Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 67 of 105
Found at i:11906962 original size:17 final size:21
Alignment explanation
Indices: 11906897--11906966 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
11906887 ATTTTTAATT
11906897 TTTATATATATATGTGA-AT-TAA
1 TTTATATATA-AT-TGATATAT-A
11906919 TTTATATATAATTGATATATA
1 TTTATATATAATTGATATATA
*
11906940 TATATATA-AATT-AT-T-TA
1 TTTATATATAATTGATATATA
11906957 TTTATATATA
1 TTTATATATA
11906967 TATATGAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
17 9 0.21
18 2 0.05
19 2 0.05
20 7 0.16
21 12 0.28
22 11 0.26
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTATATATAATTGATATATA
Found at i:11908907 original size:18 final size:18
Alignment explanation
Indices: 11908884--11908918 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11908874 AGTAAGCCTT
11908884 GAATACTGCACCCTTCTG
1 GAATACTGCACCCTTCTG
11908902 GAATACTGCACCCTTCT
1 GAATACTGCACCCTTCT
11908919 CTCCCTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (18 bp):
GAATACTGCACCCTTCTG
Found at i:11910891 original size:2 final size:2
Alignment explanation
Indices: 11910884--11910908 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11910874 AACTTTCACA
11910884 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11910909 CACACACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11915319 original size:14 final size:15
Alignment explanation
Indices: 11915302--11915331 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11915292 TGAATAATTG
11915302 AAAAATTATA-ATAA
1 AAAAATTATAGATAA
11915316 AAAAATTATAGATAA
1 AAAAATTATAGATAA
11915331 A
1 A
11915332 TTGTACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AAAAATTATAGATAA
Found at i:11917790 original size:21 final size:20
Alignment explanation
Indices: 11917747--11917804 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
11917737 TTTTATATCT
*
11917747 AAATT-TATTAAATATATTAA
1 AAATTATATTAAA-ATAATAA
11917767 AAATTATATTAAAATAATATA
1 AAATTATATTAAAATAATA-A
* *
11917788 AAATAATAATAAAATAA
1 AAATTATATTAAAATAA
11917805 AATTCAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTATATTAAAATAATAA
Found at i:11917803 original size:11 final size:11
Alignment explanation
Indices: 11917766--11917804 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11917756 AAATATATTA
* *
11917766 AAAATTATATT
1 AAAATAATAAT
11917777 AAAATAAT-AT
1 AAAATAATAAT
11917787 AAAATAATAAT
1 AAAATAATAAT
11917798 AAAATAA
1 AAAATAA
11917805 AATTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:11922933 original size:21 final size:21
Alignment explanation
Indices: 11922892--11922930 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
11922882 GTCTTTTTAG
11922892 ATATTTTTATAATATAAAATA
1 ATATTTTTATAATATAAAATA
11922913 ATATTTTT-TAATATAAAA
1 ATATTTTTATAATATAAAA
11922931 ATATTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTTTTATAATATAAAATA
Found at i:11923425 original size:15 final size:16
Alignment explanation
Indices: 11923389--11923426 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11923379 ATCGATATAT
11923389 GAAAATATGTTTTGTA
1 GAAAATATGTTTTGTA
**
11923405 TCAAATATG-TTTGTA
1 GAAAATATGTTTTGTA
11923420 GAAAATA
1 GAAAATA
11923427 CATGAATACT
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (16 bp):
GAAAATATGTTTTGTA
Found at i:11934147 original size:19 final size:18
Alignment explanation
Indices: 11934126--11934161 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11934116 ATGTTTTTCT
*
11934126 TTTTTCATTTTCATTTTA
1 TTTTTCAATTTCATTTTA
*
11934144 TTTTTCAATTTCAATTTA
1 TTTTTCAATTTCATTTTA
11934162 ATTCATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTCAATTTCATTTTA
Found at i:11934218 original size:19 final size:19
Alignment explanation
Indices: 11934167--11934229 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
11934157 ATTTAATTCA
*
11934167 TTTTATTTTATTTATTTTAT
1 TTTTAATTT-TTTATTTTAT
*
11934187 TATCTTAAGTTTTTATTTTAT
1 T-T-TTAATTTTTTATTTTAT
*
11934208 TTTTAATTTTTTATTTAAT
1 TTTTAATTTTTTATTTTAT
11934227 TTT
1 TTT
11934230 ATCGATTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 18 0.49
20 2 0.05
21 12 0.32
22 5 0.14
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTAATTTTTTATTTTAT
Found at i:11938188 original size:11 final size:10
Alignment explanation
Indices: 11938172--11938225 Score: 63
Period size: 10 Copynumber: 5.2 Consensus size: 10
11938162 AATCTTCTTG
*
11938172 AAAAATGAAA
1 AAAAAAGAAA
*
11938182 AAAAAATAAGA
1 AAAAAAGAA-A
*
11938193 AAGAAAGAAA
1 AAAAAAGAAA
11938203 AAAAAAGAAA
1 AAAAAAGAAA
11938213 AAAAGAAGAAA
1 AAAA-AAGAAA
11938224 AA
1 AA
11938226 GAATTGTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
10 21 0.57
11 16 0.43
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:11938205 original size:18 final size:17
Alignment explanation
Indices: 11938178--11938228 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
11938168 CTTGAAAAAT
11938178 GAAA-AAAAAATAAGAAA
1 GAAAGAAAAAA-AAGAAA
11938195 GAAAGAAAAAAAAAGAAA
1 GAAAG-AAAAAAAAGAAA
* *
11938213 AAAAGAAGAAAAAGAA
1 GAAAGAAAAAAAAGAA
11938229 TTGTTGGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 14 0.47
18 10 0.33
19 6 0.20
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (17 bp):
GAAAGAAAAAAAAGAAA
Found at i:11938207 original size:22 final size:21
Alignment explanation
Indices: 11938178--11938225 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11938168 CTTGAAAAAT
* *
11938178 GAAAAAAAAA-TAAGAAAGAAA
1 GAAAAAAAAAGAAAAAAAG-AA
11938199 GAAAAAAAAAGAAAAAAAGAA
1 GAAAAAAAAAGAAAAAAAGAA
11938220 GAAAAA
1 GAAAAA
11938226 GAATTGTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (21 bp):
GAAAAAAAAAGAAAAAAAGAA
Found at i:11938535 original size:10 final size:9
Alignment explanation
Indices: 11938515--11938560 Score: 74
Period size: 9 Copynumber: 5.0 Consensus size: 9
11938505 GTAAGGTGTG
11938515 AAAAAGAAA
1 AAAAAGAAA
11938524 AAAAAGACAA
1 AAAAAGA-AA
11938534 AAAAAGAAA
1 AAAAAGAAA
*
11938543 AAAAAGAGA
1 AAAAAGAAA
11938552 AAAAAGAAA
1 AAAAAGAAA
11938561 TACTTAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 25 0.74
10 9 0.26
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:11938536 original size:18 final size:19
Alignment explanation
Indices: 11938515--11938560 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
11938505 GTAAGGTGTG
11938515 AAAAAGAAAAAAAAGACAA
1 AAAAAGAAAAAAAAGACAA
*
11938534 AAAAAGAAAAAAAAGA-GA
1 AAAAAGAAAAAAAAGACAA
11938552 AAAAAGAAA
1 AAAAAGAAA
11938561 TACTTAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAAAAGACAA
Found at i:11939488 original size:114 final size:115
Alignment explanation
Indices: 11939280--11939494 Score: 254
Period size: 114 Copynumber: 1.9 Consensus size: 115
11939270 CACTTATCAC
* * * * ** *
11939280 TCATTTGATCTCGGCTTAGTCCAAATCATCTTTCAAATTTATGACATCATCCCGATCATTTATCT
1 TCATTTGATCTCAGCTCAGTCCAAATCATCTTTCAAATCTATGAAATCATCCAAATCATTCATCT
** * *
11939345 ACGACCTCGACTTGGTCTTGGTCGCTTTCAGACTTGCAGCATCATTCCAA
66 ACGACCTCGACTCAGTCTTGGTCACTTTCAAACTTGCAGCATCATTCCAA
* * * *
11939395 TCATTTGATCTCAGCTCAGTCCAATTCATTTTTCTAA-CT-TGCAAATCATCCAAATCATTCATT
1 TCATTTGATCTCAGCTCAGTCCAAATCATCTTTCAAATCTATG-AAATCATCCAAATCATTCATC
* *
11939458 TATGACCTCGACTCAGTCTTGGTCATTTTCAAACTTG
65 TACGACCTCGACTCAGTCTTGGTCACTTTCAAACTTG
11939495 TGGCATTGTC
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
113 2 0.02
114 48 0.59
115 32 0.39
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (115 bp):
TCATTTGATCTCAGCTCAGTCCAAATCATCTTTCAAATCTATGAAATCATCCAAATCATTCATCT
ACGACCTCGACTCAGTCTTGGTCACTTTCAAACTTGCAGCATCATTCCAA
Found at i:11939908 original size:10 final size:10
Alignment explanation
Indices: 11939893--11939922 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11939883 GCATACCATA
11939893 TTATTATAGT
1 TTATTATAGT
11939903 TTATTATAGT
1 TTATTATAGT
*
11939913 TTAGTATAGT
1 TTATTATAGT
11939923 ATAGTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (10 bp):
TTATTATAGT
Found at i:11939925 original size:15 final size:15
Alignment explanation
Indices: 11939907--11939940 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11939897 TATAGTTTAT
*
11939907 TATAGTTTAGTATAG
1 TATAGTTTACTATAG
11939922 TATAGTTTACTATAG
1 TATAGTTTACTATAG
11939937 TATA
1 TATA
11939941 ATATAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (15 bp):
TATAGTTTACTATAG
Found at i:11939992 original size:3 final size:3
Alignment explanation
Indices: 11939975--11940027 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
11939965 ACCACATTAC
* * *
11939975 ATT A-T ATT A-T ATT ATT ATC ATT -GT ACT ATT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11940019 ATT ATT ATT
1 ATT ATT ATT
11940028 GTTGTTTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
2 7 0.17
3 34 0.83
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:11940966 original size:19 final size:19
Alignment explanation
Indices: 11940915--11940992 Score: 77
Period size: 19 Copynumber: 3.9 Consensus size: 19
11940905 TCCAATTTCA
*
11940915 TTTTATTTTATTTATTTTAT
1 TTTTAATTT-TTTATTTTAT
*
11940935 TATCTTAACTTTTTATTTTAT
1 T-T-TTAATTTTTTATTTTAT
*
11940956 TTTTAATTTTTTATTTAAT
1 TTTTAATTTTTTATTTTAT
11940975 TTTATCAA-TTTTTATTTT
1 TTT-T-AATTTTTTATTTT
11940993 TTAGAAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 18 0.37
20 12 0.24
21 14 0.29
22 5 0.10
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTAATTTTTTATTTTAT
Found at i:11945580 original size:25 final size:25
Alignment explanation
Indices: 11945550--11945600 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
11945540 CAAGTATAGT
11945550 AACATTTATAAAATCACCTCTTAAC
1 AACATTTATAAAATCACCTCTTAAC
11945575 AACATTTATAAAATCACCTCTTAAC
1 AACATTTATAAAATCACCTCTTAAC
11945600 A
1 A
11945601 CATCTTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (25 bp):
AACATTTATAAAATCACCTCTTAAC
Found at i:11948621 original size:18 final size:18
Alignment explanation
Indices: 11948600--11948639 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11948590 TTAACATTAG
11948600 TAATCTCTTTAATATTTA
1 TAATCTCTTTAATATTTA
* *
11948618 TAATTTGTTTAATATTTA
1 TAATCTCTTTAATATTTA
11948636 TAAT
1 TAAT
11948640 ATTTAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (18 bp):
TAATCTCTTTAATATTTA
Found at i:11948858 original size:12 final size:12
Alignment explanation
Indices: 11948841--11948866 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11948831 TAAACGGATA
11948841 ATAAATTTAAAT
1 ATAAATTTAAAT
11948853 ATAAATTTAAAT
1 ATAAATTTAAAT
11948865 AT
1 AT
11948867 TTATTATTAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAAATTTAAAT
Found at i:11955220 original size:26 final size:26
Alignment explanation
Indices: 11955191--11955240 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
11955181 AAAAAAAGAA
11955191 GCAAATGCATTTATGGCACAAATAAC
1 GCAAATGCATTTATGGCACAAATAAC
*
11955217 GCAAATGCATTTATGGCATAAATA
1 GCAAATGCATTTATGGCACAAATA
11955241 TTACTTGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (26 bp):
GCAAATGCATTTATGGCACAAATAAC
Found at i:11960657 original size:10 final size:10
Alignment explanation
Indices: 11960620--11960662 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
11960610 TAATCATAAA
11960620 TATAATAATT
1 TATAATAATT
*
11960630 TAT-ATAAAT
1 TATAATAATT
11960639 TATTAAATAATT
1 TA-T-AATAATT
11960651 TATAATAATT
1 TATAATAATT
11960661 TA
1 TA
11960663 CAGACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
9 7 0.25
10 13 0.46
11 1 0.04
12 7 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TATAATAATT
Found at i:11971650 original size:3 final size:3
Alignment explanation
Indices: 11971642--11971685 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
11971632 GGTAATGTTT
11971642 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATTA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA AT
11971686 CTATAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11973327 original size:21 final size:20
Alignment explanation
Indices: 11973303--11973346 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
11973293 TTTAATAAAT
*
11973303 TAACAAATTTTGTTGTGACAA
1 TAACAAA-TTTATTGTGACAA
*
11973324 TAACTAATTTATTGTGACAA
1 TAACAAATTTATTGTGACAA
11973344 TAA
1 TAA
11973347 TTATTACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (20 bp):
TAACAAATTTATTGTGACAA
Found at i:11975390 original size:14 final size:14
Alignment explanation
Indices: 11975373--11975426 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
11975363 ATTTTACTTA
11975373 AAAAAAAGAAAAAT
1 AAAAAAAGAAAAAT
*
11975387 AAAAGCAA-AAAAAT
1 AAAA-AAAGAAAAAT
* *
11975401 -AAAAAACAAAAAG
1 AAAAAAAGAAAAAT
11975414 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
11975427 ACAAACTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 2 0.06
13 8 0.24
14 21 0.64
15 2 0.06
ACGTcount: A:0.85, C:0.04, G:0.07, T:0.04
Consensus pattern (14 bp):
AAAAAAAGAAAAAT
Found at i:11975396 original size:11 final size:10
Alignment explanation
Indices: 11975372--11975443 Score: 60
Period size: 11 Copynumber: 7.0 Consensus size: 10
11975362 TATTTTACTT
11975372 AAAAAAAAGA
1 AAAAAAAAGA
11975382 AAAATAAAAGCA
1 AAAA-AAAAG-A
11975394 AAAAAATAA-A
1 AAAAAA-AAGA
11975404 AAACAAAAAG-
1 AAA-AAAAAGA
11975414 -AAAAAAAGA
1 AAAAAAAAGA
**
11975423 AAAAACAAACT
1 AAAAA-AAAGA
11975434 AAAAAAAAGA
1 AAAAAAAAGA
11975444 TGATTTAAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
8 6 0.12
9 2 0.04
10 17 0.34
11 18 0.36
12 7 0.14
ACGTcount: A:0.83, C:0.06, G:0.07, T:0.04
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:11975398 original size:21 final size:19
Alignment explanation
Indices: 11975372--11975443 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 19
11975362 TATTTTACTT
11975372 AAAAAAAAGAAAAATAAAAGC
1 AAAAAAAAGAAAAA-AAAA-C
11975393 AAAAAAATA-AAAAACAAAA-
1 AAAAAAA-AGAAAAA-AAAAC
11975412 AGAAAAAAAGAAAAAACAAAC
1 A-AAAAAAAGAAAAAA-AAAC
11975433 TAAAAAAAAGA
1 -AAAAAAAAGA
11975444 TGATTTAAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
19 3 0.07
20 14 0.32
21 25 0.57
22 2 0.05
ACGTcount: A:0.83, C:0.06, G:0.07, T:0.04
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAAAAC
Found at i:11975437 original size:20 final size:19
Alignment explanation
Indices: 11975373--11975440 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
11975363 ATTTTACTTA
11975373 AAAAAAAGAAAAATA-AAAGC
1 AAAAAAAGAAAAA-ACAAA-C
* *
11975393 AAAAAAATAAAAAACAAAAAG
1 AAAAAAAGAAAAAAC--AAAC
11975414 AAAAAAAGAAAAAACAAAC
1 AAAAAAAGAAAAAACAAAC
11975433 TAAAAAAA
1 -AAAAAAA
11975441 AGATGATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.10
20 19 0.47
21 14 0.35
22 3 0.08
ACGTcount: A:0.84, C:0.06, G:0.06, T:0.04
Consensus pattern (19 bp):
AAAAAAAGAAAAAACAAAC
Found at i:11976784 original size:34 final size:33
Alignment explanation
Indices: 11976712--11976803 Score: 105
Period size: 35 Copynumber: 2.7 Consensus size: 33
11976702 GACTGATAGA
*
11976712 TCAATCCTAGTCATTTTTATTTTTTGACTCGTAAT
1 TCAATCCTAGTCATTTTT-TTTTCTGACTCG-AAT
*
11976747 TCAATCCTAGTCATTTTTTTTTCTGACTTACG-GT
1 TCAATCCTAGTCATTTTTTTTTCTGAC-T-CGAAT
*
11976781 TCAATCTTAGTCATATTTTTTTT
1 TCAATCCTAGTCAT-TTTTTTTT
11976804 TAACTTGCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
34 22 0.43
35 27 0.53
36 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (33 bp):
TCAATCCTAGTCATTTTTTTTTCTGACTCGAAT
Found at i:11976845 original size:35 final size:34
Alignment explanation
Indices: 11976788--11976882 Score: 95
Period size: 35 Copynumber: 2.8 Consensus size: 34
11976778 GGTTCAATCT
* *
11976788 TAGTCATATTT-TTTTTTAACTTGCATTTCTGTCCC
1 TAGTCATATTTATTCTTCAACTTGCATTTC-G-CCC
* *
11976823 TA-TTATATTTATTCTTCAACTTGCGATTTCGCTC
1 TAGTCATATTTATTCTTCAACTTGC-ATTTCGCCC
**
11976857 TAGTCATATTTATTCTTTGACTTGCA
1 TAGTCATATTTATTCTTCAACTTGCA
11976883 GTTCAATCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
34 12 0.24
35 33 0.66
36 5 0.10
ACGTcount: A:0.20, C:0.19, G:0.09, T:0.52
Consensus pattern (34 bp):
TAGTCATATTTATTCTTCAACTTGCATTTCGCCC
Found at i:11976959 original size:35 final size:34
Alignment explanation
Indices: 11976920--11977006 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 34
11976910 GACTTGTGAC
11976920 TCAATCTCAGTTATTTTTATTCTTTGACTCACAAT
1 TCAATC-CAGTTATTTTTATTCTTTGACTCACAAT
* * * * *
11976955 TCAATCCTAATTATCTTTATTGTTTGACTCGCTAT
1 TCAATCC-AGTTATTTTTATTCTTTGACTCACAAT
11976990 TCAATCCCAGTTATTTT
1 TCAAT-CCAGTTATTTT
11977007 CATTTCCCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 1 0.02
35 40 0.93
36 2 0.05
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (34 bp):
TCAATCCAGTTATTTTTATTCTTTGACTCACAAT
Found at i:11977452 original size:24 final size:24
Alignment explanation
Indices: 11977433--11977479 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
11977423 ATAAAAATAC
*
11977433 AAAA-AACAACAA-AAACAAAAAA
1 AAAACAACAACAATAAAAAAAAAA
11977455 AAAACTAACAACAATAAAAAAAAAA
1 AAAAC-AACAACAATAAAAAAAAAA
11977480 TGGCTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
24 8 0.38
25 9 0.43
ACGTcount: A:0.83, C:0.13, G:0.00, T:0.04
Consensus pattern (24 bp):
AAAACAACAACAATAAAAAAAAAA
Found at i:11977454 original size:18 final size:19
Alignment explanation
Indices: 11977433--11977477 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
11977423 ATAAAAATAC
11977433 AAAAAACAAC-AAAAACAA-
1 AAAAAA-AACTAAAAACAAT
*
11977451 AAAAAAAACTAACAACAAT
1 AAAAAAAACTAAAAACAAT
11977470 AAAAAAAA
1 AAAAAAAA
11977478 AATGGCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.12
18 13 0.54
19 8 0.33
ACGTcount: A:0.82, C:0.13, G:0.00, T:0.04
Consensus pattern (19 bp):
AAAAAAAACTAAAAACAAT
Found at i:11977464 original size:21 final size:20
Alignment explanation
Indices: 11977433--11977479 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
11977423 ATAAAAATAC
11977433 AAAAAACAACAAAAACAAAA
1 AAAAAACAACAAAAACAAAA
* *
11977453 AAAAAACTAACAACAATAAAA
1 AAAAAAC-AACAAAAACAAAA
11977474 AAAAAA
1 AAAAAA
11977480 TGGCTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.83, C:0.13, G:0.00, T:0.04
Consensus pattern (20 bp):
AAAAAACAACAAAAACAAAA
Found at i:11979425 original size:3 final size:3
Alignment explanation
Indices: 11979417--11979479 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
11979407 TTGCAAAATA
11979417 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11979465 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
11979480 AAATTTCATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11982917 original size:19 final size:19
Alignment explanation
Indices: 11982893--11982929 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11982883 TATACTAAAC
11982893 AAACTTTTTTCAAAATTTA
1 AAACTTTTTTCAAAATTTA
11982912 AAACTTTTTTCAAAATTT
1 AAACTTTTTTCAAAATTT
11982930 TTTTCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (19 bp):
AAACTTTTTTCAAAATTTA
Found at i:11984148 original size:21 final size:21
Alignment explanation
Indices: 11984124--11984206 Score: 60
Period size: 26 Copynumber: 3.6 Consensus size: 21
11984114 TATTTATATA
11984124 TATTTAATAAATTAATTTTTT
1 TATTTAATAAATTAATTTTTT
*
11984145 TATTTTAATAATATAAATTTTATTTT
1 TA-TTTAATAA-ATTAA--TT-TTTT
*
11984171 TAATTTATTAAAATTAATTTATTT
1 T-ATTTAAT-AAATTAATTT-TTT
11984195 GTATTTAA-AAAT
1 -TATTTAATAAAT
11984207 ATATATTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
21 2 0.04
22 12 0.24
23 5 0.10
24 10 0.20
25 3 0.06
26 14 0.29
27 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
TATTTAATAAATTAATTTTTT
Found at i:11985538 original size:32 final size:32
Alignment explanation
Indices: 11985470--11985538 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
11985460 CATTAATTTT
* * * * *
11985470 TAAAAATTAAAGATTATTTTGTTTGATATTAT
1 TAAAAATCAAACATTATTTTGTTTGAAAGTAC
11985502 TAAAAATCAAACATTATTTTGTTTGAAAGTAC
1 TAAAAATCAAACATTATTTTGTTTGAAAGTAC
11985534 TAAAA
1 TAAAA
11985539 TAACTATGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (32 bp):
TAAAAATCAAACATTATTTTGTTTGAAAGTAC
Found at i:11987843 original size:18 final size:17
Alignment explanation
Indices: 11987822--11987873 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
11987812 TGAAATTATA
11987822 TTTTTTCTAATTT-ATT
1 TTTTTTCTAATTTAATT
*
11987838 GTTTTTTCTCATTTAATTT
1 -TTTTTTCTAATTTAA-TT
11987857 TTTTTTCT--TTTAATT
1 TTTTTTCTAATTTAATT
11987872 TT
1 TT
11987874 AATGTTTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 4 0.12
16 5 0.16
17 12 0.38
18 9 0.28
19 2 0.06
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTTTCTAATTTAATT
Found at i:11987844 original size:17 final size:18
Alignment explanation
Indices: 11987822--11987864 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
11987812 TGAAATTATA
11987822 TTTTTTCTAATTT-ATTG
1 TTTTTTCTAATTTAATTG
* *
11987839 TTTTTTCTCATTTAATTT
1 TTTTTTCTAATTTAATTG
11987857 TTTTTTCT
1 TTTTTTCT
11987865 TTTAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTCTAATTTAATTG
Found at i:11987858 original size:16 final size:16
Alignment explanation
Indices: 11987822--11987873 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
11987812 TGAAATTATA
* *
11987822 TTTTTTCTAATTTATT
1 TTTTTTCTCATTTAAT
11987838 GTTTTTTCTCATTTAAT
1 -TTTTTTCTCATTTAAT
* *
11987855 TTTTTTTTCTTTTAAT
1 TTTTTTCTCATTTAAT
11987871 TTT
1 TTT
11987874 AATGTTTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTTTCTCATTTAAT
Found at i:11993885 original size:9 final size:9
Alignment explanation
Indices: 11993871--11993896 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11993861 AAGCTTTGGT
11993871 TTCTATTTC
1 TTCTATTTC
11993880 TTCTATTTC
1 TTCTATTTC
11993889 TTCTATTT
1 TTCTATTT
11993897 TCTCCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (9 bp):
TTCTATTTC
Found at i:11996181 original size:26 final size:26
Alignment explanation
Indices: 11996152--11996201 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
11996142 TAGTTTCTTC
11996152 TAAGCAAACATTTCTTTTTCATGTTT
1 TAAGCAAACATTTCTTTTTCATGTTT
11996178 TAAGCAAACATTTCTTTTTCATGT
1 TAAGCAAACATTTCTTTTTCATGT
11996202 AGGCAGTGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (26 bp):
TAAGCAAACATTTCTTTTTCATGTTT
Found at i:12001189 original size:39 final size:39
Alignment explanation
Indices: 12001135--12001213 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
12001125 GCTTGGTACA
*
12001135 TAGTTTCTTTTATTATTCTTTATCAACATTTAGATATTT
1 TAGTTTCTTTTATTATTCTTTATCAACATTTAGACATTT
12001174 TAGTTTCTTTTATTATTCTTTATCAACATTTAGACATTT
1 TAGTTTCTTTTATTATTCTTTATCAACATTTAGACATTT
12001213 T
1 T
12001214 TCCTTTTCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.11, G:0.05, T:0.58
Consensus pattern (39 bp):
TAGTTTCTTTTATTATTCTTTATCAACATTTAGACATTT
Found at i:12011330 original size:25 final size:26
Alignment explanation
Indices: 12011301--12011356 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
12011291 GTTATATATC
*
12011301 TTCAC-GTGTATTTGGTACTATTTAT
1 TTCACAGTGTATTCGGTACTATTTAT
* *
12011326 TTCACATGTGTGTTCGGTACTATTTTT
1 TTCACA-GTGTATTCGGTACTATTTAT
12011353 TTCA
1 TTCA
12011357 AAACTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
27 21 0.81
ACGTcount: A:0.18, C:0.14, G:0.16, T:0.52
Consensus pattern (26 bp):
TTCACAGTGTATTCGGTACTATTTAT
Found at i:12016095 original size:17 final size:17
Alignment explanation
Indices: 12016066--12016116 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
12016056 ATACTTCGCT
* *
12016066 TGAAAGAAAAAAATATAA
1 TGAAAAAAAAAAAGA-AA
12016084 -GAAAAAAAAAAAGAAA
1 TGAAAAAAAAAAAGAAA
12016100 TGAAAAAAAAAAGAGAA
1 TGAAAAAAAAAA-AGAA
12016117 CTCAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 23 0.79
18 4 0.14
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (17 bp):
TGAAAAAAAAAAAGAAA
Found at i:12016896 original size:3 final size:3
Alignment explanation
Indices: 12016888--12016937 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
12016878 TATATTTAGT
12016888 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12016936 TA
1 TA
12016938 TAAATTCAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:12020752 original size:13 final size:13
Alignment explanation
Indices: 12020734--12020759 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12020724 TTCATATGAA
12020734 GAGATAACCATGT
1 GAGATAACCATGT
12020747 GAGATAACCATGT
1 GAGATAACCATGT
12020760 ATTGAGAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
GAGATAACCATGT
Found at i:12025743 original size:11 final size:12
Alignment explanation
Indices: 12025716--12025741 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12025706 ATTATATAAA
12025716 AAATTATTTTTT
1 AAATTATTTTTT
12025728 AAATTATTTTTT
1 AAATTATTTTTT
12025740 AA
1 AA
12025742 TTTTTTAATT
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:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AAATTATTTTTT
Found at i:12025787 original size:23 final size:23
Alignment explanation
Indices: 12025761--12025807 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
12025751 TATATATATT
*
12025761 TATATTTAAAAAATAATATTTTA
1 TATATTAAAAAAATAATATTTTA
12025784 TATATTAAAAAAATAATATTTTA
1 TATATTAAAAAAATAATATTTTA
12025807 T
1 T
12025808 TAATTTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATATTAAAAAAATAATATTTTA
Found at i:12026601 original size:22 final size:22
Alignment explanation
Indices: 12026576--12026619 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
12026566 ATTTTTTTTC
12026576 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
12026598 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
12026620 TAAATATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGGGATACAAATA
Found at i:12039412 original size:9 final size:9
Alignment explanation
Indices: 12039384--12039413 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
12039374 TACCTTGATC
12039384 TTTGTTTTG
1 TTTGTTTTG
*
12039393 TATGTTTTG
1 TTTGTTTTG
12039402 TTTGTTTTG
1 TTTGTTTTG
12039411 TTT
1 TTT
12039414 TGCTTAGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.03, C:0.00, G:0.20, T:0.77
Consensus pattern (9 bp):
TTTGTTTTG
Found at i:12040122 original size:31 final size:33
Alignment explanation
Indices: 12040086--12040159 Score: 118
Period size: 31 Copynumber: 2.3 Consensus size: 33
12040076 GATACGCAAG
12040086 AAAGAAAAAAAAAAGCC-AAAATGGCTA-AAGA
1 AAAGAAAAAAAAAAGCCAAAAATGGCTAGAAGA
*
12040117 AAAGAAAAAAAAAAGCCAAAAATGGCTAGATGA
1 AAAGAAAAAAAAAAGCCAAAAATGGCTAGAAGA
12040150 AAA-AAAAAAA
1 AAAGAAAAAAA
12040160 GGTGCTTCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
31 17 0.43
32 17 0.43
33 6 0.15
ACGTcount: A:0.70, C:0.08, G:0.15, T:0.07
Consensus pattern (33 bp):
AAAGAAAAAAAAAAGCCAAAAATGGCTAGAAGA
Found at i:12041526 original size:145 final size:145
Alignment explanation
Indices: 12041249--12041528 Score: 429
Period size: 145 Copynumber: 1.9 Consensus size: 145
12041239 GTTTTTAGTT
* * *
12041249 TTTGGTTAGATGATTCAGCTAGATCTCCAAGCTCTTAAAAGAGATGGCATGGGTTTGCAAGGAAA
1 TTTGGTTAGATGATTCAACTAGATCTCCAAGCTCTTAAAAGAGATGGCATGGGCTTGCAAAGAAA
** * *
12041314 GTTCTCGGGTTTAGATTACTTGTGATAGAGTTTTTTCATGGTCAGATTCTTCCTTTTGGGTTAAA
66 GTTCTCAAGTTTAGATTACTTATGATAGAGTTTTTTCATGGTCAGATTCTTCCTTTTAGGTTAAA
12041379 GTTTCTAGTGAGCTC
131 GTTTCTAGTGAGCTC
* *
12041394 TTTGGTTAGATGATTCAACTAGATCTTCAAGCTCTTAAGAGAGATGGCATGGGCTTGCAAAGAAA
1 TTTGGTTAGATGATTCAACTAGATCTCCAAGCTCTTAAAAGAGATGGCATGGGCTTGCAAAGAAA
* *
12041459 GCTT-TCAAGTTTAGATTACTTATGATAGAGCTTTTTT-ATGGTCAGATTCTTCTTTTTAGGTTG
66 G-TTCTCAAGTTTAGATTACTTATGATAGAG-TTTTTTCATGGTCAGATTCTTCCTTTTAGGTTA
12041522 AAGTTTC
129 AAGTTTC
12041529 CTAATTAGGG
Statistics
Matches: 122, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
145 114 0.93
146 8 0.07
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (145 bp):
TTTGGTTAGATGATTCAACTAGATCTCCAAGCTCTTAAAAGAGATGGCATGGGCTTGCAAAGAAA
GTTCTCAAGTTTAGATTACTTATGATAGAGTTTTTTCATGGTCAGATTCTTCCTTTTAGGTTAAA
GTTTCTAGTGAGCTC
Found at i:12044731 original size:3 final size:3
Alignment explanation
Indices: 12044714--12044765 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
12044704 AAGAAAGAAA
* * *
12044714 AAT AAC AAT -AT AAT AAT AGT AAT AAT AAT AAT AAT CAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12044761 AAT AA
1 AAT AA
12044766 ACATAATTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12045018 original size:65 final size:65
Alignment explanation
Indices: 12044944--12045114 Score: 195
Period size: 65 Copynumber: 2.6 Consensus size: 65
12044934 ACTATGAAAC
* * * * **
12044944 AAAAAATAAAATGATTTGAACTGAACTGAGATCAAAATAGGTAACCAGGATTGAACCATCAGTC-
1 AAAAAATAAAATGATATGGACT-AACTGAGATCAAAACAAGTAACCAAAATTGAACCATCAGTCT
12045008 G
65 G
** * *
12045009 AAAAAATAAAATGATATGGACTATGTCGAGATCAAAACAAGTGACCAAAATTGAACCATTAGTCT
1 AAAAAATAAAATGATATGGACTAACT-GAGATCAAAACAAGTAACCAAAATTGAACCATCAGTCT
12045074 G
65 G
*
12045075 --AAAATAAAATGATATGGACTAAGTTGAGATCAAAACAAGT
1 AAAAAATAAAATGATATGGACTAA-CTGAGATCAAAACAAGT
12045115 GACTAAGATT
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
64 38 0.42
65 52 0.57
66 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (65 bp):
AAAAAATAAAATGATATGGACTAACTGAGATCAAAACAAGTAACCAAAATTGAACCATCAGTCTG
Found at i:12045094 original size:64 final size:64
Alignment explanation
Indices: 12044945--12045127 Score: 208
Period size: 64 Copynumber: 2.8 Consensus size: 64
12044935 CTATGAAACA
* * * * * * **
12044945 AAAAATAAAATGATTTGAACTGAACT-GAGATCAAAATAGGTAACCAGGATTGAACCATCAGTCG
1 AAAAATAAAATGATATGGACT-AAGTCGAGATCAAAACAAGTGACCAAAATTGAACCATCAGTCG
* *
12045009 AAAAAATAAAATGATATGGACTATGTCGAGATCAAAACAAGTGACCAAAATTGAACCATTAGTCT
1 -AAAAATAAAATGATATGGACTAAGTCGAGATCAAAACAAGTGACCAAAATTGAACCATCAGTC-
12045074 G
64 G
* * *
12045075 -AAAATAAAATGATATGGACTAAGTTGAGATCAAAACAAGTGACTAAGATTGAA
1 AAAAATAAAATGATATGGACTAAGTCGAGATCAAAACAAGTGACCAAAATTGAA
12045128 TTTCTAATTG
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
64 51 0.50
65 50 0.49
66 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (64 bp):
AAAAATAAAATGATATGGACTAAGTCGAGATCAAAACAAGTGACCAAAATTGAACCATCAGTCG
Found at i:12045326 original size:34 final size:34
Alignment explanation
Indices: 12045262--12045332 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
12045252 AAAAATCGCA
* * *
12045262 AAGATTTAAGATTCGTAAATATTTTCAGATTTGT
1 AAGATTTAAGATTCATAAAGATTCTCAGATTTGT
*
12045296 AAGATTTCAAGTTTCATAAAGATTCT-AGATTTGT
1 AAGATTT-AAGATTCATAAAGATTCTCAGATTTGT
12045330 AAG
1 AAG
12045333 GTTCAGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 18 0.56
35 14 0.44
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (34 bp):
AAGATTTAAGATTCATAAAGATTCTCAGATTTGT
Found at i:12045437 original size:84 final size:85
Alignment explanation
Indices: 12045344--12045505 Score: 227
Period size: 84 Copynumber: 1.9 Consensus size: 85
12045334 TTCAGATTTG
*** ** *
12045344 CAAGGACTTTTAGATTTGTAAGAATGGAAAATTCACAAGATTTCAAGTTTCGTAAAAGTTCTA-A
1 CAAGGACTTTTAGATTCACAAGAACAGAAAATTCACAAGATTTCAAGTTTCGCAAAAGTTCTAGA
12045408 ATCGTAAAGGTTTAAGTTCA
66 ATCGTAAAGGTTTAAGTTCA
* * *
12045428 CAAGGACTTTTAGATTCACAAGAACAGAAAATTCATAAGATTTCAAGTTTTGCAAAGGTTCTAGA
1 CAAGGACTTTTAGATTCACAAGAACAGAAAATTCACAAGATTTCAAGTTTCGCAAAAGTTCTAGA
*
12045493 TTCGTAAAGGTTT
66 ATCGTAAAGGTTT
12045506 TATAACAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
84 54 0.81
85 13 0.19
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (85 bp):
CAAGGACTTTTAGATTCACAAGAACAGAAAATTCACAAGATTTCAAGTTTCGCAAAAGTTCTAGA
ATCGTAAAGGTTTAAGTTCA
Found at i:12045686 original size:55 final size:54
Alignment explanation
Indices: 12045589--12045802 Score: 155
Period size: 55 Copynumber: 3.9 Consensus size: 54
12045579 TTGAATCGTG
* * * * *
12045589 AGTCAAAAAAATGATTTGGA-TCAAGTTGAAATCGAACAATCGAGATTGAATTGCT
1 AGTCAAAAAAATGATCTGGACT-GAGCTGAGATCAAACAATCGAGATTGAA-TGCT
* * *
12045644 AGTCAAAAAAATGATCTGGACTGAGCTGAGATCAAACGATCGAGA-TAAATCGCA
1 AGTCAAAAAAATGATCTGGACTGAGCTGAGATCAAACAATCGAGATTGAAT-GCT
* * * * * * *
12045698 AGTTAAGAAAATGATCTGGATTGAGCTGAGATCGAACAATCTAGATCGAA-CCAT
1 AGTCAAAAAAATGATCTGGACTGAGCTGAGATCAAACAATCGAGATTGAATGC-T
* * ** * * * *
12045752 AAGTCAAGAAAATGACCTAAACTCAGTTGAGATCAAACGATCAAGATTGAA
1 -AGTCAAAAAAATGATCTGGACTGAGCTGAGATCAAACAATCGAGATTGAA
12045803 CCACAAATCA
Statistics
Matches: 125, Mismatches: 29, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
53 2 0.02
54 44 0.35
55 78 0.62
56 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (54 bp):
AGTCAAAAAAATGATCTGGACTGAGCTGAGATCAAACAATCGAGATTGAATGCT
Found at i:12045713 original size:54 final size:55
Alignment explanation
Indices: 12045644--12045808 Score: 161
Period size: 55 Copynumber: 3.0 Consensus size: 55
12045634 TTGAATTGCT
* * * *
12045644 AGTCAAAAAAATGATCTGGACTGAGCTGAGATCAAACGATCGAGAT-AAATCGCA
1 AGTCAAGAAAATGATCTGGACTGAGCTGAGATCAAACGATCAAGATCAAACCACA
* * * * * * *
12045698 AGTTAAGAAAATGATCTGGATTGAGCTGAGATCGAACAATCTAGATCGAACCATA
1 AGTCAAGAAAATGATCTGGACTGAGCTGAGATCAAACGATCAAGATCAAACCACA
* ** * * **
12045753 AGTCAAGAAAATGACCTAAACTCAGTTGAGATCAAACGATCAAGATTGAACCACA
1 AGTCAAGAAAATGATCTGGACTGAGCTGAGATCAAACGATCAAGATCAAACCACA
12045808 A
1 A
12045809 ATCAGGAATG
Statistics
Matches: 88, Mismatches: 22, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
54 40 0.45
55 48 0.55
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (55 bp):
AGTCAAGAAAATGATCTGGACTGAGCTGAGATCAAACGATCAAGATCAAACCACA
Found at i:12046138 original size:30 final size:30
Alignment explanation
Indices: 12046049--12046146 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
12046039 AAGATCGAGT
*
12046049 GATCAAGATTGAACCACAAGTCTAAAAAAC
1 GATCAAGATTGAACCACAAGTCTAGAAAAC
* * * *
12046079 TGATCGAGATTGAGCTA-AGGT-T-G--AAC
1 -GATCAAGATTGAACCACAAGTCTAGAAAAC
*
12046105 GATCAAGATTGAATCACAAGTCTAGAAAAC
1 GATCAAGATTGAACCACAAGTCTAGAAAAC
*
12046135 GATCTAGATTGA
1 GATCAAGATTGA
12046147 GCTAAGATCA
Statistics
Matches: 51, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
25 12 0.24
26 6 0.12
27 1 0.02
28 1 0.02
29 1 0.02
30 17 0.33
31 13 0.25
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.22
Consensus pattern (30 bp):
GATCAAGATTGAACCACAAGTCTAGAAAAC
Found at i:12046169 original size:55 final size:54
Alignment explanation
Indices: 12046050--12046209 Score: 196
Period size: 55 Copynumber: 2.9 Consensus size: 54
12046040 AGATCGAGTG
* * * * *
12046050 ATCAAGATTGAACCACAAGTCTAAAAAACTGATCGAGATTGAGCTAAGGTTGAACG
1 ATCAAGATTGAACCACAAGTCTAGAAAAC-GATCTAGATTGAGCTAA-GATCAACA
*
12046106 ATCAAGATTGAATCACAAGTCTAGAAAACGATCTAGATTGAGCTAAGATCAAGCA
1 ATCAAGATTGAACCACAAGTCTAGAAAACGATCTAGATTGAGCTAAGATCAA-CA
* * *
12046161 ATCGAGATTGAACCACAAGTCT-GAAAAATGATCTAGACTGAGCTAAGAT
1 ATCAAGATTGAACCACAAGTCTAG-AAAACGATCTAGATTGAGCTAAGAT
12046210 AAAAAATGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
54 5 0.05
55 60 0.65
56 27 0.29
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (54 bp):
ATCAAGATTGAACCACAAGTCTAGAAAACGATCTAGATTGAGCTAAGATCAACA
Found at i:12046971 original size:1 final size:1
Alignment explanation
Indices: 12046965--12047019 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
12046955 TCAGTTTAAG
* * * ** *
12046965 TTTTTTTTTCTCTTTTTTTTCTTACTTTTTTTGTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12047020 GCACATTCTT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.02, C:0.07, G:0.02, T:0.89
Consensus pattern (1 bp):
T
Found at i:12047335 original size:17 final size:17
Alignment explanation
Indices: 12047313--12047346 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12047303 CAATTTCTCA
*
12047313 TTTATTTTTTTCTTTTT
1 TTTATTTTTTTATTTTT
12047330 TTTATTTTTTTATTTTT
1 TTTATTTTTTTATTTTT
12047347 ATCATTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTATTTTTTTATTTTT
Found at i:12047337 original size:7 final size:8
Alignment explanation
Indices: 12047313--12047346 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
12047303 CAATTTCTCA
12047313 TTTATTTT
1 TTTATTTT
*
12047321 TTTCTTTTT
1 TTT-ATTTT
12047330 TTTATTTT
1 TTTATTTT
12047338 TTTATTTT
1 TTTATTTT
12047346 T
1 T
12047347 ATCATTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:12047353 original size:17 final size:17
Alignment explanation
Indices: 12047316--12047355 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12047306 TTTCTCATTT
* * *
12047316 ATTTTTTTCTTTTTTTT
1 ATTTTTTTATTTTTATC
12047333 ATTTTTTTATTTTTATC
1 ATTTTTTTATTTTTATC
12047350 ATTTTT
1 ATTTTT
12047356 CAAGAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (17 bp):
ATTTTTTTATTTTTATC
Found at i:12048933 original size:12 final size:12
Alignment explanation
Indices: 12048916--12048940 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12048906 GATCAAGTCA
12048916 AATCCTTCTACG
1 AATCCTTCTACG
12048928 AATCCTTCTACG
1 AATCCTTCTACG
12048940 A
1 A
12048941 TCTTATGCGA
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:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (12 bp):
AATCCTTCTACG
Found at i:12052233 original size:13 final size:13
Alignment explanation
Indices: 12052215--12052252 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
12052205 AAAATATAAT
12052215 TGCCACCTCATCA
1 TGCCACCTCATCA
12052228 TGCCACCTCATCA
1 TGCCACCTCATCA
*
12052241 TGCCACTTCATC
1 TGCCACCTCATC
12052253 TTCCTTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.21, C:0.45, G:0.08, T:0.26
Consensus pattern (13 bp):
TGCCACCTCATCA
Found at i:12053221 original size:23 final size:22
Alignment explanation
Indices: 12053179--12053231 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
12053169 TAAGCACAAT
*
12053179 TGAAAAATCACCAAATAAGCATA
1 TGAAAAATCACCAAACAAGCA-A
*
12053202 TGAAAAATCACCAAGCAAGCAA
1 TGAAAAATCACCAAACAAGCAA
*
12053224 TCAAAAAT
1 TGAAAAAT
12053232 AAAAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.57, C:0.19, G:0.09, T:0.15
Consensus pattern (22 bp):
TGAAAAATCACCAAACAAGCAA
Found at i:12053348 original size:9 final size:9
Alignment explanation
Indices: 12053336--12053379 Score: 79
Period size: 9 Copynumber: 4.9 Consensus size: 9
12053326 GATGGTGGTG
12053336 GTGGTGATA
1 GTGGTGATA
12053345 GTGGTGATA
1 GTGGTGATA
12053354 GTGGTGATA
1 GTGGTGATA
*
12053363 GTGGTGACA
1 GTGGTGATA
12053372 GTGGTGAT
1 GTGGTGAT
12053380 GGAAACAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.20, C:0.02, G:0.45, T:0.32
Consensus pattern (9 bp):
GTGGTGATA
Found at i:12053664 original size:63 final size:64
Alignment explanation
Indices: 12053499--12053699 Score: 180
Period size: 63 Copynumber: 3.2 Consensus size: 64
12053489 CAAATAAAAA
* * * * * *
12053499 GATCAATTACTACGTT-CATAGGTTTAGAAC-CTAGTAATTGATAATTATAATT-TTTTTCATAT
1 GATCAATTACTACGTTGCTTTGTTTTATAACAC-AGTAATTGATCATTATAATTATTTTACATAT
** * *
12053561 GATCAATTACTACGTTGCTTTGTTTTATAATGCCGTAATTGATCATTGTAATTATTTTACA-AT
1 GATCAATTACTACGTTGCTTTGTTTTATAACACAGTAATTGATCATTATAATTATTTTACATAT
* * ** * * *
12053624 TATTAATTACTGTGTTGCTTTGTTTTATAACACAAG-AATTGATCATTATAACTATTTTA-AAAC
1 GATCAATTACTACGTTGCTTTGTTTTATAACAC-AGTAATTGATCATTATAATTATTTTACATAT
*
12053687 AATCAATTACTAC
1 GATCAATTACTAC
12053700 ATTTATAGGC
Statistics
Matches: 111, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
62 17 0.15
63 86 0.77
64 8 0.07
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (64 bp):
GATCAATTACTACGTTGCTTTGTTTTATAACACAGTAATTGATCATTATAATTATTTTACATAT
Found at i:12054595 original size:43 final size:43
Alignment explanation
Indices: 12054534--12054618 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
12054524 TGATCTTTGG
* * *
12054534 TTAAGTTTGTGGCTAAATTAGTGGAGAGGTTATGTGAAAAGTT
1 TTAAGTTTGTGGCTAAATTAGTGGAGAAGATATGTAAAAAGTT
12054577 TTAAGTTTGTGGCTAAATTAGTGGAGAAGATATGTAAAAAGT
1 TTAAGTTTGTGGCTAAATTAGTGGAGAAGATATGTAAAAAGT
12054619 AAACTTATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.35
Consensus pattern (43 bp):
TTAAGTTTGTGGCTAAATTAGTGGAGAAGATATGTAAAAAGTT
Found at i:12056900 original size:12 final size:12
Alignment explanation
Indices: 12056885--12056909 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12056875 GTTTGTAAGA
12056885 TCTCTTGTATTT
1 TCTCTTGTATTT
12056897 TCTCTTGTATTT
1 TCTCTTGTATTT
12056909 T
1 T
12056910 ATAAAAACTT
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:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (12 bp):
TCTCTTGTATTT
Found at i:12058962 original size:18 final size:18
Alignment explanation
Indices: 12058919--12058962 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
12058909 TAAATTCTAG
12058919 CATGTATATAGCATTTAT
1 CATGTATATAGCATTTAT
** *
12058937 CACATATATGGCATTTAT
1 CATGTATATAGCATTTAT
12058955 CATGTATA
1 CATGTATA
12058963 AATCAATATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (18 bp):
CATGTATATAGCATTTAT
Found at i:12063659 original size:158 final size:159
Alignment explanation
Indices: 12063339--12063689 Score: 447
Period size: 158 Copynumber: 2.2 Consensus size: 159
12063329 TTAAATCAAG
* * **
12063339 CAAAATGAAAGGGAGAAATGCTTTTCTTGGTAAACAAAAACAATAATATCTTGTATCCTAGTGAT
1 CAAAATGAAAGGGAGAAATGCTTTTCTTGGTAAACAAAAACAATAATATCATGTATCCCAAAGAT
* *
12063404 AACAAACCATTTTGCTTGGCACTTTGTGAAAAGAACTTATACTTTTATGATAAAGGAAGTTTGAA
66 AACAAACCATTTTGCTTAGCACTTTGTGAAAAGAACATATACTTTTATGATAAAGGAAGTTTGAA
* * * * *
12063469 TGAGTTGAAGGACTAATTTTGAAAGCAAA
131 TGAGTTGAAAGACCAAATTTAAAACCAAA
* * * *
12063498 CAAAATGAATGGGTGAAATG-TTTTCTTTGGTAAACAAAAGCAATAATATCATGTATCCCAAAGG
1 CAAAATGAAAGGGAGAAATGCTTTTC-TTGGTAAACAAAAACAATAATATCATGTATCCCAAAGA
* ** * * *
12063562 TTACAAATTATTTTGGTTAGCA-TTTGTGAAAAGAACATATACTTTTATGATAGAGGTAGTTTGA
65 TAACAAACCATTTTGCTTAGCACTTTGTGAAAAGAACATATACTTTTATGATAAAGGAAGTTTGA
12063626 ATGAGTTGAAAGACCAAATTTAAAACCAAA
130 ATGAGTTGAAAGACCAAATTTAAAACCAAA
* * *
12063656 CAAAATAAAAAGGG-GAAATACTTTTTTTGGTAAA
1 CAAAAT-GAAAGGGAGAAATGCTTTTCTTGGTAAA
12063690 TGAGAGCAAC
Statistics
Matches: 164, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
158 88 0.54
159 76 0.46
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (159 bp):
CAAAATGAAAGGGAGAAATGCTTTTCTTGGTAAACAAAAACAATAATATCATGTATCCCAAAGAT
AACAAACCATTTTGCTTAGCACTTTGTGAAAAGAACATATACTTTTATGATAAAGGAAGTTTGAA
TGAGTTGAAAGACCAAATTTAAAACCAAA
Found at i:12063766 original size:158 final size:158
Alignment explanation
Indices: 12063339--12063758 Score: 395
Period size: 158 Copynumber: 2.7 Consensus size: 158
12063329 TTAAATCAAG
* * * * * ** *
12063339 CAAAATGAAAGGGAGAAATGCTTTTC-TTGGTAAACAAAAACAATAATATCTTGTAT-CC-TAGT
1 CAAAATAAAAGGGTGAAAT-CTTTTCTTTGGTAAACAAAAGCAACAATATCATACATCCCAAAG-
** *
12063401 GATAACAAACCATTTTGCTTGGCACTTTGTGAAAAGAACTTATACTTTTATGATAAAGGAAGTTT
64 GA-AACAAATTATTTTGCTTGGCA-TTTGTGAAAAGAACATATACTTTTATGATAAAGGAAGTTT
* * * * *
12063466 GAATGAGTTGAAGGACTAATTTTGAAAGCAAA
127 GAATGAGTTGAAAGACCAAATTTAAAACCAAA
* * * * ** *
12063498 CAAAATGAATGGGTGAAATGTTTTCTTTGGTAAACAAAAGCAATAATATCATGTATCCCAAAGGT
1 CAAAATAAAAGGGTGAAATCTTTTCTTTGGTAAACAAAAGCAACAATATCATACATCCCAAAGGA
* * * * *
12063563 TACAAATTATTTTGGTTAGCATTTGTGAAAAGAACATATACTTTTATGATAGAGGTAGTTTGAAT
66 AACAAATTATTTTGCTTGGCATTTGTGAAAAGAACATATACTTTTATGATAAAGGAAGTTTGAAT
12063628 GAGTTGAAAGACCAAATTTAAAACCAAA
131 GAGTTGAAAGACCAAATTTAAAACCAAA
** * * *
12063656 CAAAATAAAAAGGG-GAAATACTTTT-TTTGGTAAATGAGAGCAACGATATCTTACATCCCAATA
1 CAAAAT-AAAAGGGTGAAAT-CTTTTCTTTGGTAAACAAAAGCAACAATATCATACATCCCAA-A
* * *
12063719 -GAAAC-TATCTATTTTGCTTGGTATTTGTGAAAAGCACATA
63 GGAAACAAAT-TATTTTGCTTGGCATTTGTGAAAAGAACATA
12063759 GAATTTTACA
Statistics
Matches: 216, Mismatches: 38, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
157 2 0.01
158 138 0.64
159 71 0.33
160 3 0.01
161 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (158 bp):
CAAAATAAAAGGGTGAAATCTTTTCTTTGGTAAACAAAAGCAACAATATCATACATCCCAAAGGA
AACAAATTATTTTGCTTGGCATTTGTGAAAAGAACATATACTTTTATGATAAAGGAAGTTTGAAT
GAGTTGAAAGACCAAATTTAAAACCAAA
Found at i:12064162 original size:158 final size:158
Alignment explanation
Indices: 12063856--12064155 Score: 343
Period size: 158 Copynumber: 1.9 Consensus size: 158
12063846 CTAAAGCAAC
* * * * * ** *
12063856 GATAGAGGAAGTTTGAATGAGTTGAAGTACTAATTTTGAAAGCAAACAAAATGAATGGGTGAAAT
1 GATAGAGGAAGTTTGAATGAGTTGAAGGACCAAATTTGAAACCAAACAAAATAAAAAGGAGAAAT
* * * ** *
12063921 GCTTTCTTTGGTAAACAAAAGTAATAATATCATGTATCCCAAAGGTTACAAATTATTTTGCTTAG
66 ACTTTCTTTGGTAAACAAAAGCAACAATATCATACATCCCAAAGGTAACAAATTATTTTGCTTAG
*
12063986 CATTTGTGAAAAAAACATATACTTTTAT
131 CACTTGTGAAAAAAACATATACTTTTAT
*
12064014 GATAGAGGTAGTTTGAATGAGTTGAAGGACCAAATTTGAAACCAAACAAAATAAAAAGGAGAAAT
1 GATAGAGGAAGTTTGAATGAGTTGAAGGACCAAATTTGAAACCAAACAAAATAAAAAGGAGAAAT
* ** * * * *
12064079 ACTTTTTTTGGTAAATGAGAGCAACGATATCTTACATCCCAATAGG-AAC-TATCTATTTTGCTT
66 ACTTTCTTTGGTAAACAAAAGCAACAATATCATACATCCCAA-AGGTAACAAAT-TATTTTGCTT
* *
12064142 GGTACTTGTGAAAA
129 AGCACTTGTGAAAA
12064156 GCACATAAAA
Statistics
Matches: 115, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
157 2 0.02
158 110 0.96
159 3 0.03
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.31
Consensus pattern (158 bp):
GATAGAGGAAGTTTGAATGAGTTGAAGGACCAAATTTGAAACCAAACAAAATAAAAAGGAGAAAT
ACTTTCTTTGGTAAACAAAAGCAACAATATCATACATCCCAAAGGTAACAAATTATTTTGCTTAG
CACTTGTGAAAAAAACATATACTTTTAT
Found at i:12064430 original size:405 final size:405
Alignment explanation
Indices: 12063452--12064665 Score: 2160
Period size: 405 Copynumber: 3.0 Consensus size: 405
12063442 ATACTTTTAT
12063452 GATAAAGGAAGTTTGAATGAGTTGAAGGACTAATTTTGAAAGCAAACAAAATGAATGGGTGAAAT
1 GATAAAGGAAGTTTGAATGAGTTGAAGGACTAATTTTGAAAGCAAACAAAATGAATGGGTGAAAT
* *
12063517 GTTTTCTTTGGTAAACAAAAGCAATAATATCATGTATCCCAAAGGTTACAAATTATTTTGGTTAG
66 GCTTTCTTTGGTAAACAAAAGCAATAATATCATGTATCCCAAAGGTTACAAATTATTTTGCTTAG
*
12063582 CATTTGTGAAAAGAACATATACTTTTATGATAGAGGTAGTTTGAATGAGTTGAAAGACCAAATTT
131 CATTTGTGAAAAGAACATATACTTTTATGATAGAGGTAGTTTGAATGAGTTGAAGGACCAAATTT
*
12063647 AAAACCAAACAAAATAAAAAGGGGAAATACTTTTTTTGGTAAATGAGAGCAACGATATCTTACAT
196 AAAACCAAACAAAATAAAAAGGAGAAATACTTTTTTTGGTAAATGAGAGCAACGATATCTTACAT
* * *
12063712 CCCAATAGAAACTATCTATTTTGCTTGGTATTTGTGAAAAGCACATAGAATTTTACAATGGAGCA
261 CCCAATAGGAACTATCTATTTTGCTTGGTACTTGTGAAAAGCACATAGAATTTTACAATGGAGTA
12063777 AGTTTGATCGAATAGATGGACCAACTATGAAA-CCAATAAAATGAAGGGAAGAAATGTTTTTTTA
326 AGTTTGATCGAATAGATGGACCAACTATGAAACCCAATAAAATGAAGGGAAGAAATGTTTTTTTA
12063841 GCAAACTAAAGCAAC
391 GCAAACTAAAGCAAC
* *
12063856 GATAGAGGAAGTTTGAATGAGTTGAAGTACTAATTTTGAAAGCAAACAAAATGAATGGGTGAAAT
1 GATAAAGGAAGTTTGAATGAGTTGAAGGACTAATTTTGAAAGCAAACAAAATGAATGGGTGAAAT
*
12063921 GCTTTCTTTGGTAAACAAAAGTAATAATATCATGTATCCCAAAGGTTACAAATTATTTTGCTTAG
66 GCTTTCTTTGGTAAACAAAAGCAATAATATCATGTATCCCAAAGGTTACAAATTATTTTGCTTAG
*
12063986 CATTTGTGAAAAAAACATATACTTTTATGATAGAGGTAGTTTGAATGAGTTGAAGGACCAAATTT
131 CATTTGTGAAAAGAACATATACTTTTATGATAGAGGTAGTTTGAATGAGTTGAAGGACCAAATTT
*
12064051 GAAACCAAACAAAATAAAAAGGAGAAATACTTTTTTTGGTAAATGAGAGCAACGATATCTTACAT
196 AAAACCAAACAAAATAAAAAGGAGAAATACTTTTTTTGGTAAATGAGAGCAACGATATCTTACAT
*
12064116 CCCAATAGGAACTATCTATTTTGCTTGGTACTTGTGAAAAGCACATAAAATTTTACAATGGAGTA
261 CCCAATAGGAACTATCTATTTTGCTTGGTACTTGTGAAAAGCACATAGAATTTTACAATGGAGTA
* *
12064181 AGTTTGATTGAATAGATGGACCAACTATGAAACCCAATAAAATGAAGGGAAGAAATGTTTTTCTA
326 AGTTTGATCGAATAGATGGACCAACTATGAAACCCAATAAAATGAAGGGAAGAAATGTTTTTTTA
*
12064246 GCAAACTAAAACAAC
391 GCAAACTAAAGCAAC
*
12064261 GATAAAGGAAGTTTAAATGAGTTGAAGGACTAATTTTGAAAGCAAACAAAATGAATGGGTGAAAT
1 GATAAAGGAAGTTTGAATGAGTTGAAGGACTAATTTTGAAAGCAAACAAAATGAATGGGTGAAAT
*
12064326 GCTTTCTTTGGTAAACAAAAGCAATAATATCATTTATCCCAAAGGTTACAAATTATTTTGCTTAG
66 GCTTTCTTTGGTAAACAAAAGCAATAATATCATGTATCCCAAAGGTTACAAATTATTTTGCTTAG
*
12064391 CATTTGTGAAAAGAACATATACTTTTATGATAAAGGTAGTTTGAATGAGTTGAAGGACCAAATTT
131 CATTTGTGAAAAGAACATATACTTTTATGATAGAGGTAGTTTGAATGAGTTGAAGGACCAAATTT
* * *
12064456 AAAACCAAACAAAATAAAAAGAAGAAACACTTTTTTTGGTAAATGAGAGCAACGATATCATACAT
196 AAAACCAAACAAAATAAAAAGGAGAAATACTTTTTTTGGTAAATGAGAGCAACGATATCTTACAT
** * * **
12064521 CTTAATGGGAACTATCTATTTTGCTTGGTACTTGTGAAAACCACATAGAATTTTATGATGGAGTA
261 CCCAATAGGAACTATCTATTTTGCTTGGTACTTGTGAAAAGCACATAGAATTTTACAATGGAGTA
*
12064586 AGTTTGATCGAATAGATGGACCAACTATGAAACCCAATAAAATGAAGGGAAAAAATGTTTTTTTA
326 AGTTTGATCGAATAGATGGACCAACTATGAAACCCAATAAAATGAAGGGAAGAAATGTTTTTTTA
12064651 GCAAACTAAAGCAAC
391 GCAAACTAAAGCAAC
12064666 AATATCATGT
Statistics
Matches: 771, Mismatches: 38, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
404 343 0.44
405 428 0.56
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.29
Consensus pattern (405 bp):
GATAAAGGAAGTTTGAATGAGTTGAAGGACTAATTTTGAAAGCAAACAAAATGAATGGGTGAAAT
GCTTTCTTTGGTAAACAAAAGCAATAATATCATGTATCCCAAAGGTTACAAATTATTTTGCTTAG
CATTTGTGAAAAGAACATATACTTTTATGATAGAGGTAGTTTGAATGAGTTGAAGGACCAAATTT
AAAACCAAACAAAATAAAAAGGAGAAATACTTTTTTTGGTAAATGAGAGCAACGATATCTTACAT
CCCAATAGGAACTATCTATTTTGCTTGGTACTTGTGAAAAGCACATAGAATTTTACAATGGAGTA
AGTTTGATCGAATAGATGGACCAACTATGAAACCCAATAAAATGAAGGGAAGAAATGTTTTTTTA
GCAAACTAAAGCAAC
Found at i:12064892 original size:159 final size:159
Alignment explanation
Indices: 12064266--12065061 Score: 622
Period size: 158 Copynumber: 5.0 Consensus size: 159
12064256 ACAACGATAA
* * * * * * **
12064266 AGGAAGTTTAAATGAGTTGAAGGACTAATTTTGAAAGCAAACAAAATGAATGGGTGAAATGCTTT
1 AGGAAGTTTGAATGAGTTGAAGGACCAACTTTGAAACCAAATAAAATGAAAGGAAGAAATGCTTT
* * * * * * *
12064331 CTTTGGTAAACA-AAAGCAATAATATCATTTATCCCAAAGGTTACAAATTATTTTGCTTAGCA-T
66 TTTTGGTAAA-AGAAAGCAACAATATCATGTATCCCAATGGTAACAAACTATTTTGCTTAGTACT
* * **
12064394 TTGTGAAAAGAACATATACTTTTATGATAA
130 TTGTGAAAATAACATATAATTTTATGATGG
* * * * * * **
12064424 AGGTAGTTTGAATGAGTTGAAGGACCAAATTTAAAACCAAACAAAATAAAAAGAAGAAACACTTT
1 AGGAAGTTTGAATGAGTTGAAGGACCAACTTTGAAACCAAATAAAATGAAAGGAAGAAATGCTTT
* * * ** ** * * * *
12064489 TTTTGGTAAATGAGAGCAACGATATCATACATCTTAATGGGAACTATCTATTTTGCTTGGTAC-T
66 TTTTGGTAAAAGAAAGCAACAATATCATGTATCCCAATGGTAACAAACTATTTTGCTTAGTACTT
** *
12064553 TGTGAAAACCACATAGAATTTTATGATGG
131 TGTGAAAATAACATATAATTTTATGATGG
* * * * * * * *
12064582 AGTAAGTTTG-ATCGAATAGATGGACCAACTATGAAACCCAATAAAATGAAGGGAAAAAATG-TT
1 AGGAAGTTTGAAT-GAGTTGAAGGACCAACTTTGAAACCAAATAAAATGAAAGGAAGAAATGCTT
* * ** * ** * * *
12064645 TTTTTAGCAAACTAAAGCAACAATATCATGTATCCAAACAGTATCAAACTATTTTGCTTGGTACG
65 TTTTTGGTAAAAGAAAGCAACAATATCATGTATCCCAATGGTAACAAACTATTTTGCTTAGTACT
* * * ** *
12064710 ATATG-AAATAAACTTATGCTTTTACGATGG
130 TTGTGAAAAT-AACATATAATTTTATGATGG
* * *
12064740 AGGAAGTTTGAATTAGTTGAAGCACCAACTTTGAAACCAAATAAAATGAAAGGAAGAAATGCTCT
1 AGGAAGTTTGAATGAGTTGAAGGACCAACTTTGAAACCAAATAAAATGAAAGGAAGAAATGCTTT
* * *
12064805 TTATGGTAAAAGAAAGCAACAATATCATGTATCCCAATGGTAACAAACTATTTTGCCTAGAACTT
66 TTTTGGTAAAAGAAAGCAACAATATCATGTATCCCAATGGTAACAAACTATTTTGCTTAGTACTT
* * *
12064870 TGTTAAAATAACTTACAATTTTATGATGG
131 TGTGAAAATAACATATAATTTTATGATGG
* * * * * * * * * *
12064899 AGGAAGTTTTAACT-AGGTGAATGATCAACTTTGAAACCAAATAAAATTAATGGGATAACTTCTT
1 AGGAAGTTTGAA-TGAGTTGAAGGACCAACTTTGAAACCAAATAAAATGAAAGGAAGAAATGCTT
** ** * *
12064963 TTTTT-GTAAACA-AAAGCAATGATATTGTGTATCCTAATGGTAA-AAAGCTATTTTGCTTGGTA
65 TTTTTGGTAAA-AGAAAGCAACAATATCATGTATCCCAATGGTAACAAA-CTATTTTGCTTAGTA
* * * *
12065025 TTTTGTGAAAAGAACTTATACTTTTATGATGG
128 CTTTGTGAAAATAACATATAATTTTATGATGG
12065057 AGGAA
1 AGGAA
12065062 AGGGAGAAAT
Statistics
Matches: 493, Mismatches: 134, Indels: 22
0.76 0.21 0.03
Matches are distributed among these distances:
157 58 0.12
158 302 0.61
159 128 0.26
160 5 0.01
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (159 bp):
AGGAAGTTTGAATGAGTTGAAGGACCAACTTTGAAACCAAATAAAATGAAAGGAAGAAATGCTTT
TTTTGGTAAAAGAAAGCAACAATATCATGTATCCCAATGGTAACAAACTATTTTGCTTAGTACTT
TGTGAAAATAACATATAATTTTATGATGG
Found at i:12066147 original size:19 final size:20
Alignment explanation
Indices: 12066123--12066160 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12066113 AACCTTGAAA
*
12066123 CCCTAAATCCA-TCTAAAAC
1 CCCTAAAACCATTCTAAAAC
12066142 CCCTAAAACCATTCTAAAA
1 CCCTAAAACCATTCTAAAA
12066161 TCCCAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (20 bp):
CCCTAAAACCATTCTAAAAC
Found at i:12067732 original size:15 final size:16
Alignment explanation
Indices: 12067700--12067742 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
12067690 TAAAACTAAG
12067700 ATAAAAAAAAAGTCCAA
1 ATAAAAAAAAAG-CCAA
12067717 ATAAAAAAAAAG-CAA
1 ATAAAAAAAAAGCCAA
*
12067732 A-AAAAGAAAAG
1 ATAAAAAAAAAG
12067743 AGGTAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 9 0.36
15 4 0.16
17 12 0.48
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (16 bp):
ATAAAAAAAAAGCCAA
Found at i:12069135 original size:4 final size:4
Alignment explanation
Indices: 12069126--12069150 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12069116 AAGAGCTTTG
12069126 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
12069151 TATATATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:12079296 original size:3 final size:3
Alignment explanation
Indices: 12079288--12079313 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12079278 GAGATGCAAG
12079288 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
12079314 TGAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12080562 original size:3 final size:3
Alignment explanation
Indices: 12080554--12080598 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
12080544 CTCATCTGAT
*
12080554 TTA TTA TTA TTA -AA TTA TATA TTA TTTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA TTA TTA TTA TTA TT
12080599 TTAAAGGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 1 0.03
3 30 0.81
4 6 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:12080585 original size:22 final size:19
Alignment explanation
Indices: 12080554--12080599 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
12080544 CTCATCTGAT
*
12080554 TTATTA-TTATTA-AATTA
1 TTATTATTTATTATTATTA
12080571 TATATTATTTATTATTATTA
1 T-TATTATTTATTATTATTA
12080591 TTATTATTT
1 TTATTATTT
12080600 TAAAGGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 5 0.20
19 14 0.56
20 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTATTTATTATTATTA
Found at i:12081244 original size:22 final size:23
Alignment explanation
Indices: 12081219--12081263 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
12081209 TACACATTTT
12081219 CATTAATTTATTAT-TTTT-TAAA
1 CATTAATTT-TTATATTTTCTAAA
12081241 CATTAATTTTTATATTTTCTAAA
1 CATTAATTTTTATATTTTCTAAA
12081264 ATATATGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 13 0.62
23 4 0.19
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
CATTAATTTTTATATTTTCTAAA
Found at i:12082130 original size:126 final size:127
Alignment explanation
Indices: 12081975--12082233 Score: 407
Period size: 126 Copynumber: 2.0 Consensus size: 127
12081965 TGTTTTTTTT
*
12081975 TTTTTTGTGTTTGGTTTTTTTGCAGGGAATGGGTCTTAAGTGGATTTTGTTTGGGTAGTTTAGG-
1 TTTTTTGTGTTTGGTTTTTTTGCAGGGAATGGATCTTAAGTGGATTTTGTTTGGGTAGTTTAGGC
* * * *
12082039 TAAGGGTAGCTTTTTTTTGTTTCTTTTTTATGGTAATAGTGGTGGGAGTGGGAAGCTGA-GGGG
66 AAAGGGTAGC-TTTTTTTGTTTC-TTTGTATGGTAATAGTGGTGGGAGTGAGAAGCTGATGGAG
* *
12082102 TTTTTTGTGTTTGG-TTTTTTGCAGGGAATGGATCTTAAGTGGATTTTTTTTTGGTAGTTTAGGC
1 TTTTTTGTGTTTGGTTTTTTTGCAGGGAATGGATCTTAAGTGGATTTTGTTTGGGTAGTTTAGGC
*
12082166 AAAGGGTAGCTTTTTTTGTTTCTTTGTATGGTAATAGTGGTGGTAGTGAGAAGCTGATGGAG
66 AAAGGGTAGCTTTTTTTGTTTCTTTGTATGGTAATAGTGGTGGGAGTGAGAAGCTGATGGAG
12082228 TTTTTT
1 TTTTTT
12082234 TTTGTTTTTT
Statistics
Matches: 122, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
125 32 0.26
126 67 0.55
127 23 0.19
ACGTcount: A:0.16, C:0.04, G:0.32, T:0.47
Consensus pattern (127 bp):
TTTTTTGTGTTTGGTTTTTTTGCAGGGAATGGATCTTAAGTGGATTTTGTTTGGGTAGTTTAGGC
AAAGGGTAGCTTTTTTTGTTTCTTTGTATGGTAATAGTGGTGGGAGTGAGAAGCTGATGGAG
Found at i:12083167 original size:19 final size:19
Alignment explanation
Indices: 12083105--12083172 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
12083095 AGGACAAAAT
12083105 TTGGGCTTTAATACGAAAC
1 TTGGGCTTTAATACGAAAC
* * * * * *
12083124 CTAGTCTTTAACA-TAAAA
1 TTGGGCTTTAATACGAAAC
12083142 TTCGGGCTTTAATACGAAAC
1 TT-GGGCTTTAATACGAAAC
12083162 TTGGGCTTTAA
1 TTGGGCTTTAA
12083173 CAATTAACCT
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
18 4 0.11
19 26 0.74
20 5 0.14
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (19 bp):
TTGGGCTTTAATACGAAAC
Found at i:12083171 original size:38 final size:38
Alignment explanation
Indices: 12083100--12083174 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
12083090 GAATTAGGAC
* *
12083100 AAAATTTGGGCTTTAATACGAAACCTAGTCTTTAACAT
1 AAAATTCGGGCTTTAATACGAAACCTAGGCTTTAACAT
* *
12083138 AAAATTCGGGCTTTAATACGAAACTTGGGCTTTAACA
1 AAAATTCGGGCTTTAATACGAAACCTAGGCTTTAACA
12083175 ATTAACCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (38 bp):
AAAATTCGGGCTTTAATACGAAACCTAGGCTTTAACAT
Found at i:12084832 original size:15 final size:16
Alignment explanation
Indices: 12084809--12084847 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
12084799 GAATATTAGT
*
12084809 TTTAAAATATAAAA-A
1 TTTATAATATAAAATA
12084824 TTTATAATATAAAATA
1 TTTATAATATAAAATA
*
12084840 ATTATAAT
1 TTTATAAT
12084848 TTTAAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTATAATATAAAATA
Found at i:12085505 original size:8 final size:8
Alignment explanation
Indices: 12085492--12085521 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
12085482 AAAGTGAGAA
12085492 AAAAATTT
1 AAAAATTT
12085500 AAAAATTT
1 AAAAATTT
12085508 AAAAATTT
1 AAAAATTT
12085516 AAAAAT
1 AAAAAT
12085522 CGATTCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAAATTT
Found at i:12085748 original size:22 final size:22
Alignment explanation
Indices: 12085729--12085770 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
12085719 ATAATAAATT
12085729 TATATCAAAA-TTTAT-TTAAA
1 TATATCAAAATTTTATATTAAA
*
12085749 TATATTAAAATTTTATATTAAA
1 TATATCAAAATTTTATATTAAA
12085771 ATAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 5 0.26
22 5 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATCAAAATTTTATATTAAA
Found at i:12085767 original size:13 final size:13
Alignment explanation
Indices: 12085748--12085787 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
12085738 ATTTATTTAA
12085748 ATATATTAAAATT
1 ATATATTAAAATT
* *
12085761 TTATATTAAAATA
1 ATATATTAAAATT
*
12085774 ATATATAAAAATT
1 ATATATTAAAATT
12085787 A
1 A
12085788 AAAATCGATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:12086321 original size:33 final size:33
Alignment explanation
Indices: 12086238--12086322 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
12086228 TGGAAATTTC
* *
12086238 TTTAATGTATTGAAAATTTATTTTCATAAACTTT
1 TTTAATATACTGAAAA-TTATTTTCATAAACTTT
* **
12086272 TTTAATACACCAAAAATTATTTTCGA-AAACTTT
1 TTTAATATACTGAAAATTATTTTC-ATAAACTTT
12086305 TTTAATATACTGAAAATT
1 TTTAATATACTGAAAATT
12086323 CTTTGCTAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 30 0.71
34 12 0.29
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (33 bp):
TTTAATATACTGAAAATTATTTTCATAAACTTT
Found at i:12086336 original size:34 final size:33
Alignment explanation
Indices: 12086265--12086361 Score: 95
Period size: 33 Copynumber: 2.9 Consensus size: 33
12086255 TTATTTTCAT
* * *
12086265 AAACTTTTTTAATACACCAAAAATTATTTTCGA
1 AAACTTTTTTAATATACTAAAAATTATTTGCGA
* * *
12086298 AAACTTTTTTAATATACTGAAAATTCTTTGCTA
1 AAACTTTTTTAATATACTAAAAATTATTTGCGA
* * *
12086331 GAAACTTCTTCACTATACTAAAAATGTATTT
1 -AAACTTTTTTAATATACTAAAAAT-TATTT
12086362 CCAAAAAATA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 27 0.53
34 20 0.39
35 4 0.08
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.41
Consensus pattern (33 bp):
AAACTTTTTTAATATACTAAAAATTATTTGCGA
Found at i:12090104 original size:30 final size:30
Alignment explanation
Indices: 12090063--12090123 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
12090053 ACAACCTGTT
12090063 GTACATATTCTAATATGAAGCATGCCTACA
1 GTACATATTCTAATATGAAGCATGCCTACA
* *
12090093 GTACATCTTCTAATTTGAAGCATGCCTACA
1 GTACATATTCTAATATGAAGCATGCCTACA
12090123 G
1 G
12090124 AGTATAGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (30 bp):
GTACATATTCTAATATGAAGCATGCCTACA
Found at i:12100484 original size:15 final size:15
Alignment explanation
Indices: 12100436--12100805 Score: 152
Period size: 15 Copynumber: 23.6 Consensus size: 15
12100426 ACTTATAAAT
* *
12100436 AATATTATATTAACA
1 AATAATATATTAATA
12100451 AA-AA-ATATT-ATA
1 AATAATATATTAATA
* *
12100463 ATGTAATTTATTAATA
1 A-ATAATATATTAATA
12100479 AATAATATTATATGAATA
1 AATAATA-TAT-T-AATA
* *
12100497 AATAATATACTATTA
1 AATAATATATTAATA
* *
12100512 ATCTAATTTATTAATA
1 A-ATAATATATTAATA
*
12100528 AA-AATATTAATAAATAA
1 AATAATA-T-ATTAAT-A
*
12100545 CATTATAATATATTAAGA
1 -A--ATAATATATTAATA
*
12100563 AACATATAATATTAATA
1 AATA-AT-ATATTAATA
* *
12100580 AATATTATTATAAATA
1 AATAATA-TATTAATA
12100596 AAT-ATATATTAAT-
1 AATAATATATTAATA
* *
12100609 -CTATTA-ATTAATA
1 AATAATATATTAATA
12100622 AATAATATTATATTAATA
1 AAT-A-A-TATATTAATA
*
12100640 AATCATATATTAATA
1 AATAATATATTAATA
**
12100655 AATAATATTAAGAAAGAATA
1 AATAATA-T----ATTAATA
* *
12100675 TTATAATATATTAACA
1 -AATAATATATTAATA
12100691 AATAATAT-TATAATA
1 AATAATATAT-TAATA
* * *
12100706 AATATTATTAATTTTATT
1 AATAATA-T-A-TTAATA
*
12100724 AATAA-ATATT-A-C
1 AATAATATATTAATA
**
12100736 AATAATATATGGATA
1 AATAATATATTAATA
12100751 AATAATATATTAATA
1 AATAATATATTAATA
* *
12100766 AATAATATACTATTA
1 AATAATATATTAATA
12100781 ATATAATATATTAATA
1 A-ATAATATATTAATA
12100797 AATAATATA
1 AATAATATA
12100806 AAGAATAATA
Statistics
Matches: 264, Mismatches: 51, Indels: 80
0.67 0.13 0.20
Matches are distributed among these distances:
12 15 0.06
13 12 0.05
14 17 0.06
15 90 0.34
16 58 0.22
17 19 0.07
18 30 0.11
19 5 0.02
20 8 0.03
21 10 0.04
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:12100486 original size:46 final size:49
Alignment explanation
Indices: 12100430--12100536 Score: 150
Period size: 46 Copynumber: 2.3 Consensus size: 49
12100420 AATTTTACTT
* * *
12100430 ATAAATAATATTATATTAACAAA-AA-ATATTA-TAATGTAATTTATTA
1 ATAAATAATATTATATGAACAAATAATATACTATTAATCTAATTTATTA
*
12100476 ATAAATAATATTATATGAATAAATAATATACTATTAATCTAATTTATTA
1 ATAAATAATATTATATGAACAAATAATATACTATTAATCTAATTTATTA
12100525 ATAAA-AATATTA
1 ATAAATAATATTA
12100537 ATAAATAACA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
46 21 0.39
47 2 0.04
48 12 0.22
49 19 0.35
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (49 bp):
ATAAATAATATTATATGAACAAATAATATACTATTAATCTAATTTATTA
Found at i:12100594 original size:12 final size:13
Alignment explanation
Indices: 12100453--12100800 Score: 101
Period size: 13 Copynumber: 26.4 Consensus size: 13
12100443 TATTAACAAA
12100453 AAATATTA-TAAT
1 AAATATTATTAAT
*
12100465 GTAAT-TTATTAAT
1 -AAATATTATTAAT
*
12100478 AAATAATATTATAT
1 AAATATTATTA-AT
* *
12100492 GAATA--AATAAT
1 AAATATTATTAAT
*
12100503 --ATACTATTAAT
1 AAATATTATTAAT
*
12100514 CTAAT-TTATTAAT
1 -AAATATTATTAAT
*
12100527 AAA-AATATTAAT
1 AAATATTATTAAT
**
12100539 AAATAACATT-AT
1 AAATATTATTAAT
*
12100551 -AATA-TATTAAGA
1 AAATATTATTAA-T
12100563 AACATATAATATTAAT
1 AA-ATAT--TATTAAT
12100579 AAATATTATTATAAAT
1 AAATATTA-T-T-AAT
12100595 AAATATATATTAAT
1 AAATAT-TATTAAT
*
12100609 --CTATTAATTAAT
1 AAATATT-ATTAAT
12100621 AAATAATATTATATTAAT
1 --A-AATA-T-TATTAAT
12100639 AAATCATATATTAAT
1 AAAT-AT-TATTAAT
* *
12100654 AAATAATATTAAG
1 AAATATTATTAAT
* *
12100667 AAAGAATATT-AT
1 AAATATTATTAAT
*
12100679 -AATA-TATTAAC
1 AAATATTATTAAT
*
12100690 AAATAATATTATAAT
1 AAATATTA-T-TAAT
12100705 AAATATTATTAAT
1 AAATATTATTAAT
12100718 ---T-TTATTAAT
1 AAATATTATTAAT
*
12100727 AAATATTA-CAAT
1 AAATATTATTAAT
* *
12100739 AATATATGGATAAAT
1 AA-ATAT-TATTAAT
*
12100754 AATATATTAATAAAT
1 AA-ATATT-ATTAAT
*
12100769 AATATACTATTAAT
1 AA-ATATTATTAAT
12100783 ATAATA-TATTAAT
1 A-AATATTATTAAT
12100796 AAATA
1 AAATA
12100801 ATATAAAGAA
Statistics
Matches: 262, Mismatches: 29, Indels: 89
0.69 0.08 0.23
Matches are distributed among these distances:
9 11 0.04
10 8 0.03
11 17 0.06
12 47 0.18
13 63 0.24
14 28 0.11
15 56 0.21
16 14 0.05
17 10 0.04
18 7 0.03
19 1 0.00
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (13 bp):
AAATATTATTAAT
Found at i:12100686 original size:111 final size:111
Alignment explanation
Indices: 12100571--12100773 Score: 284
Period size: 111 Copynumber: 1.8 Consensus size: 111
12100561 GAAACATATA
* * * * *
12100571 ATATTAATAAATATTATTATAAATAAATATATATTAA-TCTATTAATTAATA-AATAATATTATA
1 ATATTAACAAATAATATTAT-AATAAATAT-TATTAATTCTATTAATAAATATAACAATAATATA
* *
12100634 TTAATAAATCATATATTAATAAATAATATTAAGAAAGAATATTATAAT
64 TGAATAAATAATATATTAATAAATAATATTAAGAAAGAATATTATAAT
* *
12100682 ATATTAACAAATAATATTATAATAAATATTATTAATTTTATTAATAAATATTACAATAATATATG
1 ATATTAACAAATAATATTATAATAAATATTATTAATTCTATTAATAAATATAACAATAATATATG
*
12100747 GATAAATAATATATTAATAAATAATAT
66 AATAAATAATATATTAATAAATAATAT
12100774 ACTATTAATA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
109 6 0.08
110 21 0.26
111 53 0.66
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (111 bp):
ATATTAACAAATAATATTATAATAAATATTATTAATTCTATTAATAAATATAACAATAATATATG
AATAAATAATATATTAATAAATAATATTAAGAAAGAATATTATAAT
Found at i:12100688 original size:23 final size:23
Alignment explanation
Indices: 12100659--12100705 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
12100649 TTAATAAATA
*
12100659 ATATTAAGAAAGAATATTATAAT
1 ATATTAACAAAGAATATTATAAT
*
12100682 ATATTAACAAATAATATTATAAT
1 ATATTAACAAAGAATATTATAAT
12100705 A
1 A
12100706 AATATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATTAACAAAGAATATTATAAT
Found at i:12100705 original size:8 final size:7
Alignment explanation
Indices: 12100566--12100805 Score: 57
Period size: 7 Copynumber: 33.4 Consensus size: 7
12100556 ATTAAGAAAC
12100566 ATATAAT
1 ATATAAT
12100573 AT-TAAT
1 ATATAAT
* *
12100579 AAATATT
1 ATATAAT
12100586 ATTATAA-
1 A-TATAAT
12100593 ATA-AAT
1 ATATAAT
*
12100599 ATATATT
1 ATATAAT
* *
12100606 AATCTATT
1 -ATATAAT
12100614 A-ATTAAT
1 ATA-TAAT
*
12100621 AAATAAT
1 ATATAAT
12100628 AT-T-AT
1 ATATAAT
12100633 AT-TAAT
1 ATATAAT
* *
12100639 AAATCAT
1 ATATAAT
12100646 ATATTAAT
1 ATA-TAAT
*
12100654 AAATAAT
1 ATATAAT
*
12100661 AT-TAAG
1 ATATAAT
* *
12100667 AAAGAAT
1 ATATAAT
12100674 ATTATAAT
1 A-TATAAT
*
12100682 ATATTAAC
1 ATA-TAAT
*
12100690 AAATAAT
1 ATATAAT
12100697 ATTATAAT
1 A-TATAAT
* *
12100705 AAATATT
1 ATATAAT
12100712 AT-TAATT
1 ATATAA-T
*
12100719 TTATTAAT
1 ATA-TAAT
* *
12100727 AAATATT
1 ATATAAT
*
12100734 ACAATAAT
1 A-TATAAT
*
12100742 ATATGGAT
1 ATAT-AAT
*
12100750 AAATAAT
1 ATATAAT
12100757 ATATTAAT
1 ATA-TAAT
*
12100765 AAATAAT
1 ATATAAT
*
12100772 ATACTATT
1 ATA-TAAT
12100780 AATATAAT
1 -ATATAAT
12100788 ATATTAAT
1 ATA-TAAT
*
12100796 AAATAAT
1 ATATAAT
12100803 ATA
1 ATA
12100806 AAGAATAATA
Statistics
Matches: 165, Mismatches: 45, Indels: 46
0.64 0.18 0.18
Matches are distributed among these distances:
5 7 0.04
6 20 0.12
7 70 0.42
8 62 0.38
9 6 0.04
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:12100729 original size:22 final size:21
Alignment explanation
Indices: 12100693--12100734 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
12100683 TATTAACAAA
12100693 TAATATTATAATAAATATTAT
1 TAATATTATAATAAATATTAT
*
12100714 TAATTTTATTAATAAATATTA
1 TAATATTA-TAATAAATATTA
12100735 CAATAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATATTATAATAAATATTAT
Found at i:12100908 original size:15 final size:15
Alignment explanation
Indices: 12100888--12100928 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
12100878 TATAATTATT
*
12100888 TTTTAATATTAATAA
1 TTTTAATATAAATAA
12100903 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
12100919 TTTCAATATA
1 TTTTAATATA
12100929 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:12100931 original size:26 final size:25
Alignment explanation
Indices: 12100898--12100947 Score: 91
Period size: 26 Copynumber: 2.0 Consensus size: 25
12100888 TTTTAATATT
12100898 AATAATTTTAATAATAAATAATTTC
1 AATAATTTTAATAATAAATAATTTC
12100923 AATATATTTTAATAATAAATAATTT
1 AATA-ATTTTAATAATAAATAATTT
12100948 TTAATATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
AATAATTTTAATAATAAATAATTTC
Found at i:12100947 original size:16 final size:16
Alignment explanation
Indices: 12100888--12100953 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 16
12100878 TATAATTATT
*
12100888 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
12100903 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
*
12100919 -TTT--CAAT--AT-A
1 TTTTAATAATAAATAA
12100929 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
12100945 TTTTTAATA
1 -TTTTAATA
12100954 TCTTAATAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
10 1 0.03
11 5 0.12
13 6 0.15
15 12 0.30
16 8 0.20
17 8 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:12101526 original size:19 final size:19
Alignment explanation
Indices: 12101491--12101530 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12101481 TTAGAAACTT
* *
12101491 AAAAAATCCTAAGAATCTA
1 AAAAAATCCAAAAAATCTA
12101510 AAAAAATCCAAAAAATCTA
1 AAAAAATCCAAAAAATCTA
12101529 AA
1 AA
12101531 CATTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.65, C:0.15, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAAAATCCAAAAAATCTA
Found at i:12101632 original size:9 final size:9
Alignment explanation
Indices: 12101620--12101696 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
12101610 TTTTTGAAAA
12101620 TTTTAGAAT
1 TTTTAGAAT
12101629 TTTT--AAT
1 TTTTAGAAT
* *
12101636 TTTTCATATT
1 TTTT-AGAAT
*
12101646 TTTTTGAAT
1 TTTTAGAAT
*
12101655 TTTTATGATT
1 TTTTA-GAAT
*
12101665 TTTTCACAAT
1 TTTT-AGAAT
12101675 TTTTAGAAT
1 TTTTAGAAT
* *
12101684 TATTAAAAT
1 TTTTAGAAT
12101693 TTTT
1 TTTT
12101697 TTTGGATTTT
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
7 7 0.14
9 24 0.47
10 19 0.37
11 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTAGAAT
Found at i:12101650 original size:19 final size:19
Alignment explanation
Indices: 12101628--12101668 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
12101618 AATTTTAGAA
12101628 TTTTT-AATTTTTCAT-ATT
1 TTTTTGAATTTTT-ATGATT
12101646 TTTTTGAATTTTTATGATT
1 TTTTTGAATTTTTATGATT
12101665 TTTT
1 TTTT
12101669 CACAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTTGAATTTTTATGATT
Found at i:12101831 original size:26 final size:26
Alignment explanation
Indices: 12101802--12101851 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
12101792 TAATTTGTCA
12101802 AATTTTTCAAAATGTTTTAATTTTAG
1 AATTTTTCAAAATGTTTTAATTTTAG
* * *
12101828 AATTTTTCATAATTTTTTTATTTT
1 AATTTTTCAAAATGTTTTAATTTT
12101852 TTCATTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (26 bp):
AATTTTTCAAAATGTTTTAATTTTAG
Found at i:12101922 original size:18 final size:18
Alignment explanation
Indices: 12101866--12101925 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
12101856 TTTTTCATAT
12101866 TTTTAGGATTTTTGTT-AAA
1 TTTTA-GATTTTT-TTGAAA
*
12101885 TTTTTAGA-TTTTTAGAAAA
1 -TTTTAGATTTTTTTG-AAA
12101904 TTTTAGATTTTTTTGAAA
1 TTTTAGATTTTTTTGAAA
12101922 TTTT
1 TTTT
12101926 CAAAATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 1 0.03
18 18 0.51
19 11 0.31
20 5 0.14
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (18 bp):
TTTTAGATTTTTTTGAAA
Found at i:12102063 original size:18 final size:18
Alignment explanation
Indices: 12102040--12102109 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
12102030 TTCATAAAAT
*
12102040 TTTTTTTGAATTTTTCTA
1 TTTTTTTAAATTTTTCTA
* *
12102058 TTTTTTTAAATGTTTCAA
1 TTTTTTTAAATTTTTCTA
* *
12102076 ATTTTTTAAATTTTT-TT
1 TTTTTTTAAATTTTTCTA
12102093 TCTTTTTTAGAATTTTT
1 T-TTTTTTA-AATTTTT
12102110 TTGAAATTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 35 0.83
19 7 0.17
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTTTTTAAATTTTTCTA
Found at i:12102086 original size:9 final size:9
Alignment explanation
Indices: 12102041--12102110 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
12102031 TCATAAAATT
*
12102041 TTTTTTGAA
1 TTTTTTAAA
*
12102050 TTTTTCT-AT
1 TTTTT-TAAA
12102059 TTTTTTAAA
1 TTTTTTAAA
* *
12102068 TGTTTCAAA
1 TTTTTTAAA
12102077 TTTTTTAAA
1 TTTTTTAAA
***
12102086 TTTTTTTTC
1 TTTTTTAAA
12102095 TTTTTTAGAA
1 TTTTTTA-AA
12102105 TTTTTT
1 TTTTTT
12102111 TGAAATTTTC
Statistics
Matches: 46, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
8 1 0.02
9 38 0.83
10 7 0.15
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:12104587 original size:35 final size:34
Alignment explanation
Indices: 12104521--12104587 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 34
12104511 GATTTTTAGG
*
12104521 TTTTTTTCAAATTTTTTAAAAACATTAAATTTCA
1 TTTTTTTCAAATTTTTTAAAAACATCAAATTTCA
12104555 TTTTTTTCAAATATTTTTAAAAA-ATCATAATTT
1 TTTTTTTCAAAT-TTTTTAAAAACATCA-AATTT
12104588 TGAATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 15 0.50
35 15 0.50
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (34 bp):
TTTTTTTCAAATTTTTTAAAAACATCAAATTTCA
Found at i:12104907 original size:22 final size:23
Alignment explanation
Indices: 12104874--12104946 Score: 92
Period size: 26 Copynumber: 3.0 Consensus size: 23
12104864 AATTCTAACA
12104874 ATTTTTTAAAAAATTAAAATATT
1 ATTTTTTAAAAAATTAAAATATT
*
12104897 ATTTTTTAAAAAATAAAAGGAATATT
1 ATTTTTTAAAAAAT-TAA--AATATT
*
12104923 ATTTTTCAATAAAATTAAAATATT
1 ATTTTTTAA-AAAATTAAAATATT
12104947 GGAAAAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 14 0.33
24 8 0.19
26 16 0.37
27 5 0.12
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (23 bp):
ATTTTTTAAAAAATTAAAATATT
Found at i:12105077 original size:24 final size:25
Alignment explanation
Indices: 12105017--12105079 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 25
12105007 ATAATTTTTT
*
12105017 AAATTAAAACATTATTTTTCCAAAA
1 AAATTAAAATATTATTTTTCCAAAA
*
12105042 AAATCTAGAAATATTATTTTT-TAAAA
1 AAAT-TA-AAATATTATTTTTCCAAAA
12105068 AAATTAAAATAT
1 AAATTAAAATAT
12105080 AGGAATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 6 0.18
25 6 0.18
26 10 0.29
27 12 0.35
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
AAATTAAAATATTATTTTTCCAAAA
Done.