Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 67 of 208
Found at i:24824556 original size:28 final size:27
Alignment explanation
Indices: 24824524--24824578 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
24824514 CTAACATCTT
24824524 CCATTCTACAATTCTTTATCTTTTAAAC
1 CCATTCTA-AATTCTTTATCTTTTAAAC
* **
24824552 CCATTTTAGTTTCTTTATCTTTTAAAC
1 CCATTCTAAATTCTTTATCTTTTAAAC
24824579 TTGGTTGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.25, C:0.22, G:0.02, T:0.51
Consensus pattern (27 bp):
CCATTCTAAATTCTTTATCTTTTAAAC
Found at i:24826941 original size:30 final size:31
Alignment explanation
Indices: 24826826--24826970 Score: 90
Period size: 30 Copynumber: 4.8 Consensus size: 31
24826816 TTACATTAAG
**
24826826 TTTTGAGGATTTAATTAAAATGTTTC-AGGAT
1 TTTTGAGGATTTAATTAAAAT-TTTCAAACAT
* *
24826857 TTTTGAGAATTTAATTAAAATTTGCAGAAC-T
1 TTTTGAGGATTTAATTAAAATTTTCA-AACAT
* * * *
24826888 TTGT-AGTG-TTTAATGACAGTTTTCAAACAT
1 TTTTGAG-GATTTAATTAAAATTTTCAAACAT
*
24826918 TTTTG-GGGTTTAATTAAAATTTTCTAAA-AT
1 TTTTGAGGATTTAATTAAAATTTTC-AAACAT
* *
24826948 TCTT-AGGAGCTTAA-TAAAATTTT
1 TTTTGAGGA-TTTAATTAAAATTTT
24826971 TTAAAAATTT
Statistics
Matches: 88, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
29 4 0.05
30 52 0.59
31 31 0.35
32 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (31 bp):
TTTTGAGGATTTAATTAAAATTTTCAAACAT
Found at i:24826962 original size:31 final size:32
Alignment explanation
Indices: 24826927--24827001 Score: 102
Period size: 30 Copynumber: 2.4 Consensus size: 32
24826917 TTTTTGGGGT
24826927 TTAATTAAAATTTTCT-AAAATTCTTAGGAG-C
1 TTAATTAAAATTTTCTAAAAATT-TTAGGAGCC
*
24826958 TTAA-TAAAATTTTTTAAAAATTTTAGGAGCC
1 TTAATTAAAATTTTCTAAAAATTTTAGGAGCC
*
24826989 TTACTTAAAATTT
1 TTAATTAAAATTT
24827002 CCAAAGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 17 0.44
31 14 0.36
32 8 0.21
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (32 bp):
TTAATTAAAATTTTCTAAAAATTTTAGGAGCC
Found at i:24837313 original size:6 final size:6
Alignment explanation
Indices: 24837299--24837328 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
24837289 TTCTACCATG
*
24837299 TTAAGT TTAAAT TTAAAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
24837329 AAAACATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:24842860 original size:41 final size:41
Alignment explanation
Indices: 24842810--24842891 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
24842800 AAATCAGTAT
24842810 AAAATTATAATTAACCTATATAATTTAAATACTAATTAATA
1 AAAATTATAATTAACCTATATAATTTAAATACTAATTAATA
*
24842851 AAAATTATAATTAACTTATATAATTTAAATACTAATTAATA
1 AAAATTATAATTAACCTATATAATTTAAATACTAATTAATA
24842892 CAAGCTTACT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (41 bp):
AAAATTATAATTAACCTATATAATTTAAATACTAATTAATA
Found at i:24857117 original size:56 final size:52
Alignment explanation
Indices: 24857003--24857104 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
24856993 GAACTAGTAA
24857003 CCCAACATATCAATAATCTTTCTTTCTAAAGCATTAACCGCAAGTAAGTACT
1 CCCAACATATCAATAATCTTTCTTTCTAAAGCATTAACCGCAAGTAAGTACT
*
24857055 CCCAACATATCGATAATCTTTCTTTCTAAAGCATTAACCGCAAGTAAGTA
1 CCCAACATATCAATAATCTTTCTTTCTAAAGCATTAACCGCAAGTAAGTA
24857105 GTCCAAGTCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (52 bp):
CCCAACATATCAATAATCTTTCTTTCTAAAGCATTAACCGCAAGTAAGTACT
Found at i:24859186 original size:12 final size:12
Alignment explanation
Indices: 24859169--24859194 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24859159 AGTGAAATAG
24859169 AAAGGAAATTGA
1 AAAGGAAATTGA
24859181 AAAGGAAATTGA
1 AAAGGAAATTGA
24859193 AA
1 AA
24859195 TTCTAGACAT
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:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (12 bp):
AAAGGAAATTGA
Found at i:24860298 original size:24 final size:24
Alignment explanation
Indices: 24860280--24860349 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
24860270 CGTTAATTGG
24860280 TCTTTGGAGCTACCCGTTATAGGC
1 TCTTTGGAGCTACCCGTTATAGGC
*
24860304 TCTTTGGAGTTACCCGTTATAGGC
1 TCTTTGGAGCTACCCGTTATAGGC
* *
24860328 TCTTTGTGAGCTTCCTGTTATA
1 TCTTTG-GAGCTACCCGTTATA
24860350 TTGCCCGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 29 0.71
25 12 0.29
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (24 bp):
TCTTTGGAGCTACCCGTTATAGGC
Found at i:24864992 original size:23 final size:22
Alignment explanation
Indices: 24864948--24864992 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
24864938 TAATCAATTC
**
24864948 TAATCCCTATAAATATGGTATA
1 TAATCCCTATAAATATACTATA
*
24864970 TAATCTCCTATAAATCTACTATA
1 TAATC-CCTATAAATATACTATA
24864993 CAAATATTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (22 bp):
TAATCCCTATAAATATACTATA
Found at i:24867087 original size:16 final size:16
Alignment explanation
Indices: 24867066--24867114 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
24867056 CGCTGTATTG
*
24867066 GAATAGAGGCATAATA
1 GAATAGAGGCGTAATA
* *
24867082 GAATAGATGCGTAATG
1 GAATAGAGGCGTAATA
24867098 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
24867114 G
1 G
24867115 GTAATTCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.43, C:0.06, G:0.31, T:0.20
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:24867180 original size:44 final size:46
Alignment explanation
Indices: 24867094--24867186 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
24867084 ATAGATGCGT
*
24867094 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAACGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAACGG
* *
24867140 AATGGCATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAACGG
24867184 AAT
1 AAT
24867187 ACAGGTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAACGG
Found at i:24867182 original size:39 final size:42
Alignment explanation
Indices: 24867094--24867199 Score: 119
Period size: 46 Copynumber: 2.5 Consensus size: 42
24867084 ATAGATGCGT
*
24867094 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAACGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--A--G
*
24867140 AATGGCATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTT-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAG
* *
24867179 AATGGAATACAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
24867200 CATAAGGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
39 17 0.31
40 1 0.02
44 15 0.28
45 3 0.06
46 18 0.33
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.34
Consensus pattern (42 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAG
Found at i:24867472 original size:16 final size:15
Alignment explanation
Indices: 24867344--24867489 Score: 59
Period size: 18 Copynumber: 9.3 Consensus size: 15
24867334 AATTATTATT
24867344 AAATATAATTTAATAA
1 AAATATAATTTAAT-A
*
24867360 AATATATGAATTTACTA
1 AA-ATAT-AATTTAATA
24867377 AAATCATAATATATAATA
1 AAAT-ATAAT-T-TAATA
** * * *
24867395 CTATAAAAATATAATTT
1 AAAT-ATAATTTAA-TA
* *
24867412 AAA-ATAATTATTATT
1 AAATATAATT-TAATA
24867427 AAATATAATTTAATA
1 AAATATAATTTAATA
*
24867442 AAA-AT-A-TT-ATT
1 AAATATAATTTAATA
24867453 AAATATAATTTAATCAA
1 AAATATAATTTAAT--A
*
24867470 AATATATAATTTGATA
1 AA-ATATAATTTAATA
24867486 AAAT
1 AAAT
24867490 TCTTAGTATT
Statistics
Matches: 97, Mismatches: 18, Indels: 31
0.66 0.12 0.21
Matches are distributed among these distances:
11 5 0.05
12 4 0.04
13 2 0.02
14 4 0.04
15 19 0.20
16 21 0.22
17 14 0.14
18 28 0.29
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (15 bp):
AAATATAATTTAATA
Found at i:24867486 original size:26 final size:26
Alignment explanation
Indices: 24867337--24867474 Score: 125
Period size: 26 Copynumber: 5.1 Consensus size: 26
24867327 TTAACATAAT
24867337 TATTATTAAATATAATTTAATAAAATA
1 TATTATTAAATATAATTTAATAAAA-A
* * * * * *
24867364 TATGAATTTACTAAAATCATAATATATAA
1 TAT-TATTAAATATAAT-TTAATA-AAAA
* * *
24867393 TACTATAAAAATATAATTTAA-AATAAT
1 TATTAT-TAAATATAATTTAATAA-AAA
24867420 TATTATTAAATATAATTTAATAAAAA
1 TATTATTAAATATAATTTAATAAAAA
*
24867446 TATTATTAAATATAATTTAATCAAAA
1 TATTATTAAATATAATTTAATAAAAA
24867472 TAT
1 TAT
24867475 ATAATTTGAT
Statistics
Matches: 86, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
26 44 0.51
27 12 0.14
28 14 0.16
29 14 0.16
30 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (26 bp):
TATTATTAAATATAATTTAATAAAAA
Found at i:24867562 original size:21 final size:21
Alignment explanation
Indices: 24867519--24867562 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
24867509 TATATGAATT
*
24867519 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
24867540 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
24867561 TA
1 TA
24867563 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:24870166 original size:15 final size:14
Alignment explanation
Indices: 24870140--24870175 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
24870130 ACCGGAGGGA
24870140 ATAAACAATAAAATG
1 ATAAA-AATAAAATG
24870155 ATGAAAAATAAAATG
1 AT-AAAAATAAAATG
24870170 ATAAAA
1 ATAAAA
24870176 TGAATCACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 3 0.15
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.19
Consensus pattern (14 bp):
ATAAAAATAAAATG
Found at i:24870732 original size:10 final size:10
Alignment explanation
Indices: 24870717--24870743 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
24870707 GTAGCATCTA
24870717 TAACAATGCT
1 TAACAATGCT
24870727 TAACAATGCT
1 TAACAATGCT
24870737 TAACAAT
1 TAACAAT
24870744 TAATAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (10 bp):
TAACAATGCT
Found at i:24871434 original size:16 final size:16
Alignment explanation
Indices: 24871413--24871481 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
24871403 TTTGGTTCGT
24871413 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24871429 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24871445 TGTATTGGTATTAGAGG
1 TGTATTGG-ATTAGAGG
24871462 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24871478 TGTA
1 TGTA
24871482 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24871461 original size:33 final size:32
Alignment explanation
Indices: 24871413--24871481 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
24871403 TTTGGTTCGT
24871413 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
24871445 TGTATTGGTATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGG-ATTAGAGGTGTATTGGATTAGAGG
24871478 TGTA
1 TGTA
24871482 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:24871546 original size:44 final size:45
Alignment explanation
Indices: 24871462--24871552 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
24871452 GTATTAGAGG
* * *
24871462 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
24871507 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
24871551 TG
1 TG
24871553 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:24871734 original size:16 final size:16
Alignment explanation
Indices: 24871697--24871751 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
24871687 TTAATCATAT
*
24871697 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
24871713 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
24871728 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
24871746 -TAAAAT
1 TTAAAAT
24871752 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:24871744 original size:18 final size:18
Alignment explanation
Indices: 24871703--24871751 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
24871693 ATATTTAAAC
24871703 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
24871721 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
24871737 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
24871752 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:24871893 original size:17 final size:17
Alignment explanation
Indices: 24871873--24871906 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24871863 TTATTACTAA
24871873 ATAT-ATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24871890 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24871907 TTTTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24871931 original size:136 final size:138
Alignment explanation
Indices: 24871790--24872054 Score: 417
Period size: 136 Copynumber: 1.9 Consensus size: 138
24871780 TAAATGATTA
* * *
24871790 TTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* *
24871855 AAACATAATTATTACTAAATATATT-TAATTAAAATATATAATTTAATAAAATT-TTTATAATTA
66 AAACATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
24871918 GCAGAAAT
131 GCAGAAAT
*
24871926 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* ****
24871991 AAACATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT
66 AAACATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
24872055 CATTTTCTTA
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
136 84 0.72
137 24 0.21
138 8 0.07
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (138 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
AAACATAATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
GCAGAAAT
Found at i:24871959 original size:156 final size:156
Alignment explanation
Indices: 24871604--24871930 Score: 575
Period size: 156 Copynumber: 2.1 Consensus size: 156
24871594 TAGAATACCC
* * *
24871604 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATAATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
24871669 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAA
24871734 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
24871760 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATAATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
24871825 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTACTAAATATA-TTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAA
*
24871889 TATATAATTTAATAAAATTTTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
24871915 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
24871931 ATTGTTATTT
Statistics
Matches: 165, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
155 51 0.31
156 114 0.69
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATAATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:24873048 original size:18 final size:17
Alignment explanation
Indices: 24873027--24873061 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24873017 TTATTATTAA
*
24873027 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24873045 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24873062 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24873081 original size:16 final size:16
Alignment explanation
Indices: 24873060--24873098 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
24873050 ATTTAATAAA
24873060 ATTCTTAATAATCAAT
1 ATTCTTAATAATCAAT
24873076 ATTCTTAATAATCAAT
1 ATTCTTAATAATCAAT
24873092 ATTCTTA
1 ATTCTTA
24873099 TAACAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTCTTAATAATCAAT
Found at i:24876586 original size:18 final size:18
Alignment explanation
Indices: 24876560--24876595 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24876550 TTATAAACTC
*
24876560 TGAACATAAACTATAAAA
1 TGAACATAAAATATAAAA
*
24876578 TGAATATAAAATATAAAA
1 TGAACATAAAATATAAAA
24876596 AAATTATTAA
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:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (18 bp):
TGAACATAAAATATAAAA
Found at i:24882484 original size:414 final size:414
Alignment explanation
Indices: 24881714--24882540 Score: 1627
Period size: 414 Copynumber: 2.0 Consensus size: 414
24881704 TCGTCGATAA
24881714 GTGTGACTAATCCTTTTTACTGTGGGTGCTCGAGCTGATAATGATATGTGTTCCATTCCCATAGA
1 GTGTGACTAATCCTTTTTACTGTGGGTGCTCGAGCTGATAATGATATGTGTTCCATTCCCATAGA
24881779 TGGGAATCAAAACTCTCAACCTCTTAAGAAACTACCACATTACATCTCATTATTCATTATGAACG
66 TGGGAATCAAAACTCTCAACCTCTTAAGAAACTACCACATTACATCTCATTATTCATTATGAACG
24881844 TCCATAACACTCTATGAAATAAAGGAAGTAACTCAAAAGGTTTCGCTTACATAAAGGTAATTATT
131 TCCATAACACTCTATGAAATAAAGGAAGTAACTCAAAAGGTTTCGCTTACATAAAGGTAATTATT
24881909 ATCTCGTTAATTTTATAACTAATGGGATATGCTTTATTAGAATGCCGGTAAATAATGGCATTAAA
196 ATCTCGTTAATTTTATAACTAATGGGATATGCTTTATTAGAATGCCGGTAAATAATGGCATTAAA
24881974 GACACTTGTAGATTAAACAATAAAAAGAACTATTTTCTTATTTTGTGTCCCATATATTTCCTTTT
261 GACACTTGTAGATTAAACAATAAAAAGAACTATTTTCTTATTTTGTGTCCCATATATTTCCTTTT
24882039 GTCTCTTGTTTTTACTATAGTTACTTTTTTGTTTTATAACAATTACATAATAAATTTATAAAGAG
326 GTCTCTTGTTTTTACTATAGTTACTTTTTTGTTTTATAACAATTACATAATAAATTTATAAAGAG
24882104 TTAACTGCACTGTACATCCCCAAT
391 TTAACTGCACTGTACATCCCCAAT
24882128 GTGTGACTAATCCTTTTTACTGTGGGTGCTCGAGCTGATAATGATATGTGTTCCATTCCCATAGA
1 GTGTGACTAATCCTTTTTACTGTGGGTGCTCGAGCTGATAATGATATGTGTTCCATTCCCATAGA
*
24882193 TGGGAATCAAAACTCTCAACCTCTTAATAAACTACCACATTACATCTCATTATTCATTATGAACG
66 TGGGAATCAAAACTCTCAACCTCTTAAGAAACTACCACATTACATCTCATTATTCATTATGAACG
*
24882258 TCCATAACACTCTATGAAATAAAGGAAGTAACTCAAAAGGTTTCGTTTACATAAAGGTAATTATT
131 TCCATAACACTCTATGAAATAAAGGAAGTAACTCAAAAGGTTTCGCTTACATAAAGGTAATTATT
24882323 ATCTCGTTAATTTTATAACTAATGGGATATGCTTTATTAGAATGCCGGTAAATAATGGCATTAAA
196 ATCTCGTTAATTTTATAACTAATGGGATATGCTTTATTAGAATGCCGGTAAATAATGGCATTAAA
24882388 GACACTTGTAGATTAAACAATAAAAAGAACTATTTTCTTATTTTGTGTCCCATATATTTCCTTTT
261 GACACTTGTAGATTAAACAATAAAAAGAACTATTTTCTTATTTTGTGTCCCATATATTTCCTTTT
24882453 GTCTCTTGTTTTTACTATAGTTACTTTTTTGTTTTATAACAATTACATAATAAATTTATAAAGAG
326 GTCTCTTGTTTTTACTATAGTTACTTTTTTGTTTTATAACAATTACATAATAAATTTATAAAGAG
*
24882518 TTAACTGCATTGTACATCCCCAA
391 TTAACTGCACTGTACATCCCCAA
24882541 ATTATAACAT
Statistics
Matches: 410, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
414 410 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (414 bp):
GTGTGACTAATCCTTTTTACTGTGGGTGCTCGAGCTGATAATGATATGTGTTCCATTCCCATAGA
TGGGAATCAAAACTCTCAACCTCTTAAGAAACTACCACATTACATCTCATTATTCATTATGAACG
TCCATAACACTCTATGAAATAAAGGAAGTAACTCAAAAGGTTTCGCTTACATAAAGGTAATTATT
ATCTCGTTAATTTTATAACTAATGGGATATGCTTTATTAGAATGCCGGTAAATAATGGCATTAAA
GACACTTGTAGATTAAACAATAAAAAGAACTATTTTCTTATTTTGTGTCCCATATATTTCCTTTT
GTCTCTTGTTTTTACTATAGTTACTTTTTTGTTTTATAACAATTACATAATAAATTTATAAAGAG
TTAACTGCACTGTACATCCCCAAT
Found at i:24883522 original size:15 final size:15
Alignment explanation
Indices: 24883502--24883536 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
24883492 AATTAACTCA
24883502 TTTATAAAATATATT
1 TTTATAAAATATATT
24883517 TTTATAAAATATATT
1 TTTATAAAATATATT
24883532 TTTAT
1 TTTAT
24883537 TATAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATAAAATATATT
Found at i:24887920 original size:26 final size:26
Alignment explanation
Indices: 24887890--24887947 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
24887880 AGAAGTTTTG
24887890 ACCGAATCTCGGAGGTTACATTGATC
1 ACCGAATCTCGGAGGTTACATTGATC
24887916 ACCGAATCTCGGAGGTTACATTGATC
1 ACCGAATCTCGGAGGTTACATTGATC
24887942 ACCGAA
1 ACCGAA
24887948 GTGATCTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (26 bp):
ACCGAATCTCGGAGGTTACATTGATC
Found at i:24889299 original size:21 final size:21
Alignment explanation
Indices: 24889259--24889314 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
24889249 TGGAAATCTC
* *
24889259 ACACGCCCGTGTGGCTAAGGG
1 ACACGCCCGTGTGACCAAGGG
* *
24889280 ACACGGCCGTGTGACCAAGGT
1 ACACGCCCGTGTGACCAAGGG
* *
24889301 ATATGCCCGTGTGA
1 ACACGCCCGTGTGA
24889315 AAATTGAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
ACACGCCCGTGTGACCAAGGG
Found at i:24891300 original size:3 final size:3
Alignment explanation
Indices: 24891292--24891323 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24891282 CTCGTGTTTC
24891292 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24891324 TTTAACGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24903125 original size:21 final size:22
Alignment explanation
Indices: 24903085--24903127 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24903075 ATTCCCTCAA
*
24903085 TAAAAAATAATAGACGAATGGT
1 TAAAAAATAATAGACCAATGGT
*
24903107 TAAAATATAATA-ACCAATGGT
1 TAAAAAATAATAGACCAATGGT
24903128 AACTATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (22 bp):
TAAAAAATAATAGACCAATGGT
Found at i:24905868 original size:19 final size:19
Alignment explanation
Indices: 24905818--24905857 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
24905808 GTGGAACAAC
24905818 ATATACACATAACTGAGCT
1 ATATACACATAACTGAGCT
24905837 ATATACACATAACTGAGCT
1 ATATACACATAACTGAGCT
24905856 AT
1 AT
24905858 CAGTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (19 bp):
ATATACACATAACTGAGCT
Found at i:24906553 original size:31 final size:31
Alignment explanation
Indices: 24906518--24906580 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
24906508 GTTAACCAAG
24906518 AGTAAAGAATATGCTATATCCTTAAGAATCT
1 AGTAAAGAATATGCTATATCCTTAAGAATCT
24906549 AGTAAAGAATATGCTATATCCTTAAGAATCT
1 AGTAAAGAATATGCTATATCCTTAAGAATCT
24906580 A
1 A
24906581 TCACTAGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (31 bp):
AGTAAAGAATATGCTATATCCTTAAGAATCT
Found at i:24910163 original size:13 final size:14
Alignment explanation
Indices: 24910129--24910160 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
24910119 AAGACATGTT
*
24910129 ATTTTAGTTAATGG
1 ATTTTAATTAATGG
24910143 ATTTTAATTAATGG
1 ATTTTAATTAATGG
24910157 ATTT
1 ATTT
24910161 AATGGCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (14 bp):
ATTTTAATTAATGG
Found at i:24919343 original size:77 final size:78
Alignment explanation
Indices: 24919260--24919409 Score: 248
Period size: 77 Copynumber: 1.9 Consensus size: 78
24919250 ATTGTACCAA
*
24919260 AAATATATATATACAAAATTTTAAGTTTAATTCAATCATTTGTATTTTAAAAAATAAATATAT-C
1 AAATATATATATACAAAATTTTAAGTTTAACTCAATCATTTGTATTTTAAAAAATAAATATATCC
24919324 ATTTATTATCATC
66 ATTTATTATCATC
* * *
24919337 AAATATATATATACAAGATTTTAAGTTTGACTCAATTATTTGTATTTTAAAAAATAAATATATCC
1 AAATATATATATACAAAATTTTAAGTTTAACTCAATCATTTGTATTTTAAAAAATAAATATATCC
*
24919402 TTTTATTA
66 ATTTATTA
24919410 AGAAGTTAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
77 59 0.88
78 8 0.12
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (78 bp):
AAATATATATATACAAAATTTTAAGTTTAACTCAATCATTTGTATTTTAAAAAATAAATATATCC
ATTTATTATCATC
Found at i:24922561 original size:86 final size:88
Alignment explanation
Indices: 24922459--24922800 Score: 383
Period size: 88 Copynumber: 3.9 Consensus size: 88
24922449 TGTAACCTTT
* ** * * *
24922459 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* * *
24922521 CAAGAAGGCAAGATCTGCT-TCTTT
64 CAGGAAGGCAAGATCTGTTGTCTTC
* * * ** * * *
24922545 AACTAGCTCCA-CTGCAATCGATGGACGCAAGGCTTTGT-T-TTCAATCTGCTTCGCTGTTAATG
1 AACCAGCTCCATC-ACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATG
* *
24922607 TAGGAAGGCAAGATCTTTTGTCTTC
64 CAGGAAGGCAAGATCTGTTGTCTTC
* *
24922632 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
24922697 GGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTGTTGTCTTC
*
24922720 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
*
24922785 GGAAAGCAAGATCTGT
66 GGAAGGCAAGATCTGT
24922801 AACTTCATTG
Statistics
Matches: 227, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
85 1 0.00
86 73 0.32
87 28 0.12
88 125 0.55
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
GGAAGGCAAGATCTGTTGTCTTC
Found at i:24922633 original size:45 final size:45
Alignment explanation
Indices: 24922578--24922721 Score: 132
Period size: 44 Copynumber: 3.2 Consensus size: 45
24922568 GACGCAAGGC
* *
24922578 TTTGTTTTCAATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCT
1 TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
* * ** ** * * * *
24922623 TTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-T
1 TTTGTCTTCAATCTGCTTCGCTGTCAA-TGTAGGAAGGCAAGATCT
* *
24922666 TGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
1 TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
24922711 TTTGTCTTCAA
1 TTTGTCTTCAA
24922722 CCAGCTCTAT
Statistics
Matches: 69, Mismatches: 26, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
43 16 0.23
44 27 0.39
45 26 0.38
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (45 bp):
TTTGTCTTCAATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
Found at i:24922674 original size:43 final size:43
Alignment explanation
Indices: 24922625--24922762 Score: 134
Period size: 44 Copynumber: 3.2 Consensus size: 43
24922615 CAAGATCTTT
24922625 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
* * * ** ** * * * * *
24922668 TGTCTTCGATCTGCTTCGCTGTCAA-TGTAGGAAGGCAAGATCTTT
1 TGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-TTG
24922713 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
24922756 TGTCTTC
1 TGTCTTC
24922763 GATCTGCTTC
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 23 0.34
44 28 0.42
45 16 0.24
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (43 bp):
TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
Found at i:24922695 original size:88 final size:88
Alignment explanation
Indices: 24922571--24922798 Score: 397
Period size: 88 Copynumber: 2.6 Consensus size: 88
24922561 ATCGATGGAC
* *
24922571 GCAAGGCTTTGT-T-TTCAATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAA
1 GCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAA
24922634 CCAGCTCTATCACAACCGAAAGAG
65 CCAGCTCTATCACAACCGAAAGAG
24922658 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAAC
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAAC
24922723 CAGCTCTATCACAACCGAAAGAG
66 CAGCTCTATCACAACCGAAAGAG
* *
24922746 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAAGCAAGATCT
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCT
24922799 GTAACTTCAT
Statistics
Matches: 135, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
86 5 0.04
87 7 0.05
88 123 0.91
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (88 bp):
GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTTCAAC
CAGCTCTATCACAACCGAAAGAG
Found at i:24922704 original size:44 final size:44
Alignment explanation
Indices: 24922656--24922794 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
24922646 CAACCGAAAG
*
24922656 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGTAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGA
* * * * * ** ** * *
24922700 AGGCAAGATCTTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-
1 AGGCAAGGT-TTGTGTCTTCGATCTGCTTCGCTGTCAA-TGAAGGA
*
24922744 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGA
*
24922788 AAGCAAG
1 AGGCAAG
24922795 ATCTGTAACT
Statistics
Matches: 66, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
43 16 0.24
44 34 0.52
45 16 0.24
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGA
Found at i:24925044 original size:16 final size:17
Alignment explanation
Indices: 24925019--24925052 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
24925009 TTGATCTTGA
*
24925019 TTTTGATTTTTTCTTCT
1 TTTTGATTTTTTATTCT
24925036 TTTTG-TTTTTTATTCT
1 TTTTGATTTTTTATTCT
24925052 T
1 T
24925053 AAGCCTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTGATTTTTTATTCT
Found at i:24927561 original size:19 final size:20
Alignment explanation
Indices: 24927532--24927580 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
24927522 CACTTCGTGA
* *
24927532 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
24927551 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
24927571 AAATG-AATGC
1 AAATGTAATGC
24927581 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:24935957 original size:42 final size:42
Alignment explanation
Indices: 24935899--24935982 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
24935889 CTTTAGTAGG
* *
24935899 CGGTTCCTGGCTACCATCAGCCCCAAAATTCTCAACTTTACC
1 CGGTTCCTGACCACCATCAGCCCCAAAATTCTCAACTTTACC
* * * *
24935941 CGGTTCCTGACCACCATCTGCCTCAAATTTCTCATCTTTACC
1 CGGTTCCTGACCACCATCAGCCCCAAAATTCTCAACTTTACC
24935983 TAACTCAGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.38, G:0.11, T:0.30
Consensus pattern (42 bp):
CGGTTCCTGACCACCATCAGCCCCAAAATTCTCAACTTTACC
Found at i:24945347 original size:33 final size:33
Alignment explanation
Indices: 24945303--24945395 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
24945293 TGTTGGTTGC
*
24945303 ATCTGTATGGTATACTTTTTAAGTTACCTTTGG
1 ATCTGTATGGTATGCTTTTTAAGTTACCTTTGG
* * * *
24945336 ATCTGTCTGGTATGCTTTTTATGTTA-TTTTTG
1 ATCTGTATGGTATGCTTTTTAAGTTACCTTTGG
*
24945368 ATTCTGTATGATATGCTTTTTAAGTTAC
1 A-TCTGTATGGTATGCTTTTTAAGTTAC
24945396 ATTGTCACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
32 5 0.10
33 45 0.90
ACGTcount: A:0.19, C:0.11, G:0.17, T:0.53
Consensus pattern (33 bp):
ATCTGTATGGTATGCTTTTTAAGTTACCTTTGG
Found at i:24963829 original size:5 final size:5
Alignment explanation
Indices: 24963819--24963857 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
24963809 TCCTAAGAGG
* *
24963819 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
24963858 GCTAAATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:24964055 original size:27 final size:27
Alignment explanation
Indices: 24963963--24964056 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
24963953 AAAAATAAAA
24963963 ATTTACCAAAATAT-TACAACTTTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTT
* *
24963990 ATTTACCAAAATATTTGAAC--TTTTT
1 ATTTACCAAAATATATAAACTTTTTTT
24964015 -TTTACCAAAATATATAAACTTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTT
24964041 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
24964057 CAAAAAAAAC
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
24 17 0.28
25 5 0.08
26 5 0.08
27 32 0.53
28 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.01, T:0.47
Consensus pattern (27 bp):
ATTTACCAAAATATATAAACTTTTTTT
Found at i:24964235 original size:19 final size:19
Alignment explanation
Indices: 24964208--24964277 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
24964198 TCAACTCTTT
*
24964208 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
24964227 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* * *
24964245 TTCTCATTTAGTAACTCTA
1 TTTTAATTTAATAACTCTA
24964264 TTTTAATTTAATAA
1 TTTTAATTTAATAA
24964278 ACTATTAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.34
19 27 0.66
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:24964260 original size:37 final size:37
Alignment explanation
Indices: 24964213--24964283 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
24964203 TCTTTTTTTT
24964213 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
*
24964250 ATTTAGTAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
24964284 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:24964538 original size:18 final size:19
Alignment explanation
Indices: 24964501--24964539 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24964491 TCAACTCATT
* *
24964501 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACACTA
24964520 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACACTA
24964538 TT
1 TT
24964540 AAGTAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTAATTTAATAACACTA
Found at i:24964884 original size:37 final size:37
Alignment explanation
Indices: 24964842--24964912 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
24964832 AGTATTACTT
24964842 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
24964879 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
24964913 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:24964917 original size:19 final size:19
Alignment explanation
Indices: 24964848--24964916 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
24964838 ACTTAATAGT
24964848 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
24964867 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
24964885 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
24964904 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
24964917 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:24965024 original size:26 final size:27
Alignment explanation
Indices: 24964988--24965063 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 27
24964978 ACATTTTTTC
*
24964988 CTTTGGCACC-ATGGTACCGCCAATGA
1 CTTTGGCACCAATGGTGCCGCCAATGA
* *
24965014 CTTTGGCACCAATGGTGCCACCAATTA
1 CTTTGGCACCAATGGTGCCGCCAATGA
**
24965041 -TTTGGCACCTTTGGTGCCGCCAA
1 CTTTGGCACCAATGGTGCCGCCAA
24965064 GTGTCAGGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 30 0.70
27 13 0.30
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (27 bp):
CTTTGGCACCAATGGTGCCGCCAATGA
Found at i:24965726 original size:24 final size:24
Alignment explanation
Indices: 24965668--24965746 Score: 113
Period size: 24 Copynumber: 3.2 Consensus size: 24
24965658 GAGTTATCCG
** *
24965668 TTAAGCTCGCACGAGCTTTCTGAT
1 TTAAGCTCGCTTGTGCTTTCTGAT
24965692 TTAAGCTCGCTTGTGCTTTCTGAT
1 TTAAGCTCGCTTGTGCTTTCTGAT
*
24965716 TTAAGCTCGCTTGTGCTTTCTGTT
1 TTAAGCTCGCTTGTGCTTTCTGAT
24965740 ATTAAGC
1 -TTAAGC
24965747 CTGGATAAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 44 0.88
25 6 0.12
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (24 bp):
TTAAGCTCGCTTGTGCTTTCTGAT
Found at i:24967361 original size:33 final size:33
Alignment explanation
Indices: 24967295--24967363 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
24967285 GAAGACAAAA
*
24967295 ACACTAGTAAAGGGTTTAGATTTTACGACGAAG
1 ACACTAGTAAAGGGTTTAGATTTGACGACGAAG
* *
24967328 ACACTAGTAAAGGGTTTAGATTTGATGATGAAG
1 ACACTAGTAAAGGGTTTAGATTTGACGACGAAG
24967361 ACA
1 ACA
24967364 TGTATCATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (33 bp):
ACACTAGTAAAGGGTTTAGATTTGACGACGAAG
Found at i:24968880 original size:13 final size:14
Alignment explanation
Indices: 24968862--24968895 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
24968852 AACAACCAAA
24968862 AACAATACTT-GTG
1 AACAATACTTCGTG
24968875 AACAATA-TTCGTG
1 AACAATACTTCGTG
24968888 AACAATAC
1 AACAATAC
24968896 CCATGAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 17 0.89
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (14 bp):
AACAATACTTCGTG
Found at i:24973178 original size:72 final size:72
Alignment explanation
Indices: 24973097--24973243 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 72
24973087 ACAGTGGAAC
*
24973097 CATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAATGTCATGGCTTGGCGTCTCT
1 CATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAATGCCATGGCTTGGCGTCTCT
24973162 TCGACTT
66 TCGACTT
*
24973169 CATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAATGCCGTGGCTTGGCGTCTCT
1 CATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAATGCCATGGCTTGGCGTCTCT
24973234 TCGACTT
66 TCGACTT
24973241 CAT
1 CAT
24973244 CTTCCGAACT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (72 bp):
CATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAATGCCATGGCTTGGCGTCTCT
TCGACTT
Found at i:24977734 original size:27 final size:27
Alignment explanation
Indices: 24977704--24977757 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
24977694 GTTATTTTTC
24977704 AACGCATAGGTGAAAGATCGGATTGAA
1 AACGCATAGGTGAAAGATCGGATTGAA
* *
24977731 AACGCGTAGGTGAAAGATCTGATTGAA
1 AACGCATAGGTGAAAGATCGGATTGAA
24977758 GTTATCGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.20
Consensus pattern (27 bp):
AACGCATAGGTGAAAGATCGGATTGAA
Found at i:24981307 original size:19 final size:21
Alignment explanation
Indices: 24981268--24981310 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
24981258 TTGACTGACC
*
24981268 AAAATTATTAAGAATTATTTA
1 AAAATTATTAAGAACTATTTA
24981289 AAAATTA-TAA-AACTATTTA
1 AAAATTATTAAGAACTATTTA
24981308 AAA
1 AAA
24981311 TGAAAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 3 0.14
21 7 0.33
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATTATTAAGAACTATTTA
Found at i:24981387 original size:20 final size:20
Alignment explanation
Indices: 24981356--24981403 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
24981346 AAAATTTATT
24981356 TAAAAA-TA-TAAAAACA-TA
1 TAAAAATTATTAAAAA-ATTA
24981374 TAAAAATTATTAAAAAATTA
1 TAAAAATTATTAAAAAATTA
*
24981394 TAATAATTAT
1 TAAAAATTAT
24981404 AATAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 6 0.23
19 3 0.12
20 17 0.65
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATTATTAAAAAATTA
Found at i:24981405 original size:29 final size:29
Alignment explanation
Indices: 24981333--24981396 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
24981323 GCAAAATGTT
* *
24981333 ATATAGAAAA-AT-TAAAATTTATTTAAAA
1 ATATA-AAAACATATAAAAATTATTAAAAA
24981361 ATATAAAAACATATAAAAATTATTAAAAA
1 ATATAAAAACATATAAAAATTATTAAAAA
24981390 ATTATAA
1 A-TATAA
24981397 TAATTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 4 0.13
28 7 0.23
29 15 0.48
30 5 0.16
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (29 bp):
ATATAAAAACATATAAAAATTATTAAAAA
Found at i:24987367 original size:31 final size:30
Alignment explanation
Indices: 24987321--24987403 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
24987311 AGGTTAAACA
* *
24987321 TTTTAAAATGGTCAAATAAGGGCCAAATCTT
1 TTTTAAAATGCTCAAATAAGGACCAAAT-TT
*
24987352 TTTTAAAGTGCTCAAATAAGGACCAAATTT
1 TTTTAAAATGCTCAAATAAGGACCAAATTT
** *
24987382 TTAAAAAAATACTCAAATAAGG
1 TT-TTAAAATGCTCAAATAAGG
24987404 GCTTTTTCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 4 0.09
31 40 0.91
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (30 bp):
TTTTAAAATGCTCAAATAAGGACCAAATTT
Found at i:24988282 original size:24 final size:24
Alignment explanation
Indices: 24988255--24988306 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
24988245 TTAGTAAGTC
*
24988255 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
24988279 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
24988303 AAAT
1 AAAT
24988307 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:24990251 original size:24 final size:24
Alignment explanation
Indices: 24990224--24990275 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
24990214 TTAGTAAGTC
*
24990224 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
24990248 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
24990272 AAAT
1 AAAT
24990276 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:24996515 original size:18 final size:18
Alignment explanation
Indices: 24996492--24996526 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24996482 AATAAAATTA
* *
24996492 TTTAATATTACATTTTAT
1 TTTAATAATAAATTTTAT
24996510 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
24996527 ACAGTAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:24996527 original size:31 final size:30
Alignment explanation
Indices: 24996450--24996527 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 30
24996440 TATTTAATAA
24996450 AATAATAAATTATTAATATAATTAATTATTTC
1 AATAATAAATT-TTAATATAATT-ATTATTTC
* *
24996482 AATAA-AATTATTTAATATTACATT-TTATTTT
1 AATAATAAAT-TTTAATA-TA-ATTATTATTTC
24996513 AATAATAAATTTTAA
1 AATAATAAATTTTAA
24996528 CAGTAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
31 25 0.64
32 11 0.28
33 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
AATAATAAATTTTAATATAATTATTATTTC
Found at i:24999256 original size:23 final size:23
Alignment explanation
Indices: 24999186--24999256 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 23
24999176 TGAAACAGCG
24999186 TCCCGTTATTAGCTC-TCATGAGCT
1 TCCCGTTA-TAGCTCTTCA-GAGCT
* *
24999210 TCCTGTTATATGGTTCTTGC-GAGCT
1 TCCCGTTATA--GCTCTT-CAGAGCT
24999235 TCCCGTTATAGCTCTTCAGAGC
1 TCCCGTTATAGCTCTTCAGAGC
24999257 ATCCTGATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
22 1 0.03
23 11 0.29
24 7 0.18
25 17 0.45
26 1 0.03
27 1 0.03
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (23 bp):
TCCCGTTATAGCTCTTCAGAGCT
Found at i:25005210 original size:25 final size:24
Alignment explanation
Indices: 25005157--25005251 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 24
25005147 ATCTCTTTCG
* **
25005157 AGCCATGTAACGGGAAGCTCATGTG
1 AGCCATATAACGGGAAGCTC-TGAA
*
25005182 AGCCATATAACGGGAAGCTCTTGCA
1 AGCCATATAACGGGAAGCTC-TGAA
* *
25005207 AGCCA-ATTATCAGGAAGCTCTGAA
1 AGCCATA-TAACGGGAAGCTCTGAA
* *
25005231 GAGCCAAATAACGAGAAGCTC
1 -AGCCATATAACGGGAAGCTC
25005252 ATAAGAGCCA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 4 0.07
25 52 0.91
26 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (24 bp):
AGCCATATAACGGGAAGCTCTGAA
Found at i:25005257 original size:25 final size:25
Alignment explanation
Indices: 25005220--25005281 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
25005210 CAATTATCAG
25005220 GAAGCTC-TGAAGAGCCAAATAACGA
1 GAAGCTCAT-AAGAGCCAAATAACGA
* * *
25005245 GAAGCTCATAAGAGCCAATTATCGG
1 GAAGCTCATAAGAGCCAAATAACGA
*
25005270 GACGCTCATAAG
1 GAAGCTCATAAG
25005282 TGCTGTGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (25 bp):
GAAGCTCATAAGAGCCAAATAACGA
Found at i:25005261 original size:50 final size:50
Alignment explanation
Indices: 25005181--25005276 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
25005171 AAGCTCATGT
* * * *
25005181 GAGCCATATAACGGGAAGCTCTTGCAAGCCAATTATCAGGAAGCTCTGAA
1 GAGCCAAATAACGAGAAGCTCATGAAAGCCAATTATCAGGAAGCTCTGAA
* *
25005231 GAGCCAAATAACGAGAAGCTCAT-AAGAGCCAATTATCGGGACGCTC
1 GAGCCAAATAACGAGAAGCTCATGAA-AGCCAATTATCAGGAAGCTC
25005277 ATAAGTGCTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.03
50 38 0.97
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (50 bp):
GAGCCAAATAACGAGAAGCTCATGAAAGCCAATTATCAGGAAGCTCTGAA
Found at i:25007310 original size:23 final size:24
Alignment explanation
Indices: 25007270--25007343 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 24
25007260 TCGCACTCCA
*
25007270 GTGCCCCTATA-ATTTGCACTTC-G
1 GTGCCCCTA-ACATATGCACTTCTG
*
25007293 GTGCCCCTGACATATGCAC-TCTG
1 GTGCCCCTAACATATGCACTTCTG
*
25007316 GTGCCCCTAACATA-GCACTTAT-
1 GTGCCCCTAACATATGCACTTCTG
25007338 GTGCCC
1 GTGCCC
25007344 TTGTTTATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 13 0.30
23 31 0.70
ACGTcount: A:0.19, C:0.34, G:0.19, T:0.28
Consensus pattern (24 bp):
GTGCCCCTAACATATGCACTTCTG
Found at i:25008868 original size:5 final size:5
Alignment explanation
Indices: 25008861--25008891 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
25008851 TCTTTGCCTT
*
25008861 CTCTT CTCTC CTCTC CTCTC CTCTC CTCTC C
1 CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC C
25008892 ATTACCCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (5 bp):
CTCTC
Found at i:25015753 original size:6 final size:6
Alignment explanation
Indices: 25015733--25015777 Score: 53
Period size: 5 Copynumber: 8.2 Consensus size: 6
25015723 TTATATTCAG
*
25015733 TATAAT TATAAT TATAGT TATAAT T-TAAT T-TAAT T-TAAT T-TAAT
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT
25015777 T
1 T
25015778 TGATACGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
5 20 0.54
6 17 0.46
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (6 bp):
TATAAT
Found at i:25021520 original size:24 final size:24
Alignment explanation
Indices: 25021488--25021567 Score: 142
Period size: 24 Copynumber: 3.3 Consensus size: 24
25021478 CAGAGAACAG
*
25021488 GAAGGTGGCAAGAGTACGACACAA
1 GAAGGTGGCAAGAGTAAGACACAA
25021512 GAAGGTGGCAAGAGTAAGACACAA
1 GAAGGTGGCAAGAGTAAGACACAA
*
25021536 GAAGGTGGCAAGAGTAGGACACAA
1 GAAGGTGGCAAGAGTAAGACACAA
25021560 GAAGGTGG
1 GAAGGTGG
25021568 AAACAAGACT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.41, C:0.12, G:0.38, T:0.09
Consensus pattern (24 bp):
GAAGGTGGCAAGAGTAAGACACAA
Found at i:25039233 original size:29 final size:27
Alignment explanation
Indices: 25039215--25039284 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
25039205 ATATTAAGTC
25039215 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
25039242 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
25039270 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
25039285 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:25039278 original size:28 final size:28
Alignment explanation
Indices: 25039215--25039312 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
25039205 ATATTAAGTC
*
25039215 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25039242 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25039270 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25039299 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25039313 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25047517 original size:29 final size:27
Alignment explanation
Indices: 25047499--25047568 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
25047489 ATATTAAGTC
25047499 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
25047526 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
25047554 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
25047569 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:25047562 original size:28 final size:28
Alignment explanation
Indices: 25047499--25047596 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
25047489 ATATTAAGTC
*
25047499 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25047526 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25047554 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25047583 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25047597 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25056650 original size:29 final size:26
Alignment explanation
Indices: 25056618--25056691 Score: 71
Period size: 30 Copynumber: 2.7 Consensus size: 26
25056608 TTGAATTTTT
*
25056618 ATTTTTAAATATAAAAAATAGGAGATTAA
1 ATTTTTAAATATAAAAAAT-GG-G-CTAA
25056647 ATTTTTTGAAATA-AAAAAATGGGCTAA
1 A-TTTTT-AAATATAAAAAATGGGCTAA
25056674 A-TTTTAAATATACAAAAA
1 ATTTTTAAATATA-AAAAA
25056692 GTACGAGGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
24 5 0.12
25 5 0.12
26 5 0.12
27 4 0.10
28 1 0.03
29 3 0.08
30 12 0.30
31 5 0.12
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTTTTAAATATAAAAAATGGGCTAA
Found at i:25066564 original size:22 final size:21
Alignment explanation
Indices: 25066539--25066579 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
25066529 CAAAATCAAA
25066539 TTAAAATTTTTTTTATTTTTAT
1 TTAAAA-TTTTTTTATTTTTAT
*
25066561 TTAATATTTTTTTATTTTT
1 TTAAAATTTTTTTATTTTT
25066580 TTATTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (21 bp):
TTAAAATTTTTTTATTTTTAT
Found at i:25067235 original size:20 final size:20
Alignment explanation
Indices: 25067195--25067234 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
25067185 TTATGTATTA
25067195 TGTTCTTTTGAAATTCATTT
1 TGTTCTTTTGAAATTCATTT
25067215 TGTTACTTTT-AAATTC-TTT
1 TGTT-CTTTTGAAATTCATTT
25067234 T
1 T
25067235 TCAATGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 10 0.53
21 5 0.26
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.62
Consensus pattern (20 bp):
TGTTCTTTTGAAATTCATTT
Found at i:25067818 original size:30 final size:31
Alignment explanation
Indices: 25067773--25067834 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
25067763 TCAAATTTAT
*
25067773 GAATAGTCCCAGTACTTCACT-CAAGTTGTG
1 GAATAATCCCAGTACTTCACTCCAAGTTGTG
* **
25067803 GAATAATCCCTGTACTTTGCTCCAAGTTGTG
1 GAATAATCCCAGTACTTCACTCCAAGTTGTG
25067834 G
1 G
25067835 CACTACCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (31 bp):
GAATAATCCCAGTACTTCACTCCAAGTTGTG
Found at i:25077875 original size:30 final size:30
Alignment explanation
Indices: 25077834--25077896 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
25077824 TAATTCGAAG
*
25077834 TAATAATTTGACACCCAGTGTCTTATCGGC
1 TAATAAATTGACACCCAGTGTCTTATCGGC
25077864 TAATAAATTGACACCCAGTGTCTTATCGGC
1 TAATAAATTGACACCCAGTGTCTTATCGGC
25077894 TAA
1 TAA
25077897 ACCGAAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (30 bp):
TAATAAATTGACACCCAGTGTCTTATCGGC
Found at i:25078800 original size:6 final size:6
Alignment explanation
Indices: 25078789--25078813 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25078779 TTCTCCTTTC
25078789 TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT T
25078814 CTTTCCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:25078800 original size:10 final size:10
Alignment explanation
Indices: 25078785--25078841 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
25078775 TAATTTCTCC
25078785 TTTCTTTCTT
1 TTTCTTTCTT
25078795 TTTCTTTTTCTT
1 TTTC--TTTCTT
25078807 TTTCTTTCTT
1 TTTCTTTCTT
**
25078817 TCCCTTTCTT
1 TTTCTTTCTT
**
25078827 TCCCTTTCTGT
1 TTTCTTTCT-T
25078838 TTTC
1 TTTC
25078842 GTTCCTATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
10 27 0.68
11 3 0.08
12 10 0.25
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:25078833 original size:26 final size:26
Alignment explanation
Indices: 25078784--25078833 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
25078774 CTAATTTCTC
** **
25078784 CTTTCTTTCTTTTTCTTTTTCTTTTT
1 CTTTCTTTCCCTTTCTTTCCCTTTTT
25078810 CTTTCTTTCCCTTTCTTTCCCTTT
1 CTTTCTTTCCCTTTCTTTCCCTTT
25078834 CTGTTTTCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (26 bp):
CTTTCTTTCCCTTTCTTTCCCTTTTT
Found at i:25081314 original size:25 final size:25
Alignment explanation
Indices: 25081246--25081353 Score: 89
Period size: 25 Copynumber: 4.3 Consensus size: 25
25081236 GTACATGTAT
* *
25081246 GCTCATACGAGCT-ATGAATTGGTAT
1 GCTCATACGAGCTGA-GAATCGGTAA
* * *
25081271 GCTC-TCACGAGTTGTGAATCAGTAA
1 GCTCAT-ACGAGCTGAGAATCGGTAA
25081296 GCTCATACGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
* *
25081321 G-TTATCACGAGCTGCA-AATTGGTAA
1 GCTCAT-ACGAGCTG-AGAATCGGTAA
25081346 GCTCATAC
1 GCTCATAC
25081354 AAGTTGTGGT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
24 4 0.06
25 57 0.86
26 5 0.08
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:25081550 original size:22 final size:23
Alignment explanation
Indices: 25081508--25081551 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
25081498 TATACAAATC
* *
25081508 ACATATATATAATTCAATTTAAA
1 ACATATAAATAATACAATTTAAA
25081531 ACATATAAAT-ATACAATTTAA
1 ACATATAAATAATACAATTTAA
25081552 TTACTCGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (23 bp):
ACATATAAATAATACAATTTAAA
Found at i:25082227 original size:5 final size:5
Alignment explanation
Indices: 25082217--25082241 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25082207 TGAATGATAA
25082217 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
25082242 ATCATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:25091926 original size:21 final size:21
Alignment explanation
Indices: 25091901--25091943 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
25091891 ATTCACAATA
25091901 AAATGATCTCAATTAGGAACT
1 AAATGATCTCAATTAGGAACT
25091922 AAATGATCTCAATTAGGAACT
1 AAATGATCTCAATTAGGAACT
25091943 A
1 A
25091944 TCTGTTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (21 bp):
AAATGATCTCAATTAGGAACT
Found at i:25112522 original size:21 final size:22
Alignment explanation
Indices: 25112481--25112523 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
25112471 TAAATAAATG
25112481 TGTAATAAATATATGCCTACATT
1 TGTAATAAATATATG-CTACATT
*
25112504 TGTAATTAATATATG-TACAT
1 TGTAATAAATATATGCTACAT
25112524 ACTTATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
23 14 0.74
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (22 bp):
TGTAATAAATATATGCTACATT
Found at i:25113573 original size:25 final size:25
Alignment explanation
Indices: 25113523--25113580 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
25113513 ATTTTAGCGC
* **
25113523 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTACTAGCACGCCAGT
25113548 GCTCTCTGATTACTAGCACGCCAGT
1 GCTCTCTGATTACTAGCACGCCAGT
*
25113573 GCTATCTG
1 GCTCTCTG
25113581 TTTAGCACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGCCAGT
Found at i:25113620 original size:22 final size:22
Alignment explanation
Indices: 25113536--25113621 Score: 75
Period size: 22 Copynumber: 3.8 Consensus size: 22
25113526 CTCTGATTAT
25113536 TAGCACGTT-AGTGCTCTCTGATTA
1 TAGCAC-TTCAGTGCTCTCTG--TA
** * *
25113560 CTAGCACGCCAGTGCTATCTGTT
1 -TAGCACTTCAGTGCTCTCTGTA
* *
25113583 TAGCACATCTGTGCTCTCTGTA
1 TAGCACTTCAGTGCTCTCTGTA
25113605 TAGCACTTCAGTGCTCT
1 TAGCACTTCAGTGCTCT
25113622 TTGTTCATTA
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
22 32 0.65
23 1 0.02
25 16 0.33
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.35
Consensus pattern (22 bp):
TAGCACTTCAGTGCTCTCTGTA
Found at i:25118023 original size:69 final size:71
Alignment explanation
Indices: 25117917--25118054 Score: 228
Period size: 69 Copynumber: 2.0 Consensus size: 71
25117907 TTCTTCCTAC
25117917 TTTTTCCTTGATTTTATTTTTTTTCAACTATAAATTTGATTT-A-AC-AGAAATAATGAAATATT
1 TTTTTCCTTGATTTTATTTTTTTTCAACTATAAATTTGATTTAACACTAGAAATAATGAAATATT
25117979 TTTACT
66 TTTACT
*
25117985 TTTTTTCTTGATTTTATTTCTTTTTCAACTATAAATTTGATTTAACACTTAGAAATAATGAAATA
1 TTTTTCCTTGATTTTATTT-TTTTTCAACTATAAATTTGATTTAACAC-TAGAAATAATGAAATA
25118050 TTTTT
64 TTTTT
25118055 TTAAAAAAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
68 18 0.28
69 23 0.36
70 1 0.02
71 2 0.03
73 20 0.31
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.54
Consensus pattern (71 bp):
TTTTTCCTTGATTTTATTTTTTTTCAACTATAAATTTGATTTAACACTAGAAATAATGAAATATT
TTTACT
Found at i:25118290 original size:14 final size:14
Alignment explanation
Indices: 25118258--25118315 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 14
25118248 TTAACTAAAA
* *
25118258 TTATATATTAAAAAA
1 TTAT-TATTAAATAT
25118273 TTATTAATTAAAT-T
1 TTATT-ATTAAATAT
25118287 TTATTATTAAATAT
1 TTATTATTAAATAT
25118301 TTA--ATCTAAATAT
1 TTATTAT-TAAATAT
25118314 TT
1 TT
25118316 GTTAAGAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 2 0.05
13 16 0.42
14 10 0.26
15 10 0.26
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
TTATTATTAAATAT
Found at i:25124151 original size:101 final size:101
Alignment explanation
Indices: 25123967--25124768 Score: 993
Period size: 101 Copynumber: 8.0 Consensus size: 101
25123957 AATTCATTAT
* * ** *
25123967 TTACATTCGTAGTGCCATAAATCAGTTATGGTCTTATCATCAGAATGTCATAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGGT
* *
25124032 TTTACATATAAACACTGCCATGGTCCAAACATGGTC
66 CTTACATATAAACACTGTCATGGTCCAAACATGGTC
* *
25124068 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGGT
* *
25124133 TTTACATATAAACACTGCCATGGTCCAAACATGGTC
66 CTTACATATAAACACTGTCATGGTCCAAACATGGTC
* * * *
25124169 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATTAAAATGTCATAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGGT
25124234 CTTACATATAAACACTGTCATGGTCCAAACATGGTC
66 CTTACATATAAACACTGTCATGGTCCAAACATGGTC
* * *
25124270 TTATGTTGATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGGT
25124335 CTTACATATAAACACTGTCATGGTCCAAACATGGTC
66 CTTACATATAAACACTGTCATGGTCCAAACATGGTC
* * *
25124371 TTATGTTGATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGGT
25124436 CTTACATATAAACA----C-T-G--C---CATGGTC
66 CTTACATATAAACACTGTCATGGTCCAAACATGGTC
* * * *
25124461 TTACGCTCATAGTGCTATAACCCAGTTAAT-GTCTTATCATCAGAATGCTATAGCCTAACTATGG
1 TTACGTTCATAGTGCCATAACCCAGTT-ATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGG
* * * * * **
25124525 TCTTACATATATATATACTGCCACGGTCTAACCATGACC
65 TCTTACATATA-A-ACACTGTCATGGTCCAAACATGGTC
* * *
25124564 TTACGTTCA-AGGTGTCATAACCCAGTTATGGTCTTATCATTAGAATGCCATAGCCCAGCTATGG
1 TTACGTTCATA-GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGG
* * * * * *
25124628 CCTTACATATATATATTGTTATGGTCCAACCATGGTC
65 TCTTACATATAAACACTGTCATGGTCCAAACATGGTC
* * * * * * * *
25124665 TTACGTTCA-AGGTGCCATAATCCAATTATGATCTTTTCATTAAAATGCCATAGCCCAACTATGG
1 TTACGTTCATA-GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGG
* * *
25124729 TCTTACATTTAAACATTGTCATGGTCCAACCATGGTC
65 TCTTACATATAAACACTGTCATGGTCCAAACATGGTC
25124766 TTA
1 TTA
25124769 TCCATCAAAT
Statistics
Matches: 629, Mismatches: 56, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
90 72 0.11
91 3 0.00
92 2 0.00
93 1 0.00
95 1 0.00
96 2 0.00
97 1 0.00
98 1 0.00
101 476 0.76
102 3 0.00
103 67 0.11
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGGT
CTTACATATAAACACTGTCATGGTCCAAACATGGTC
Found at i:25124218 original size:33 final size:33
Alignment explanation
Indices: 25123993--25124447 Score: 171
Period size: 33 Copynumber: 13.5 Consensus size: 33
25123983 ATAAATCAGT
* * *
25123993 TATGGTCTTATCATCAGAATGTCATAGCCTAGC
1 TATGGTCTTATCATTAAAATGTCATAGCCCAGC
* * * * *
25124026 TATGGTTTTA-CATATAAACACTGCCATGGTCCAAAC
1 TATGGTCTTATCAT-TAAA-A-TGTCATAG-CCCAGC
* * * * *
25124062 -ATGGTCTTA-CGTTCATAGTGTCATAACCCAGT
1 TATGGTCTTATCATT-AAAATGTCATAGCCCAGC
* * *
25124094 TATGGTCTTATCATCAGAATGTCATAGCCTAGC
1 TATGGTCTTATCATTAAAATGTCATAGCCCAGC
* * * * *
25124127 TATGGTTTTA-CATATAAACACTGCCATGGTCCAAAC
1 TATGGTCTTATCAT-TAAA-A-TGTCATAG-CCCAGC
* * * * *
25124163 -ATGGTCTTA-CGTTCATAGTGTCATAACCCAGT
1 TATGGTCTTATCATT-AAAATGTCATAGCCCAGC
*
25124195 TATGGTCTTATCATTAAAATGTCATAGCCTAGC
1 TATGGTCTTATCATTAAAATGTCATAGCCCAGC
* * *
25124228 TATGGTCTTA-CATATAAACACTGTCATGGTCCAAAC
1 TATGGTCTTATCAT-TAAA-A-TGTCATAG-CCCAGC
* * * * * *
25124264 -ATGGTCTTAT-GTTGATAGTGCCATAACCCAGT
1 TATGGTCTTATCATT-AAAATGTCATAGCCCAGC
* * *
25124296 TATGGTCTTATCATCAAAATGCCATAGCCTAGC
1 TATGGTCTTATCATTAAAATGTCATAGCCCAGC
* * *
25124329 TATGGTCTTA-CATATAAACACTGTCATGGTCCAAAC
1 TATGGTCTTATCAT-TAAA-A-TGTCATAG-CCCAGC
* * * * * *
25124365 -ATGGTCTTAT-GTTGATAGTGCCATAACCCAGT
1 TATGGTCTTATCATT-AAAATGTCATAGCCCAGC
* * *
25124397 TATGGTCTTATCATCAGAATGCCATAGCCCAGC
1 TATGGTCTTATCATTAAAATGTCATAGCCCAGC
25124430 TATGGTCTTA-CATATAAA
1 TATGGTCTTATCAT-TAAA
25124448 CACTGCCATG
Statistics
Matches: 303, Mismatches: 88, Indels: 62
0.67 0.19 0.14
Matches are distributed among these distances:
32 27 0.09
33 172 0.57
34 15 0.05
35 73 0.24
36 16 0.05
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (33 bp):
TATGGTCTTATCATTAAAATGTCATAGCCCAGC
Found at i:25124523 original size:90 final size:92
Alignment explanation
Indices: 25124364--25124736 Score: 297
Period size: 90 Copynumber: 3.9 Consensus size: 92
25124354 ATGGTCCAAA
* * * *
25124364 CATGGTCTTATGTTGATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAG
1 CATGGTCTTACGCTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAA
25124429 CTATGGTCTTACATATA-A-ACACTGC
66 CTATGGTCTTACATATATATACACTGC
* * *
25124454 CATGGTCTTACGCTCATAGTGCTATAACCCAGTTAAT-GTCTTATCATCAGAATGCTATAGCCTA
1 CATGGTCTTACGCTCATAGTGCCATAACCCAGTT-ATGGTCTTATCATCAGAATGCCATAGCCCA
*
25124518 ACTATGGTCTTACATATATATATACTGC
65 ACTATGGTCTTACATATATATACACTGC
* * * * *
25124546 CACGGTCTAACCATGACCTTACGTTCAAGGTGTCATAACCCAGTTATGGTCTTATCATTAGAATG
1 CATGGTCTTA-C--G--C-T-C-AT--A-GTGCCATAACCCAGTTATGGTCTTATCATCAGAATG
* * *
25124611 CCATAGCCCAGCTATGGCCTTACATATATATATTGTTA-TGGTCCAAC
55 CCATAGCCCAACTATGGTCTTACATATATATA----CACT-G-----C
* * * * * * *
25124658 CATGGTCTTACGTTCA-AGGTGCCATAATCCAATTATGATCTTTTCATTAAAATGCCATAGCCCA
1 CATGGTCTTACGCTCATA-GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCA
25124722 ACTATGGTCTTACAT
65 ACTATGGTCTTACAT
25124737 TTAAACATTG
Statistics
Matches: 228, Mismatches: 30, Indels: 39
0.77 0.10 0.13
Matches are distributed among these distances:
90 72 0.32
91 3 0.01
92 14 0.06
93 1 0.00
95 1 0.00
97 1 0.00
98 1 0.00
99 1 0.00
100 1 0.00
101 55 0.24
102 3 0.01
103 58 0.25
105 1 0.00
106 2 0.01
107 3 0.01
109 1 0.00
111 1 0.00
112 9 0.04
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (92 bp):
CATGGTCTTACGCTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAA
CTATGGTCTTACATATATATACACTGC
Found at i:25124741 original size:33 final size:33
Alignment explanation
Indices: 25124590--25124768 Score: 92
Period size: 33 Copynumber: 5.3 Consensus size: 33
25124580 ATAACCCAGT
* * *
25124590 TATGGTCTTATCA-TTAGAATGCCATAGCCCAGC
1 TATGGTCTTA-CATTTAAAATGCCATAGTCCAAC
* * * ** *
25124623 TATGGCCTTACATATATATATTGTTATGGTCCAAC
1 TATGGTCTTACAT-T-TAAAATGCCATAGTCCAAC
* * * ** * *
25124658 CATGGTCTTACGTTCAAGGTGCCATAATCCAAT
1 TATGGTCTTACATTTAAAATGCCATAGTCCAAC
* * *
25124691 TATGATCTTTTCA-TTAAAATGCCATAGCCCAAC
1 TATGGTC-TTACATTTAAAATGCCATAGTCCAAC
* *
25124724 TATGGTCTTACATTTAAACATTGTCATGGTCCAAC
1 TATGGTCTTACATTTAAA-A-TGCCATAGTCCAAC
*
25124759 CATGGTCTTA
1 TATGGTCTTA
25124769 TCCATCAAAT
Statistics
Matches: 103, Mismatches: 36, Indels: 12
0.68 0.24 0.08
Matches are distributed among these distances:
32 6 0.06
33 49 0.48
34 6 0.06
35 42 0.41
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (33 bp):
TATGGTCTTACATTTAAAATGCCATAGTCCAAC
Found at i:25125718 original size:16 final size:17
Alignment explanation
Indices: 25125694--25125726 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25125684 TATGCCACCT
*
25125694 CATATTTTC-ATTTAGG
1 CATAATTTCTATTTAGG
25125710 CATAATTTCTATTTAGG
1 CATAATTTCTATTTAGG
25125727 TCCTTCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (17 bp):
CATAATTTCTATTTAGG
Found at i:25126855 original size:42 final size:42
Alignment explanation
Indices: 25126808--25126892 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
25126798 GCACAATTAT
* *
25126808 TTAAGCTCGCATGTGGAGCTT-TACTAATACACAGCTTGTCAC
1 TTAAGCTCGCATGGGGAGCTTCGA-TAATACACAGCTTGTCAC
** *
25126850 TTAAGCTCGTGTGGGGAGCTTCGATGATACACAGCTTGTCAC
1 TTAAGCTCGCATGGGGAGCTTCGATAATACACAGCTTGTCAC
25126892 T
1 T
25126893 GAAAATAGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (42 bp):
TTAAGCTCGCATGGGGAGCTTCGATAATACACAGCTTGTCAC
Found at i:25138317 original size:16 final size:16
Alignment explanation
Indices: 25138296--25138328 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25138286 AAAATTAAAA
25138296 TTAAATTGTCTATTAC
1 TTAAATTGTCTATTAC
25138312 TTAAATTGTCTATTAC
1 TTAAATTGTCTATTAC
25138328 T
1 T
25138329 AACTCAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (16 bp):
TTAAATTGTCTATTAC
Found at i:25139913 original size:18 final size:17
Alignment explanation
Indices: 25139873--25139913 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
25139863 AAATGTCTTC
25139873 CCAACACGGTTCATTCT
1 CCAACACGGTTCATTCT
**
25139890 TAAACACGGTTCCATTCT
1 CCAACACGGTT-CATTCT
25139908 CCAACA
1 CCAACA
25139914 TAATTGGTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (17 bp):
CCAACACGGTTCATTCT
Found at i:25142847 original size:9 final size:9
Alignment explanation
Indices: 25142835--25142860 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25142825 CTATTCGTTC
25142835 TTTTAATTA
1 TTTTAATTA
25142844 TTTTAATTA
1 TTTTAATTA
25142853 TTTTAATT
1 TTTTAATT
25142861 TTAGTCAGAT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTAATTA
Found at i:25145163 original size:19 final size:19
Alignment explanation
Indices: 25145141--25145177 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
25145131 ATTAAAGTTA
25145141 TTAATTATA-ATTAATTAAG
1 TTAATTA-AGATTAATTAAG
25145160 TTAATTAAGATTAATTAA
1 TTAATTAAGATTAATTAA
25145178 TTATTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
TTAATTAAGATTAATTAAG
Found at i:25145166 original size:23 final size:22
Alignment explanation
Indices: 25145135--25145180 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
25145125 ATTATGATTA
*
25145135 AAGTTATTAA-TTATAATTAATT
1 AAGTTATTAAGAT-TAATTAATT
25145157 AAGTTAATTAAGATTAATTAATT
1 AAGTT-ATTAAGATTAATTAATT
25145180 A
1 A
25145181 TTAATATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 15 0.71
24 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
AAGTTATTAAGATTAATTAATT
Found at i:25149725 original size:101 final size:101
Alignment explanation
Indices: 25149536--25149774 Score: 352
Period size: 101 Copynumber: 2.4 Consensus size: 101
25149526 AATTAATCAT
* * * *
25149536 TTACATTCGTAGTGTCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCCAACTATGGT
1 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
* * *** *
25149601 CTTATATATAAACATTGTTATGGTCCAACCATGGTC
66 CTTACATATAAACACTACCATGGTCCAACCATGATC
* * *
25149637 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCTAGCTATGGT
1 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
25149702 CTTACATATAAACACTACCATGGTCCAACCATGATC
66 CTTACATATAAACACTACCATGGTCCAACCATGATC
*
25149738 TTACGTTCATAGTGTCATAACCCAGTTATGGTATTAT
1 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTAT
25149775 TCGTCAATTC
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 123 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
CTTACATATAAACACTACCATGGTCCAACCATGATC
Found at i:25151688 original size:11 final size:11
Alignment explanation
Indices: 25151672--25151718 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
25151662 TCTTATACTA
25151672 AATAAAATAAT
1 AATAAAATAAT
25151683 AATAAAATATAT
1 AATAAAATA-AT
* *
25151695 CATTAAAATATT
1 -AATAAAATAAT
25151707 AATAAAATAAT
1 AATAAAATAAT
25151718 A
1 A
25151719 TTTATCTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 19 0.63
12 3 0.10
13 8 0.27
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:25153818 original size:70 final size:70
Alignment explanation
Indices: 25153647--25153800 Score: 254
Period size: 70 Copynumber: 2.2 Consensus size: 70
25153637 GTTATATGGC
* ** * *
25153647 ATGTATAGACTAGTGTCAATTCGATACATTTTGGGATATGAAATTAGCCATGTGAGTTGACTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
25153712 AAATG
66 AAATG
*
25153717 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGGCTTGT
1 ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
25153782 AAATG
66 AAATG
25153787 ATGTATAGGCTAGT
1 ATGTATAGGCTAGT
25153801 TTTATTATGG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 78 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (70 bp):
ATGTATAGGCTAGTGTCAATAGGATACGTTTTGAGATATGAAATTAGCCATGTGAGTTGACTTGT
AAATG
Found at i:25155886 original size:14 final size:15
Alignment explanation
Indices: 25155867--25155904 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
25155857 TCATAATGAC
*
25155867 TAATTAGTTTAATT-
1 TAATTAATTTAATTA
25155881 TAATTAATTTAATTA
1 TAATTAATTTAATTA
25155896 TAATTAATT
1 TAATTAATT
25155905 AAATAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TAATTAATTTAATTA
Found at i:25157354 original size:2 final size:2
Alignment explanation
Indices: 25157300--25157335 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25157290 ACCAAACTTA
25157300 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25157336 ATGGATTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:25159732 original size:42 final size:42
Alignment explanation
Indices: 25159673--25159755 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
25159663 TCGTACATAT
25159673 GAAAGAAAAGTACTTTGTGACTTCAGGCCTGGTTGACTGTAC
1 GAAAGAAAAGTACTTTGTGACTTCAGGCCTGGTTGACTGTAC
25159715 GAAAGAAAAGTACTTTGTGACTTCAGGCCTGGTTGACTGTA
1 GAAAGAAAAGTACTTTGTGACTTCAGGCCTGGTTGACTGTA
25159756 TTTCATCCCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (42 bp):
GAAAGAAAAGTACTTTGTGACTTCAGGCCTGGTTGACTGTAC
Found at i:25161412 original size:24 final size:24
Alignment explanation
Indices: 25161380--25161425 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
25161370 GATTTTGATC
25161380 TCTGTCTTTTGACACGCTCTTTCT
1 TCTGTCTTTTGACACGCTCTTTCT
25161404 TCTGTCTTTTGACACGCTCTTT
1 TCTGTCTTTTGACACGCTCTTT
25161426 TTTGGGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.28, G:0.13, T:0.50
Consensus pattern (24 bp):
TCTGTCTTTTGACACGCTCTTTCT
Found at i:25162407 original size:24 final size:24
Alignment explanation
Indices: 25162373--25162421 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
25162363 AAGAAAAAGG
25162373 AAAGGCCGTTGTTAATACAGGCCC
1 AAAGGCCGTTGTTAATACAGGCCC
* *
25162397 AAAGGCTGTTGTTAATACCGGCCC
1 AAAGGCCGTTGTTAATACAGGCCC
25162421 A
1 A
25162422 GTAAAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (24 bp):
AAAGGCCGTTGTTAATACAGGCCC
Found at i:25169621 original size:23 final size:23
Alignment explanation
Indices: 25169595--25169639 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25169585 ACTCTTGTAT
*
25169595 TTTTATAAT-TTTGTTCACGTTCC
1 TTTTA-AATATTTATTCACGTTCC
*
25169618 TTTTAATTATTTATTCACGTTC
1 TTTTAAATATTTATTCACGTTC
25169640 TCATCATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.58
Consensus pattern (23 bp):
TTTTAAATATTTATTCACGTTCC
Found at i:25172685 original size:21 final size:21
Alignment explanation
Indices: 25172659--25172714 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
25172649 AAAGTTTTGT
*
25172659 TGTTTGAATGGATTGTCTTTC
1 TGTTTGAATCGATTGTCTTTC
* *
25172680 TGTTTGAATTGATTGTTTTTC
1 TGTTTGAATCGATTGTCTTTC
*
25172701 TGTTCGAATCGATT
1 TGTTTGAATCGATT
25172715 CATTTTTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.16, C:0.09, G:0.21, T:0.54
Consensus pattern (21 bp):
TGTTTGAATCGATTGTCTTTC
Found at i:25172720 original size:21 final size:21
Alignment explanation
Indices: 25172676--25172724 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
25172666 ATGGATTGTC
* * **
25172676 TTTCTGTTTGAATTGATTGTT
1 TTTCTGTTCGAATCGATTCAT
25172697 TTTCTGTTCGAATCGATTCAT
1 TTTCTGTTCGAATCGATTCAT
25172718 TTT-TGTT
1 TTTCTGTT
25172725 TAAATCAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.14, C:0.10, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTCTGTTCGAATCGATTCAT
Found at i:25173454 original size:18 final size:17
Alignment explanation
Indices: 25173427--25173468 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
25173417 AAAAATTTAG
25173427 AAAAAAATAT-AATCTAC
1 AAAAAAATATGAAT-TAC
*
25173444 AAAAAACATATGAATTAT
1 AAAAAA-ATATGAATTAC
25173462 AAAAAAA
1 AAAAAAA
25173469 ATAATACCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 12 0.55
19 3 0.14
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAAAAATATGAATTAC
Done.