCAGTATGG
65 TCAGTATGG
*
111799034 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
111799099 CTCAGTATGG
64 CTCAGTATGG
111799109 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
111799133 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:111801542 original size:7 final size:7
Alignment explanation
Indices: 111801532--111801567 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
111801522 TTTTATATAC
111801532 TAATAAA
1 TAATAAA
111801539 TAATAAA
1 TAATAAA
111801546 TAATGAAA
1 TAAT-AAA
*
111801554 TAATATA
1 TAATAAA
111801561 TAATAAA
1 TAATAAA
111801568 AGGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:111801556 original size:15 final size:14
Alignment explanation
Indices: 111801532--111801567 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
111801522 TTTTATATAC
111801532 TAATAAATAATAAA
1 TAATAAATAATAAA
*
111801546 TAATGAAATAATATA
1 TAAT-AAATAATAAA
111801561 TAATAAA
1 TAATAAA
111801568 AGGAAGATAA
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:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:111801566 original size:29 final size:29
Alignment explanation
Indices: 111801526--111801685 Score: 89
Period size: 29 Copynumber: 5.2 Consensus size: 29
111801516 TTTAATTTTT
*
111801526 ATATACTAATAAATAATAAATAATGAAATA
1 ATATA-TAATAAATAATAAATAATAAAATA
**
111801556 ATATATAATAAA-AGGAAGATAATATAGGGAATA
1 ATATATAATAAATAATAA-ATAATA-A---AATA
*
111801589 ATATATAATAAAATATGATATATAATAAAATA
1 ATATATAAT-AAATA--ATAAATAATAAAATA
*
111801621 TATAAATAA-AATATAATGAAAT-AT-AAATA
1 -ATATATAATAA-ATAAT-AAATAATAAAATA
* *
111801650 ATATGATAA-AATATCATATA-AATAAAATA
1 ATAT-ATAATAA-ATAATAAATAATAAAATA
111801679 ATATATA
1 ATATATA
111801686 CTATTTTTTA
Statistics
Matches: 104, Mismatches: 11, Indels: 32
0.71 0.07 0.22
Matches are distributed among these distances:
28 13 0.12
29 37 0.36
30 10 0.10
31 5 0.05
32 7 0.07
33 20 0.19
34 3 0.03
35 2 0.02
36 6 0.06
37 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (29 bp):
ATATATAATAAATAATAAATAATAAAATA
Found at i:111801611 original size:17 final size:16
Alignment explanation
Indices: 111801589--111801657 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
111801579 ATAGGGAATA
111801589 ATATATAATAAAATATG
1 ATATATAA-AAAATATG
111801606 ATATATAATAAAATAT-
1 ATATATAA-AAAATATG
* *
111801622 ATAAATAAAATATAATG
1 ATATATAAAAAAT-ATG
* *
111801639 AAATATAAATAATATG
1 ATATATAAAAAATATG
111801655 ATA
1 ATA
111801658 AAATATCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
15 4 0.09
16 14 0.33
17 25 0.58
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATATATAAAAAATATG
Found at i:111801629 original size:40 final size:42
Alignment explanation
Indices: 111801585--111801678 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 42
111801575 TAATATAGGG
* *
111801585 AATAATATATAATAAAATAT-GAT-ATATAATAAAATATATA
1 AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
* *
111801625 AATAAAATATAATGAAATATAAATAATATGATAAAATATCATATA
1 AATAAAATATAATAAAATATAAATAATATAAT-AAA-AT-ATATA
111801670 AATAAAATA
1 AATAAAATA
111801679 ATATATACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
40 18 0.40
41 2 0.04
42 6 0.13
43 3 0.07
44 2 0.04
45 14 0.31
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (42 bp):
AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
Found at i:111801661 original size:19 final size:20
Alignment explanation
Indices: 111801585--111801685 Score: 75
Period size: 21 Copynumber: 5.0 Consensus size: 20
111801575 TAATATAGGG
111801585 AATAATATATAATAAAATAT-
1 AATAA-ATATAATAAAATATA
*
111801605 GAT--ATATAATAAAATATATA
1 AATAAATATAAT-AAA-ATATA
*
111801625 AATAAAATATAATGAAATATA
1 AAT-AAATATAATAAAATATA
*
111801646 AAT-AATATGATAAAATATCA
1 AATAAATATAATAAAATAT-A
* * *
111801666 TATAAATAAAATAATATATA
1 AATAAATATAATAAAATATA
111801686 CTATTTTTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
17 7 0.11
18 3 0.05
19 17 0.27
20 8 0.12
21 20 0.31
22 2 0.03
23 7 0.11
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
AATAAATATAATAAAATATA
Found at i:111804691 original size:3 final size:3
Alignment explanation
Indices: 111804683--111804738 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
111804673 ATTGTGTATA
* ** * *
111804683 TAT TAT TAT TACT AAT TAT TAT TAT TGC TAG TAT TGT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
111804729 TAT TA- TAT TA
1 TAT TAT TAT TA
111804739 GTGTATATTT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:111804747 original size:15 final size:17
Alignment explanation
Indices: 111804729--111804769 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
111804719 TTATTATTAT
111804729 TATTATAT-TA-GTGTA
1 TATTATATGTATGTGTA
*
111804744 TATTTTATGTATGTGTA
1 TATTATATGTATGTGTA
111804761 TATATATAT
1 TAT-TATAT
111804770 AGCAATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 2 0.10
17 8 0.38
18 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (17 bp):
TATTATATGTATGTGTA
Found at i:111805054 original size:3 final size:3
Alignment explanation
Indices: 111805038--111805120 Score: 52
Period size: 3 Copynumber: 28.7 Consensus size: 3
111805028 CCCTTTTTAC
* * *
111805038 TAT TAT TACC TAT TAT T-T TAT TTT TAA TAT TAT TAAGT TA- TAT T-T
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T-A-T TAT TAT TAT
* *
111805083 T-T TA- TAT TCT T-T TAT TAT TAT TAT TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
111805121 ACTTATATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
2 12 0.19
3 45 0.71
4 4 0.06
5 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:111805251 original size:3 final size:3
Alignment explanation
Indices: 111805243--111805285 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
111805233 TTATTGTAGA
111805243 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATACT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TAT TAT TAT
111805286 ATGCATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.05
3 31 0.84
4 3 0.08
5 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:111809418 original size:44 final size:45
Alignment explanation
Indices: 111809325--111809458 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 45
111809315 ACAGGACAGA
* *
111809325 ACAGAAATGAGACATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGACATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
111809371 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGACATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
111809415 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGACATGTAAGTCCATATTAAA-ATATGGCATTGG
111809459 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 36 0.49
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGACATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:111814584 original size:32 final size:32
Alignment explanation
Indices: 111814494--111814652 Score: 185
Period size: 32 Copynumber: 4.9 Consensus size: 32
111814484 TTTCTGAGTG
**
111814494 GTACACACAAAGTATACCTTTCCTTTTCATA-T
1 GTACACACAAAGTATACCTAACCTTTTCA-AGT
* **
111814526 GGTATACACAAAGTATACCTTTCCTTTTCAAGT
1 -GTACACACAAAGTATACCTAACCTTTTCAAGT
* *
111814559 GTACACACAAAGTGTACATAACCTTTTCAAGT
1 GTACACACAAAGTATACCTAACCTTTTCAAGT
* * *
111814591 GTACACACAAAGTGTACATAACCTTTTCATGT
1 GTACACACAAAGTATACCTAACCTTTTCAAGT
*
111814623 GATATACACAAAGTATACCTAACCTTTTCA
1 G-TACACACAAAGTATACCTAACCTTTTCA
111814653 CATTCGATAG
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
32 60 0.53
33 54 0.47
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (32 bp):
GTACACACAAAGTATACCTAACCTTTTCAAGT
Found at i:111814687 original size:29 final size:29
Alignment explanation
Indices: 111814646--111814798 Score: 270
Period size: 29 Copynumber: 5.3 Consensus size: 29
111814636 TATACCTAAC
* *
111814646 CTTTTCACATTCGATAGCCAAAGCTATCC
1 CTTTTCACATTCGATAGCCGAAGCTATCT
111814675 CTTTTCACATTCGATAGCCGAAGCTATCT
1 CTTTTCACATTCGATAGCCGAAGCTATCT
111814704 CTTTTCACATTCGATAGCCGAAGCTATCT
1 CTTTTCACATTCGATAGCCGAAGCTATCT
111814733 CTTTTCACATTCGATAGCCGAAGCTATCT
1 CTTTTCACATTCGATAGCCGAAGCTATCT
*
111814762 CTTTTCACATTCGATAGCCGAAGCTATCA
1 CTTTTCACATTCGATAGCCGAAGCTATCT
*
111814791 CTATTCAC
1 CTTTTCAC
111814799 TGATCAGGTA
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 120 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (29 bp):
CTTTTCACATTCGATAGCCGAAGCTATCT
Found at i:111814713 original size:58 final size:58
Alignment explanation
Indices: 111814646--111814956 Score: 279
Period size: 62 Copynumber: 5.2 Consensus size: 58
111814636 TATACCTAAC
* *
111814646 CTTTTCACATTCGATAGCCAAAGCTATCCCTTTTCACATTCGATAGCCGAAGCTATCT
1 CTTTTCACATTCGATAGCCGAAGCTATCACTTTTCACATTCGATAGCCGAAGCTATCT
*
111814704 CTTTTCACATTCGATAGCCGAAGCTATCTCTTTTCACATTCGATAGCCGAAGCTATCT
1 CTTTTCACATTCGATAGCCGAAGCTATCACTTTTCACATTCGATAGCCGAAGCTATCT
* * * * * *
111814762 CTTTTCACATTCGATAGCCGAAGCTATCACTATTCAC-TGATCAGGTAGCTGGAGCTACCA
1 CTTTTCACATTCGATAGCCGAAGCTATCACTTTTCACAT--TC-GATAGCCGAAGCTATCT
* * * * * * *
111814822 CTTTTCACTAATCAGGTAGCCGAAGCTACCACTTTTCAC-TGATCAGGTAACCGAAGCTACCA
1 CTTTTCAC-ATTC-GATAGCCGAAGCTATCACTTTTCACAT--TC-GATAGCCGAAGCTATCT
* * * * *
111814884 CTTTTCAC-TGATCAGGTAGCCGAAGCTACCACTTTTCAC-TGATCAGGTAGCCGAAGCTACCA
1 CTTTTCACAT--TC-GATAGCCGAAGCTATCACTTTTCACAT--TC-GATAGCCGAAGCTATCT
111814946 CTTTTCACATT
1 CTTTTCACATT
111814957 GTACAAACAA
Statistics
Matches: 227, Mismatches: 18, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
57 1 0.00
58 91 0.40
59 2 0.01
60 20 0.09
61 4 0.02
62 108 0.48
63 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (58 bp):
CTTTTCACATTCGATAGCCGAAGCTATCACTTTTCACATTCGATAGCCGAAGCTATCT
Found at i:111814818 original size:31 final size:31
Alignment explanation
Indices: 111814689--111814953 Score: 305
Period size: 31 Copynumber: 8.7 Consensus size: 31
111814679 TCACATTCGA
* * *
111814689 TAGCCGAAGCTATCTCTTTTCAC--ATTC-GA
1 TAGCCGAAGCTACCACTTTTCACTGA-TCAGG
* * *
111814718 TAGCCGAAGCTATCTCTTTTCAC--ATTC-GA
1 TAGCCGAAGCTACCACTTTTCACTGA-TCAGG
* * *
111814747 TAGCCGAAGCTATCTCTTTTCAC--ATTC-GA
1 TAGCCGAAGCTACCACTTTTCACTGA-TCAGG
* *
111814776 TAGCCGAAGCTATCACTATTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
* * *
111814807 TAGCTGGAGCTACCACTTTTCACTAATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
111814838 TAGCCGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
111814869 TAACCGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
111814900 TAGCCGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
111814931 TAGCCGAAGCTACCACTTTTCAC
1 TAGCCGAAGCTACCACTTTTCAC
111814954 ATTGTACAAA
Statistics
Matches: 220, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
29 79 0.36
30 2 0.01
31 139 0.63
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTGATCAGG
Found at i:111816100 original size:11 final size:11
Alignment explanation
Indices: 111816070--111816110 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
111816060 GCCCAAACGT
111816070 CGAAATTTTCGAA
1 CGAAATTTTC--A
*
111816083 TGAAATTTTCA
1 CGAAATTTTCA
111816094 CGAAATTTTCA
1 CGAAATTTTCA
111816105 CGAAAT
1 CGAAAT
111816111 CATTTCGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 17 0.65
13 9 0.35
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (11 bp):
CGAAATTTTCA
Found at i:111816691 original size:26 final size:27
Alignment explanation
Indices: 111816662--111816716 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
111816652 ATTTAAACGG
*
111816662 TAAAAGTCTAA-TCATTAT-TTTTTAAT
1 TAAAAGTC-AATTAATTATATTTTTAAT
111816688 T-AAAGTCAATTTAATTATATTTTTAAT
1 TAAAAGTCAA-TTAATTATATTTTTAAT
111816715 TA
1 TA
111816717 TATTTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 7 0.29
27 9 0.38
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (27 bp):
TAAAAGTCAATTAATTATATTTTTAAT
Found at i:111816728 original size:13 final size:12
Alignment explanation
Indices: 111816697--111816730 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
111816687 TTAAAGTCAA
111816697 TTTAATTATATT
1 TTTAATTATATT
111816709 TTTAATTATATT
1 TTTAATTATATT
111816721 TATTAATTAT
1 T-TTAATTAT
111816731 TTGGATGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATTATATT
Found at i:111818478 original size:17 final size:17
Alignment explanation
Indices: 111818446--111818480 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
111818436 TTTTCAATTA
*
111818446 TATTTTTTTATAATTTT
1 TATTTTTTTAGAATTTT
*
111818463 TATTTTTTTAGGATTTT
1 TATTTTTTTAGAATTTT
111818480 T
1 T
111818481 TAAAATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TATTTTTTTAGAATTTT
Found at i:111822226 original size:19 final size:16
Alignment explanation
Indices: 111822191--111822233 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 16
111822181 TGATAATTTA
111822191 ATTTAATTTAATTTTT
1 ATTTAATTTAATTTTT
111822207 ATTTAATATTAAATTTTTT
1 ATTTAAT-TT-AA-TTTTT
111822226 ATTTAATT
1 ATTTAATT
111822234 AAAAATTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.29
17 2 0.08
18 3 0.12
19 12 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTAATTTAATTTTT
Found at i:111822240 original size:19 final size:19
Alignment explanation
Indices: 111822202--111822237 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
111822192 TTTAATTTAA
*
111822202 TTTTTATTTAATATTAAAT
1 TTTTTATTTAATATAAAAT
111822221 TTTTTATTTAAT-TAAAA
1 TTTTTATTTAATATAAAA
111822238 ATTCCACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTATTTAATATAAAAT
Found at i:111823716 original size:51 final size:51
Alignment explanation
Indices: 111823640--111823744 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
111823630 CATACACAAC
*
111823640 CCATGACATAAGTAAGGACATGGAGGCTTCATCATGACGGCTTCTTCTTGA
1 CCATGACATAAGTAAGGACATGGAGGCCTCATCATGACGGCTTCTTCTTGA
111823691 CCATGACATAAGTAAGGACATGGAGGCCTCATCATGACGGCTTCTTCTTGA
1 CCATGACATAAGTAAGGACATGGAGGCCTCATCATGACGGCTTCTTCTTGA
111823742 CCA
1 CCA
111823745 AGTGGCTGTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (51 bp):
CCATGACATAAGTAAGGACATGGAGGCCTCATCATGACGGCTTCTTCTTGA
Found at i:111842469 original size:11 final size:11
Alignment explanation
Indices: 111842425--111842470 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
111842415 ACAATATCCA
111842425 AATAATAAAAAT
1 AATAAT-AAAAT
*
111842437 AATAATAAGAT
1 AATAATAAAAT
*
111842448 AATAATGAAAT
1 AATAATAAAAT
*
111842459 AATAGTAAAAT
1 AATAATAAAAT
111842470 A
1 A
111842471 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 23 0.79
12 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:111847935 original size:12 final size:12
Alignment explanation
Indices: 111847918--111847943 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
111847908 TGTAATCTGT
111847918 CTAAATATTTTA
1 CTAAATATTTTA
111847930 CTAAATATTTTA
1 CTAAATATTTTA
111847942 CT
1 CT
111847944 TTTAATTAAT
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:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (12 bp):
CTAAATATTTTA
Found at i:111855506 original size:31 final size:31
Alignment explanation
Indices: 111855468--111855526 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
111855458 AAATGATCAT
111855468 TGAACTATTCGAAAGTTTTCACTTAAGTTAC
1 TGAACTATTCGAAAGTTTTCACTTAAGTTAC
* * *
111855499 TGAACTATTTGAAAGTTTTTATTTAAGT
1 TGAACTATTCGAAAGTTTTCACTTAAGT
111855527 CATTAGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (31 bp):
TGAACTATTCGAAAGTTTTCACTTAAGTTAC
Found at i:111864399 original size:51 final size:49
Alignment explanation
Indices: 111864277--111864463 Score: 239
Period size: 49 Copynumber: 3.8 Consensus size: 49
111864267 GAGGTCACGG
* * * *
111864277 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACAT
* * * *
111864326 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-T-TGGTCACAT
* * * *
111864377 GTGTAGTAATAAGTGCAGGCTACTAGGTGTACCAGATTATTGGTCACAT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACAT
*
111864426 GTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
111864464 GCTTCGGCTA
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
49 76 0.65
50 2 0.02
51 39 0.33
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTCACAT
Found at i:111864444 original size:100 final size:100
Alignment explanation
Indices: 111864271--111864458 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
111864261 TATTGTGAGG
* * *
111864271 TCACGGGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGGGTGTAGTAATAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
111864336 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* * * *
111864371 TCACGTGTGTAGTAATAAGTGCAGGCTACTAGGTGTACCAGATTATTGGTCACATGTGTAGTATT
1 TCACGGGTGTAGTAATAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
111864436 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
111864459 AGATAGCTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (100 bp):
TCACGGGTGTAGTAATAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:111865332 original size:19 final size:19
Alignment explanation
Indices: 111865308--111865345 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
111865298 GTAGTAATTG
111865308 CTTATTATTTTCATATGAA
1 CTTATTATTTTCATATGAA
111865327 CTTATTATTTTCATATGAA
1 CTTATTATTTTCATATGAA
111865346 ATTACTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (19 bp):
CTTATTATTTTCATATGAA
Found at i:111867083 original size:46 final size:46
Alignment explanation
Indices: 111867000--111867143 Score: 166
Period size: 46 Copynumber: 3.2 Consensus size: 46
111866990 TCCCATCCAC
* * * * * * *
111867000 GGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
*
111867045 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTTAACCAT
1 GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
* * *
111867091 GGTCTTGTTCA-TTTCATATCACGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCAT
111867137 GGTCTTA
1 GGTCTTA
111867144 CACATTTCAT
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
45 17 0.20
46 67 0.80
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.44
Consensus pattern (46 bp):
GGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAT
Found at i:111867150 original size:46 final size:46
Alignment explanation
Indices: 111867023--111867157 Score: 173
Period size: 46 Copynumber: 2.9 Consensus size: 46
111867013 TTTGACATGA
* * * * *
111867023 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATATCACGT
* *
111867069 TGCCATGGTATCTTTTAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
**
111867115 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
111867158 GAGAGCACAC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 4 0.05
46 73 0.95
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
Found at i:111869120 original size:53 final size:53
Alignment explanation
Indices: 111869039--111869189 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
111869029 CTTACACGGT
* *
111869039 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAACCCAG-CTATGGTCTTATACGGAATCACATTA
* *
111869094 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATTA
** *
111869147 TCACATTGCACCGATGCCATAACCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGG
111869190 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:111873918 original size:3 final size:3
Alignment explanation
Indices: 111873867--111873903 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
111873857 CTCGTTTCCC
111873867 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT C
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT C
111873904 TCTCTAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CCT
Found at i:111874929 original size:13 final size:13
Alignment explanation
Indices: 111874913--111874947 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
111874903 TGCTGTGAAA
111874913 AAGTGCTTTTGAG
1 AAGTGCTTTTGAG
*
111874926 AAGTACTTTTGAG
1 AAGTGCTTTTGAG
111874939 AAGTGCTTT
1 AAGTGCTTT
111874948 GGAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (13 bp):
AAGTGCTTTTGAG
Found at i:111877158 original size:13 final size:13
Alignment explanation
Indices: 111877106--111877171 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
111877096 AGTTTGGCAA
*
111877106 TACTTTTAAAAAG
1 TACTTTTGAAAAG
111877119 TACTTTTGAAAAG
1 TACTTTTGAAAAG
* ** *
111877132 TGCCGTGGAAAAG
1 TACTTTTGAAAAG
*
111877145 TACTTTTGAGAAG
1 TACTTTTGAAAAG
*
111877158 TGCTTTTGAAAAG
1 TACTTTTGAAAAG
111877171 T
1 T
111877172 TTAATTTAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:111877168 original size:26 final size:26
Alignment explanation
Indices: 111877108--111877171 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
111877098 TTTGGCAATA
*
111877108 CTTTTAAAAAGTACTTTTGAAAAGTG
1 CTTTTGAAAAGTACTTTTGAAAAGTG
** * *
111877134 CCGTGGAAAAGTACTTTTGAGAAGTG
1 CTTTTGAAAAGTACTTTTGAAAAGTG
111877160 CTTTTGAAAAGT
1 CTTTTGAAAAGT
111877172 TTAATTTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (26 bp):
CTTTTGAAAAGTACTTTTGAAAAGTG
Found at i:111884789 original size:15 final size:15
Alignment explanation
Indices: 111884769--111884797 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
111884759 TGAATTTTAG
111884769 ATAATTTATGATTAC
1 ATAATTTATGATTAC
111884784 ATAATTTATGATTA
1 ATAATTTATGATTA
111884798 TTTGGGTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (15 bp):
ATAATTTATGATTAC
Found at i:111901051 original size:178 final size:178
Alignment explanation
Indices: 111900745--111901094 Score: 621
Period size: 178 Copynumber: 2.0 Consensus size: 178
111900735 CTCACACATC
* *
111900745 GGAATTATGGTCTTGAAACTACTATTTTTGACAGCATTGAAAACGAGTTGTTACAATAATTATCT
1 GGAATTATGGTCTTGAAACTACTATTTTCGACACCATTGAAAACGAGTTGTTACAATAATTATCT
*
111900810 TTATTAGGAAAAGTTACTTTAGCTCAATCGGTCCTTCTTTAGGTTTCCATCTACTTCATGTAATC
66 TTATTAGGAAAAGTTACTTTAGCTCAATCGGTCCTTCTTTAGGTTCCCATCTACTTCATGTAATC
*
111900875 TAATGATAATTTCGCAAGGGATTTGTGAGGAGATCGAATGAACATGTT
131 TAATGATAATTTCGCAAGGGATTTGTGAGGAGATCAAATGAACATGTT
* *
111900923 GGAATTGTGGTCTTGAAACTACTATTTTCGACACCATTGAAAACGAGTTGTTATAATAATTATCT
1 GGAATTATGGTCTTGAAACTACTATTTTCGACACCATTGAAAACGAGTTGTTACAATAATTATCT
*
111900988 TTATTAGGAAAAGTTACTTTAGCTCAAAT-GGTCCTTTTTTAGGTTCCCATCTACTTCATGTAAT
66 TTATTAGGAAAAGTTACTTTAGCTC-AATCGGTCCTTCTTTAGGTTCCCATCTACTTCATGTAAT
111901052 CTAATGATAATTTCGCAAGGGATTTGTGAGGAGATCAAATGAA
130 CTAATGATAATTTCGCAAGGGATTTGTGAGGAGATCAAATGAA
111901095 TGGTACGAAA
Statistics
Matches: 164, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
178 161 0.98
179 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (178 bp):
GGAATTATGGTCTTGAAACTACTATTTTCGACACCATTGAAAACGAGTTGTTACAATAATTATCT
TTATTAGGAAAAGTTACTTTAGCTCAATCGGTCCTTCTTTAGGTTCCCATCTACTTCATGTAATC
TAATGATAATTTCGCAAGGGATTTGTGAGGAGATCAAATGAACATGTT
Found at i:111902840 original size:25 final size:25
Alignment explanation
Indices: 111902803--111902853 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
111902793 AATCCTTTCA
*
111902803 TGCTTATTATTTTTTTTATCACTTT
1 TGCTTATTATTTTTTTTATAACTTT
* * *
111902828 TGCTTCTTCTTTTTTTTTTAACTTT
1 TGCTTATTATTTTTTTTATAACTTT
111902853 T
1 T
111902854 TATTGCCGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.14, G:0.04, T:0.71
Consensus pattern (25 bp):
TGCTTATTATTTTTTTTATAACTTT
Found at i:111908117 original size:52 final size:53
Alignment explanation
Indices: 111908028--111908177 Score: 196
Period size: 52 Copynumber: 2.8 Consensus size: 53
111908018 CTTACACGGT
* *
111908028 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAACCCAG-CTATGGTCTTATACGGAATCACATTA
* *
111908083 TCACATTATACCGATGCCAT-GCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATTA
** *
111908135 TCACATTGCACCGATGCCATAACCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGG
111908178 GCGCACTTAT
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
51 1 0.01
52 46 0.53
53 32 0.37
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:111911682 original size:19 final size:22
Alignment explanation
Indices: 111911643--111911682 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
111911633 AGAAACCCAA
111911643 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
111911665 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
111911683 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:111911780 original size:27 final size:26
Alignment explanation
Indices: 111911743--111911856 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
111911733 AGCATGGCTG
*
111911743 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
111911769 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
111911797 CCAGAACAGATATATGCGACAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
** * * *
111911824 CCAGATTAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
111911851 CCAGAA
1 CCAGAA
111911857 TGCTTCCTCC
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.07
27 52 0.70
28 17 0.23
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:111911807 original size:54 final size:54
Alignment explanation
Indices: 111911743--111911856 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
111911733 AGCATGGCTG
* *
111911743 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGCGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
111911797 CCAGAACAGATATATGCGACAGAGCCACCAGATTAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGCGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
111911851 CCAGAA
1 CCAGAA
111911857 TGCTTCCTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGCGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:111913504 original size:26 final size:26
Alignment explanation
Indices: 111913468--111913628 Score: 279
Period size: 26 Copynumber: 6.2 Consensus size: 26
111913458 CATGAAATTC
* *
111913468 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
* *
111913494 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
111913520 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
111913546 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
111913572 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
111913598 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
111913623 TTATCA
1 TTATCA
111913629 ATTTGTATCA
Statistics
Matches: 133, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
25 24 0.18
26 109 0.82
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:111917472 original size:19 final size:22
Alignment explanation
Indices: 111917433--111917472 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
111917423 AGAAACCCAA
111917433 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
111917455 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
111917473 GTGTGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:111917570 original size:27 final size:26
Alignment explanation
Indices: 111917533--111917646 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 26
111917523 AGCATGGCTG
* *
111917533 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
111917559 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
111917587 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* ** *
111917614 CCAGATCAGATGTTTGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
111917641 CCAGAA
1 CCAGAA
111917647 TGCTTCCTCC
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.06
27 55 0.71
28 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:111917592 original size:54 final size:54
Alignment explanation
Indices: 111917533--111917646 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
111917523 AGCATGGCTG
*
111917533 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* ** * *
111917587 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATGTTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
111917641 CCAGAA
1 CCAGAA
111917647 TGCTTCCTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:111919299 original size:26 final size:26
Alignment explanation
Indices: 111919263--111919398 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
111919253 CATGAAATTC
*
111919263 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
111919289 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
111919315 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
111919341 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
111919367 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
111919393 TTATCA
1 TTATCA
111919399 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:111919727 original size:17 final size:17
Alignment explanation
Indices: 111919705--111919743 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
111919695 GGTGTCAAAA
111919705 ATAGTAGTTTTGAGACC
1 ATAGTAGTTTTGAGACC
*
111919722 ATAGTAGTTTTGGGACC
1 ATAGTAGTTTTGAGACC
111919739 ATAGT
1 ATAGT
111919744 TCTGACTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (17 bp):
ATAGTAGTTTTGAGACC
Found at i:111922634 original size:49 final size:47
Alignment explanation
Indices: 111922562--111922731 Score: 159
Period size: 49 Copynumber: 3.5 Consensus size: 47
111922552 TGTGTGTGCT
111922562 AGTGTAAGACCTGTCT-GAGACATGGCATCGACACAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGA-ACATGGCATCGAC-CAGAT-AGTGAGAGCC
* * * *
111922611 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGAT-GT-ATGGAAGTC
1 AGTGTAAGACCTGTCTGGAACATGGCATCGACC-AGATAGTGA--G-AGCC
* * *
111922660 AGTGTAAGACCTGTCTGGAACATGGCATTGACTTAGAT-GTGAGAGCT
1 AGTGTAAGACCTGTCTGGAACATGGCATCGAC-CAGATAGTGAGAGCC
*
111922707 AGTGTAAGACCATGTTTGGAACATG
1 AGTGTAAGACC-TGTCTGGAACATG
111922732 ACGTCGGCAT
Statistics
Matches: 101, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
46 1 0.01
47 15 0.15
48 15 0.15
49 68 0.67
50 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGGAACATGGCATCGACCAGATAGTGAGAGCC
Found at i:111925263 original size:31 final size:31
Alignment explanation
Indices: 111925222--111925282 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
111925212 GTGAGAAATT
*
111925222 GAGATAAGGTTGGGAAGAAAATCATCCCTGA
1 GAGACAAGGTTGGGAAGAAAATCATCCCTGA
111925253 GAGACAAGGTTGGGAAGAAAATCATCCCTG
1 GAGACAAGGTTGGGAAGAAAATCATCCCTG
111925283 GGAGCCATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.18
Consensus pattern (31 bp):
GAGACAAGGTTGGGAAGAAAATCATCCCTGA
Found at i:111948128 original size:79 final size:79
Alignment explanation
Indices: 111947987--111948228 Score: 344
Period size: 79 Copynumber: 3.1 Consensus size: 79
111947977 GCACTCTCTC
* * * * *
111947987 GAATCACATCTCATGTAACTGTAGTGAATCAGGATTA-CCTTTTCAGGTCAAATCCTACCCACCT
1 GAATCATATATCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCT
*
111948051 TAAGTTATCATAA-
66 TAAGTTACCATAAT
* ** *
111948064 GAAATCATGTATTTTGTAACCGTAGCGAATCACGATTACCCTTTTCAGGTCAAATCCTATCCACC
1 G-AATCATATATCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACC
111948129 TTAAGTTACCATAAT
65 TTAAGTTACCATAAT
* *
111948144 GAATCATATATCATGTAACCGTAGCGAATCAGGACTACCCTTTTCAGGTCAAATCCTATCCGCCT
1 GAATCATATATCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCT
*
111948209 TAAGTTACCATAGT
66 TAAGTTACCATAAT
111948223 GAATCA
1 GAATCA
111948229 AGAATAAATC
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
77 1 0.01
78 28 0.19
79 115 0.79
80 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (79 bp):
GAATCATATATCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCT
TAAGTTACCATAAT
Found at i:111948257 original size:40 final size:40
Alignment explanation
Indices: 111948193--111948330 Score: 168
Period size: 40 Copynumber: 3.5 Consensus size: 40
111948183 CTTTTCAGGT
* * * *
111948193 CAAATCCTATCCGCCTTAAGTTACCATAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* * *
111948233 TAAATCCTATTCACTTTAAATTACCATAGTTAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* * **
111948273 CAAATCCTATCCACTTTGAAGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
*
111948313 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
111948331 TATTCTCGAG
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:111949984 original size:11 final size:11
Alignment explanation
Indices: 111949968--111950001 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
111949958 TTATATATTA
111949968 AATAAAATAAT
1 AATAAAATAAT
111949979 AATAAAATAAT
1 AATAAAATAAT
111949990 AAT-AAATAAT
1 AATAAAATAAT
111950000 AA
1 AA
111950002 AATATCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:111949999 original size:18 final size:16
Alignment explanation
Indices: 111949967--111950005 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 16
111949957 CTTATATATT
111949967 AAATAAAATAATAATA
1 AAATAAAATAATAATA
111949983 AAATAATAATAAATAATA
1 AAATAA-AAT-AATAATA
111950001 AAATA
1 AAATA
111950006 TCTTATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.29
17 3 0.14
18 12 0.57
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAAAATAATAATA
Done.