Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 208 of 279
Found at i:67951837 original size:18 final size:18
Alignment explanation
Indices: 67951810--67951850 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
67951800 AAATAAATAG
*
67951810 ATATATATATAGTTACAT
1 ATATAGATATAGTTACAT
* *
67951828 GTATAGATATATTTACAT
1 ATATAGATATAGTTACAT
67951846 ATATA
1 ATATA
67951851 AATGAAAGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (18 bp):
ATATAGATATAGTTACAT
Found at i:67955242 original size:27 final size:28
Alignment explanation
Indices: 67955207--67955261 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
67955197 CACAGGCAAA
* *
67955207 GGCCATGCCGCAGGCAGCACTGGTGGTG
1 GGCCATGCCACAGGCAGCACTGATGGTG
67955235 GGCC-TGCCACAGGCAGCACTGATGGTG
1 GGCCATGCCACAGGCAGCACTGATGGTG
67955262 CCATTGGCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.16, C:0.29, G:0.40, T:0.15
Consensus pattern (28 bp):
GGCCATGCCACAGGCAGCACTGATGGTG
Found at i:67955383 original size:3 final size:3
Alignment explanation
Indices: 67955363--67955411 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
67955353 TTCATTTCGG
*
67955363 GAA GAA TGAA GGA GAA GAA GAA -AA GGAA GAA G-A GAA GAA GAA GAA
1 GAA GAA -GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA
67955408 GAA G
1 GAA G
67955412 GAGGAGGAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 31 0.77
4 5 0.12
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:67955398 original size:14 final size:15
Alignment explanation
Indices: 67955365--67955409 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
67955355 CATTTCGGGA
67955365 AGAATGAAGG-AGAAG
1 AGAA-GAAGGAAGAAG
67955380 AAGAA-AAGGAAGAAG
1 -AGAAGAAGGAAGAAG
67955395 AGAAGAA-GAAGAAG
1 AGAAGAAGGAAGAAG
67955409 A
1 A
67955410 AGGAGGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 16 0.59
15 7 0.26
16 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (15 bp):
AGAAGAAGGAAGAAG
Found at i:67955400 original size:17 final size:17
Alignment explanation
Indices: 67955363--67955411 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
67955353 TTCATTTCGG
*
67955363 GAAGAATGAAGGAGAAGAA
1 GAAGAA-GAAGAAG-AGAA
67955382 GAA-AAGGAAGAAGAGAA
1 GAAGAA-GAAGAAGAGAA
67955399 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
67955412 GAGGAGGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 14 0.52
18 10 0.37
19 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (17 bp):
GAAGAAGAAGAAGAGAA
Found at i:67955404 original size:26 final size:25
Alignment explanation
Indices: 67955362--67955410 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
67955352 CTTCATTTCG
* *
67955362 GGAAGAATGAAGGAGAAGAAGAAAA
1 GGAAGAAAGAAGAAGAAGAAGAAAA
67955387 GGAAGAAGAGAAGAAGAAGAAGAA
1 GGAAGAA-AGAAGAAGAAGAAGAA
67955411 GGAGGAGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (25 bp):
GGAAGAAAGAAGAAGAAGAAGAAAA
Found at i:67955411 original size:20 final size:21
Alignment explanation
Indices: 67955363--67955417 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 21
67955353 TTCATTTCGG
67955363 GAAGAATGAAGGAGAAGAAGAA
1 GAAGAA-GAAGGAGAAGAAGAA
67955385 -AAGGAAGAA-GAGAAGAAGAA
1 GAA-GAAGAAGGAGAAGAAGAA
*
67955405 GAAGAAGGAGGAG
1 GAAGAAGAAGGAG
67955418 GAGGCGGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 16 0.55
21 10 0.34
22 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (21 bp):
GAAGAAGAAGGAGAAGAAGAA
Found at i:67955912 original size:17 final size:17
Alignment explanation
Indices: 67955892--67955963 Score: 64
Period size: 16 Copynumber: 4.5 Consensus size: 17
67955882 GAAATAGTAT
67955892 AAAAAATAAAATACT--
1 AAAAAATAAAATACTGA
*** *
67955907 AAAAAATATCTTAATG-
1 AAAAAATAAAATACTGA
67955923 AAAAAATAAAATAC-GA
1 AAAAAATAAAATACTGA
67955939 AAAGAAATAAAATA-TGA
1 AAA-AAATAAAATACTGA
67955956 AAAAAATA
1 AAAAAATA
67955964 TTTTTTTTGA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
15 12 0.27
16 18 0.40
17 15 0.33
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAAAATAAAATACTGA
Found at i:67956801 original size:23 final size:23
Alignment explanation
Indices: 67956766--67956817 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
67956756 ATATAAAAGA
* * *
67956766 TAAAATATGAAAATAGTATATTT
1 TAAAAAATAAAAATAGTAAATTT
**
67956789 TAAAAAATAAAAATTTTAAATTT
1 TAAAAAATAAAAATAGTAAATTT
67956812 TAAAAA
1 TAAAAA
67956818 TACAAACAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAAAAAATAAAAATAGTAAATTT
Found at i:67956835 original size:151 final size:149
Alignment explanation
Indices: 67955997--67957292 Score: 1976
Period size: 150 Copynumber: 8.6 Consensus size: 149
67955987 GCTGGTTTTT
67955997 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTT
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CGAAAATTT
* * * * *
67956062 TAAAAATACAAACAAATGGCCAAAATCAGAGTTACTTACTAAATTAATATAAAAAAATACTGAAA
65 TAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATAT-AAAAAACACTAAAA
67956127 TAATACATTTAAAACATTATG
129 TAATACATTTAAAACATTATG
* **
67956148 TACTAAAATAATAAAAAAAAATAAAATACGAAAATAGTATATTTT-AAAAA-AAAATAAAAAATT
1 TACTAAAATAAT--ATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCGAAAATT
* * *
67956211 TTAAAAATACAAACAAAGGGCC-AAATTAGGGTTATTTACTAATTTAATATAAAAAACAGTAAAA
64 TTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAA
67956275 TAATACATTTAAAACATTATG
129 TAATACATTTAAAACATTATG
* *
67956296 TACTAAAATAATATAAAAGATAAAATACAAAAATAGTATATTTTAAAAAATAGAATTCGAAAATT
1 TACTAAAATAATATAAAA-ATAAAATACGAAAATAGTATATTTTAAAAAATA-AAATCGAAAATT
*
67956361 TTAAAAATACAAACAAAGGGCCAAAATAAGGGTTATTTACTAAATTAATATAAAAAA-ACTAAAA
64 TTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAA
67956425 TAATACATTTAAAACATTATG
129 TAATACATTTAAAACATTATG
* *
67956446 TACTAAAATAATATAAAAGATAAAATACAAAAATAGTATATTTTAAAAAATAGAATTCGAAAATT
1 TACTAAAATAATATAAAA-ATAAAATACGAAAATAGTATATTTTAAAAAATA-AAATCGAAAATT
67956511 TTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAA-ACTAAAA
64 TTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAA
67956575 TAATACATTTAAAACATTATG
129 TAATACATTTAAAACATTATG
* * *
67956596 TACTAAAATAATATAAAAATAAAATATGAAAATAGTATATTTTAAAAAACAAAATCCGGAAATTT
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CGAAAATTT
** * *
67956661 TAAAAATACAAACAAATTGCC-AAATCAGGGTTATTTACTAATTTAATATAAAAAAATACTAAAA
65 TAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATAT-AAAAAACACTAAAA
67956725 TAATACATTTAAAACATTATG
129 TAATACATTTAAAACATTATG
* ***
67956746 TACTAAAATAATATAAAAGATAAAATATGAAAATAGTATATTTTAAAAAATAAAAATTTTAAATT
1 TACTAAAATAATATAAAA-ATAAAATACGAAAATAGTATATTTTAAAAAAT-AAAATCGAAAATT
* *
67956811 TTAAAAATACAAACAAAGGGCCAAAATCAGGATTATTTACTAAATTAATATTAAAAAACATTAAA
64 TTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATA-TAAAAAACACTAAA
*
67956876 ATAATACATTTGAAACATTATG
128 ATAATACATTTAAAACATTATG
* *
67956898 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAACAAAATTCAAAAATT
1 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAA-TCGAAAATT
* * *
67956963 TTAAAAATACAAACAAAGGGCCAAAATAAGGGTTATTTAATAAATTAATATTAAAAACACTAAAA
64 TTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAA
*
67957028 TAATACATTTGAAACATTATG
129 TAATACATTTAAAACATTATG
*
67957049 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATT
1 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CGAAAATT
* * * *
67957114 TTAAAAATACAAACAAAAGGTCAAAATTAGGGTTACTTACTAAATTAATATAAAAAACACTAAAA
64 TTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAA
* *
67957179 TAATATATTTGAAACATTATG
129 TAATACATTTAAAACATTATG
*
67957200 TACTAAAATAATATAAAAAGTAAAATACGAAAATAATATATTTT-AAAAATAAAATCCGAAAATT
1 TACTAAAATAATATAAAAA-TAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CGAAAATT
67957264 TTAAAAATACAAACAAAGGGCCAAAATCA
64 TTAAAAATACAAACAAAGGGCCAAAATCA
67957293 CTGAATAAAT
Statistics
Matches: 1065, Mismatches: 62, Indels: 37
0.91 0.05 0.03
Matches are distributed among these distances:
146 5 0.00
147 24 0.02
148 79 0.07
149 88 0.08
150 349 0.33
151 321 0.30
152 164 0.15
153 35 0.03
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (149 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCGAAAATTTT
AAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATA
ATACATTTAAAACATTATG
Found at i:67959604 original size:33 final size:33
Alignment explanation
Indices: 67959532--67959614 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
67959522 ATCTTTGGGT
* *
67959532 CGTATCCACCGCAGCACAGCACATCTTCCTGCC
1 CGTATCCACCGCAGTACAGCACATCTCCCTGCC
* *
67959565 CATATCCACCGCAGTATAGCAC-TAC-CCCTGGCC
1 CGTATCCACCGCAGTACAGCACAT-CTCCCT-GCC
*
67959598 CGTATCCACAGCAGTAC
1 CGTATCCACCGCAGTAC
67959615 TCTACTCCTC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
32 4 0.10
33 37 0.90
ACGTcount: A:0.24, C:0.42, G:0.16, T:0.18
Consensus pattern (33 bp):
CGTATCCACCGCAGTACAGCACATCTCCCTGCC
Found at i:67966485 original size:16 final size:16
Alignment explanation
Indices: 67966466--67966499 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
67966456 TACTGGAAAA
67966466 TTTTTTTCCTTCTTTC
1 TTTTTTTCCTTCTTTC
*
67966482 TTTTTTTCTTTCTTTC
1 TTTTTTTCCTTCTTTC
67966498 TT
1 TT
67966500 CTCTTCTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTCCTTCTTTC
Found at i:67976321 original size:9 final size:9
Alignment explanation
Indices: 67976293--67976354 Score: 79
Period size: 9 Copynumber: 6.6 Consensus size: 9
67976283 TTCATTTAAC
67976293 AAACACATT
1 AAACACATT
67976302 AAAACACATT
1 -AAACACATT
*
67976312 AAACATATT
1 AAACACATT
67976321 AAACACATT
1 AAACACATT
*
67976330 AATCACAAATT
1 AA--ACACATT
67976341 AAACACATT
1 AAACACATT
67976350 AAACA
1 AAACA
67976355 TATGTAACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
9 29 0.63
10 9 0.20
11 8 0.17
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (9 bp):
AAACACATT
Found at i:67976343 original size:20 final size:18
Alignment explanation
Indices: 67976293--67976354 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 18
67976283 TTCATTTAAC
*
67976293 AAACACATTAAAACACATT
1 AAACAAATT-AAACACATT
*
67976312 AAACATATTAAACACATT
1 AAACAAATTAAACACATT
67976330 AATCACAAATTAAACACATT
1 AA--ACAAATTAAACACATT
67976350 AAACA
1 AAACA
67976355 TATGTAACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 14 0.36
19 8 0.21
20 17 0.44
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (18 bp):
AAACAAATTAAACACATT
Found at i:67976350 original size:29 final size:28
Alignment explanation
Indices: 67976293--67976354 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
67976283 TTCATTTAAC
* *
67976293 AAACACATTAAAACACATTAAACATATT
1 AAACACATTAAAACAAATTAAACACATT
*
67976321 AAACACATTAATCACAAATTAAACACATT
1 AAACACATTAA-AACAAATTAAACACATT
67976350 AAACA
1 AAACA
67976355 TATGTAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (28 bp):
AAACACATTAAAACAAATTAAACACATT
Found at i:67976849 original size:21 final size:20
Alignment explanation
Indices: 67976825--67976864 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
67976815 ATAGAAGAGT
*
67976825 AAAAAGAGCGAGAAACGGGCC
1 AAAAAGAGAGA-AAACGGGCC
*
67976846 AAAAATAGAGAAAACGGGC
1 AAAAAGAGAGAAAACGGGC
67976865 TAACATGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.53, C:0.15, G:0.30, T:0.03
Consensus pattern (20 bp):
AAAAAGAGAGAAAACGGGCC
Found at i:67978066 original size:16 final size:16
Alignment explanation
Indices: 67978045--67978075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67978035 CTCAGAATCT
*
67978045 AAGGTATGTTTAATTG
1 AAGGTATATTTAATTG
67978061 AAGGTATATTTAATT
1 AAGGTATATTTAATT
67978076 TTATTTCTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (16 bp):
AAGGTATATTTAATTG
Found at i:67992192 original size:12 final size:12
Alignment explanation
Indices: 67992166--67992207 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
67992156 TTTTCTCGTG
*
67992166 TTTCTTT-TCTT
1 TTTCTTTCTATT
*
67992177 TTTCTTTCTTTT
1 TTTCTTTCTATT
*
67992189 TTTCTTGCTATT
1 TTTCTTTCTATT
67992201 TTTCTTT
1 TTTCTTT
67992208 TGATTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTCTTTCTATT
Found at i:67995366 original size:20 final size:19
Alignment explanation
Indices: 67995329--67995384 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 19
67995319 TTCATTTAAC
*
67995329 AAACACATTAAAACACATT
1 AAACACATTAACACACATT
67995348 AAACACATTAATCACACATT
1 AAACACATTAA-CACACATT
67995368 AAACACATTAA-ACACAT
1 AAACACATTAACACACAT
67995385 GTAACAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
18 6 0.17
19 11 0.31
20 18 0.51
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.21
Consensus pattern (19 bp):
AAACACATTAACACACATT
Found at i:67995390 original size:9 final size:9
Alignment explanation
Indices: 67995329--67995384 Score: 85
Period size: 9 Copynumber: 5.9 Consensus size: 9
67995319 TTCATTTAAC
67995329 AAACACATT
1 AAACACATT
67995338 AAAACACATT
1 -AAACACATT
67995348 AAACACATT
1 AAACACATT
67995357 AATCACACATT
1 AA--ACACATT
67995368 AAACACATT
1 AAACACATT
67995377 AAACACAT
1 AAACACAT
67995385 GTAACAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
9 26 0.59
10 9 0.20
11 9 0.20
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.21
Consensus pattern (9 bp):
AAACACATT
Found at i:67995434 original size:34 final size:34
Alignment explanation
Indices: 67995396--67995487 Score: 132
Period size: 34 Copynumber: 2.7 Consensus size: 34
67995386 TAACAATAAA
* * **
67995396 TTATTCCAGCAACTAAATTAACTAAGATAAGTAT
1 TTATTCTAGCAACTCAATTAACTAAGATAAACAT
*
67995430 TTATTCTAGCACCTCAATTAACTAAGATAAACAT
1 TTATTCTAGCAACTCAATTAACTAAGATAAACAT
67995464 TTATTCTAGCAACTCAATT-ACTAA
1 TTATTCTAGCAACTCAATTAACTAA
67995488 CTAAGATGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 5 0.10
34 47 0.90
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (34 bp):
TTATTCTAGCAACTCAATTAACTAAGATAAACAT
Found at i:67996839 original size:22 final size:22
Alignment explanation
Indices: 67996811--67996857 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
67996801 ATCAACAATA
*
67996811 AAGCATGCGAAATCAATGAATC
1 AAGCATGAGAAATCAATGAATC
67996833 AAGCATGAGAAATCAATGAATC
1 AAGCATGAGAAATCAATGAATC
67996855 AAG
1 AAG
67996858 TCCTCTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (22 bp):
AAGCATGAGAAATCAATGAATC
Found at i:67997976 original size:10 final size:10
Alignment explanation
Indices: 67997963--67998035 Score: 51
Period size: 10 Copynumber: 7.5 Consensus size: 10
67997953 TTTAAAATTA
67997963 TTAAAAAAAT
1 TTAAAAAAAT
67997973 TTAAAAAAAT
1 TTAAAAAAAT
* * *
67997983 AT-AAATATT
1 TTAAAAAAAT
** *
67997992 TTAAATTATT
1 TTAAAAAAAT
**
67998002 TTAAAATTA-
1 TTAAAAAAAT
67998011 TTAAAAAAAT
1 TTAAAAAAAT
67998021 TTAAAAAAAT
1 TTAAAAAAAT
*
67998031 ATAAA
1 TTAAA
67998036 TATTTTAAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
9 13 0.26
10 37 0.74
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TTAAAAAAAT
Found at i:67997977 original size:19 final size:18
Alignment explanation
Indices: 67997967--67998026 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
67997957 AAATTATTAA
* *
67997967 AAAAATTTAAAAAAATAT
1 AAAATTTTAAAAAAATTT
** *
67997985 AAATATTTTAAATTATTTT
1 AAA-ATTTTAAAAAAATTT
67998004 AAAATTATTAAAAAAATTT
1 AAAATT-TTAAAAAAATTT
67998023 AAAA
1 AAAA
67998027 AAATATAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
18 6 0.19
19 26 0.81
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTTTAAAAAAATTT
Found at i:67998005 original size:48 final size:48
Alignment explanation
Indices: 67997947--67998058 Score: 201
Period size: 48 Copynumber: 2.4 Consensus size: 48
67997937 TATTCCTTAG
67997947 AATTATTTTAAAATTATTAAAAAAATTTAAAAAAATATAAATATTTTA
1 AATTATTTTAAAATTATTAAAAAAATTTAAAAAAATATAAATATTTTA
67997995 AATTATTTTAAAATTATTAAAAAAATTTAAAAAAATATAAATATTTTA
1 AATTATTTTAAAATTATTAAAAAAATTTAAAAAAATATAAATATTTTA
*
67998043 AA-T-TTTAAAAATTATT
1 AATTATTTTAAAATTATT
67998059 TTATATTTCT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
46 12 0.19
47 1 0.02
48 50 0.79
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (48 bp):
AATTATTTTAAAATTATTAAAAAAATTTAAAAAAATATAAATATTTTA
Found at i:67999468 original size:31 final size:31
Alignment explanation
Indices: 67999395--67999469 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
67999385 TTGGTATAAT
*
67999395 TATATACATTAAATTTTAATTTTAATTTAAA
1 TATATACATAAAATTTTAATTTTAATTTAAA
* * * **
67999426 TGTATATATAAAATTTTAATTTTGATTTATC
1 TATATACATAAAATTTTAATTTTAATTTAAA
*
67999457 TATACACATAAAA
1 TATATACATAAAA
67999470 AAATAAAAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (31 bp):
TATATACATAAAATTTTAATTTTAATTTAAA
Found at i:68000580 original size:7 final size:7
Alignment explanation
Indices: 68000568--68000593 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
68000558 AATCGAATAA
68000568 ATATTAT
1 ATATTAT
68000575 ATATTAT
1 ATATTAT
68000582 ATATTAT
1 ATATTAT
68000589 ATATT
1 ATATT
68000594 TTTTAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATATTAT
Found at i:68003077 original size:17 final size:17
Alignment explanation
Indices: 68003055--68003110 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
68003045 TATTTGCTTC
68003055 TACTTTTGACTAAAAAA
1 TACTTTTGACTAAAAAA
*
68003072 TACTTTTG-C-AAAACA
1 TACTTTTGACTAAAAAA
* *
68003087 T--TTTTGTCTCAAAAA
1 TACTTTTGACTAAAAAA
68003102 TACTTTTGA
1 TACTTTTGA
68003111 AAAGTTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 5 0.16
14 1 0.03
15 11 0.35
16 1 0.03
17 13 0.42
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (17 bp):
TACTTTTGACTAAAAAA
Found at i:68007640 original size:25 final size:25
Alignment explanation
Indices: 68007606--68007656 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
68007596 TAAGTCAACA
68007606 TCATCTACAAGATGCGTTCTATGCT
1 TCATCTACAAGATGCGTTCTATGCT
68007631 TCATCTACAAGATGCGTTCTATGCT
1 TCATCTACAAGATGCGTTCTATGCT
68007656 T
1 T
68007657 ACACAATTAG
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:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (25 bp):
TCATCTACAAGATGCGTTCTATGCT
Found at i:68016392 original size:17 final size:17
Alignment explanation
Indices: 68016370--68016402 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
68016360 TGGGTTCGAG
68016370 TAGCTATAGG-TATCAAA
1 TAGCTAT-GGATATCAAA
68016387 TAGCTATGGATATCAA
1 TAGCTATGGATATCAA
68016403 TACTTAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (17 bp):
TAGCTATGGATATCAAA
Found at i:68019140 original size:8 final size:8
Alignment explanation
Indices: 68019129--68019153 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
68019119 TAAAGGATGG
68019129 TTAGGTAA
1 TTAGGTAA
68019137 TTAGGTAA
1 TTAGGTAA
68019145 TTAGGTAA
1 TTAGGTAA
68019153 T
1 T
68019154 ATATGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (8 bp):
TTAGGTAA
Found at i:68024251 original size:18 final size:18
Alignment explanation
Indices: 68024228--68024267 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
68024218 CTAGTGGAGT
68024228 AGTTGTAGACCCAAATTG
1 AGTTGTAGACCCAAATTG
68024246 AGTTGTAGACCCAAATTG
1 AGTTGTAGACCCAAATTG
68024264 AGTT
1 AGTT
68024268 AGAGAGTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
AGTTGTAGACCCAAATTG
Found at i:68027192 original size:18 final size:19
Alignment explanation
Indices: 68027169--68027214 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
68027159 TGGTTTGTTT
68027169 ATTAAATATGTTT-CATGA
1 ATTAAATATGTTTGCATGA
68027187 ATTAAAT-T-TTTGCATGA
1 ATTAAATATGTTTGCATGA
*
68027204 CTTGAAATATG
1 ATT-AAATATG
68027215 GCGATTGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 11 0.48
19 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (19 bp):
ATTAAATATGTTTGCATGA
Found at i:68029874 original size:30 final size:30
Alignment explanation
Indices: 68029840--68029900 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
68029830 TCCTTAACTC
68029840 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
68029870 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
68029900 A
1 A
68029901 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:68032731 original size:29 final size:29
Alignment explanation
Indices: 68032698--68032754 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
68032688 GATTATTCCA
*
68032698 ATCAAAAATATACTCATTAAGGTTTCTAT
1 ATCAAAAATATACTCATTAAGATTTCTAT
68032727 ATCAAAAATATACTCATTAAGATTTCTA
1 ATCAAAAATATACTCATTAAGATTTCTA
68032755 AGCATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (29 bp):
ATCAAAAATATACTCATTAAGATTTCTAT
Found at i:68034303 original size:30 final size:30
Alignment explanation
Indices: 68034269--68034329 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
68034259 TCCTTAACTC
68034269 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
68034299 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
68034329 A
1 A
68034330 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:68035525 original size:6 final size:6
Alignment explanation
Indices: 68035514--68035539 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
68035504 TATTTAAAGT
68035514 TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
68035540 AATTTTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:68041857 original size:40 final size:40
Alignment explanation
Indices: 68041813--68041936 Score: 173
Period size: 40 Copynumber: 3.1 Consensus size: 40
68041803 GCAAATCAAT
*
68041813 GAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCC
68041853 GAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCC
* * *
68041893 GAAGGCATTTGAGCGAGT-AGCT-ATATCC-GGCTAAATCCC
1 GAAGGCATTTGTGCTAGTGA-CTAAT-TCCGGGCTAAGTCCC
68041932 GAAGG
1 GAAGG
68041937 TACTTGGTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
39 18 0.23
40 60 0.77
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCC
Found at i:68065461 original size:56 final size:56
Alignment explanation
Indices: 68065387--68065495 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 56
68065377 TCTTACACGT
* * *
68065387 AATCAGATATCAATGCCAACATAGTAGACGTGGTCTTACTCGCAGACATATATCGG
1 AATCACATATCAATGCCAACATAGTAAACGTGGTCTTACTCGCACACATATATCGG
* *
68065443 AATCACATATCGAA-GCCAACATATTAAATGTGGTCTTACTCGCACACATATAT
1 AATCACATATC-AATGCCAACATAGTAAACGTGGTCTTACTCGCACACATATAT
68065496 TGACACCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 45 0.96
57 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (56 bp):
AATCACATATCAATGCCAACATAGTAAACGTGGTCTTACTCGCACACATATATCGG
Found at i:68069800 original size:23 final size:23
Alignment explanation
Indices: 68069773--68069818 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
68069763 TGTGACACGG
*
68069773 GCGTGTCTGGTGGCTGTGTGAGA
1 GCGTGTCTGGTGCCTGTGTGAGA
68069796 GCGTGTCTGGTGCCTGTGTGAGA
1 GCGTGTCTGGTGCCTGTGTGAGA
68069819 CACATGGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.09, C:0.15, G:0.46, T:0.30
Consensus pattern (23 bp):
GCGTGTCTGGTGCCTGTGTGAGA
Found at i:68071696 original size:22 final size:23
Alignment explanation
Indices: 68071671--68071713 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
68071661 AACATGTTGG
68071671 ATTTTAATTAATTTT-ATAATAA
1 ATTTTAATTAATTTTGATAATAA
*
68071693 ATTTTGATTAATTTTGATAAT
1 ATTTTAATTAATTTTGATAAT
68071714 TTTTGATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (23 bp):
ATTTTAATTAATTTTGATAATAA
Found at i:68078341 original size:15 final size:16
Alignment explanation
Indices: 68078305--68078343 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
68078295 GGCAATTCCT
*
68078305 GAAATGCCAAAAAGCC
1 GAAATGTCAAAAAGCC
68078321 GAAATGTCAAAAAGCC
1 GAAATGTCAAAAAGCC
68078337 G-AATGTC
1 GAAATGTC
68078344 TGGCTACGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.13
Consensus pattern (16 bp):
GAAATGTCAAAAAGCC
Found at i:68078600 original size:29 final size:29
Alignment explanation
Indices: 68078568--68078647 Score: 103
Period size: 28 Copynumber: 2.8 Consensus size: 29
68078558 AATTGATTCA
68078568 GGCC-AGATGGGCCATATGAATGTGATTTG
1 GGCCTAGATGGGCCATATGAATGTGA-TTG
*
68078597 GGCCTA-ATGGGCCATATGAATGAGATTG
1 GGCCTAGATGGGCCATATGAATGTGATTG
* *
68078625 GGCCTAG-TGGGCCGTATGCATGT
1 GGCCTAGATGGGCCATATGAATGT
68078648 ATGTGGACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 22 0.49
29 22 0.49
30 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (29 bp):
GGCCTAGATGGGCCATATGAATGTGATTG
Found at i:68078635 original size:28 final size:29
Alignment explanation
Indices: 68078574--68078642 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
68078564 TTCAGGCCAG
*
68078574 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
68078603 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
* *
68078631 GTGGGCCGTATG
1 ATGGGCCATATG
68078643 CATGTATGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCTA
Found at i:68081578 original size:42 final size:38
Alignment explanation
Indices: 68081515--68081616 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 38
68081505 ATAGCCCAGC
*
68081515 TATGGTCTTACACGAAATCTCACATCAACGCCATATC-CTAGA
1 TATGGTCTTATACGAAATCT--CAT--ACGCCATATCTC-AGA
*
68081557 TATGGTCTTATAC-AAAGTCTCATATGCCATATCTCAGA
1 TATGGTCTTATACGAAA-TCTCATACGCCATATCTCAGA
*
68081595 TATGGTCTTATACGTAATCTCA
1 TATGGTCTTATACGAAATCTCA
68081617 GTAACCCTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
38 30 0.56
39 3 0.06
40 3 0.06
41 3 0.06
42 15 0.28
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TATGGTCTTATACGAAATCTCATACGCCATATCTCAGA
Found at i:68085675 original size:37 final size:36
Alignment explanation
Indices: 68085597--68085712 Score: 124
Period size: 37 Copynumber: 3.2 Consensus size: 36
68085587 ACATATTTTT
* * * * *
68085597 CCATGGCCCTGCCAAGGTCTTACACGTATCACAATG
1 CCATAGCCCAGCCATGGTCTTACACGTATTACGATG
*
68085633 CCATAGCCCAGCCATGGTCTTACATGTCATTACGATG
1 CCATAGCCCAGCCATGGTCTTACACGT-ATTACGATG
* * * *
68085670 CCATAGCCCAGCTATGCTCTTATACGTTATTAAGATG
1 CCATAGCCCAGCCATGGTCTTACACG-TATTACGATG
68085707 CCATAG
1 CCATAG
68085713 TCCAACTATG
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
36 23 0.34
37 43 0.64
38 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (36 bp):
CCATAGCCCAGCCATGGTCTTACACGTATTACGATG
Found at i:68091235 original size:24 final size:23
Alignment explanation
Indices: 68091207--68091260 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
68091197 CACACCTCCA
68091207 TCTCCTAATTCCTCTCCACAAATC
1 TCTCCTAA-TCCTCTCCACAAATC
* * *
68091231 TCTCCCCAATCCTCTCCACAACTT
1 TCT-CCTAATCCTCTCCACAAATC
68091255 TCTCCT
1 TCTCCT
68091261 TGATATCCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 19 0.76
25 4 0.16
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.33
Consensus pattern (23 bp):
TCTCCTAATCCTCTCCACAAATC
Found at i:68092857 original size:30 final size:30
Alignment explanation
Indices: 68092821--68092889 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
68092811 CACATGGATA
68092821 GACACACGGGCATGTGTCTAGGCTGTGTGT
1 GACACACGGGCATGTGTCTAGGCTGTGTGT
* *
68092851 GACACACGAGTATGTGTCTAGGCTGTGTGT
1 GACACACGGGCATGTGTCTAGGCTGTGTGT
68092881 GACACACGG
1 GACACACGG
68092890 TCTATCCCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (30 bp):
GACACACGGGCATGTGTCTAGGCTGTGTGT
Found at i:68093511 original size:21 final size:21
Alignment explanation
Indices: 68093471--68093511 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
68093461 AACTCGTGAC
* *
68093471 TTAACATACTCTTTCTATTTT
1 TTAACATACTCATTCAATTTT
*
68093492 TTAACATACTCATTGAATTT
1 TTAACATACTCATTCAATTT
68093512 CCCTTTGAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAACATACTCATTCAATTTT
Found at i:68093691 original size:42 final size:42
Alignment explanation
Indices: 68093576--68093739 Score: 177
Period size: 42 Copynumber: 3.9 Consensus size: 42
68093566 TAATATACCA
* **
68093576 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* * * *
68093618 ATGCAAATAGCCCA-ATTATGGTCTTACACAAAATCTCACATTG
1 ATGC-CATATCCCAGA-TATGGTCTTACACAAAATCTCATATCG
* * * *
68093661 ATTCCATATCCCAGATATGGTCTTATACAAAGTGTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* **
68093703 ATGCCATATCTCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCA
68093740 GTAACTCTAA
Statistics
Matches: 97, Mismatches: 22, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
42 64 0.66
43 33 0.34
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
Found at i:68096138 original size:16 final size:16
Alignment explanation
Indices: 68096099--68096141 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
68096089 ATGAATCGGC
* *
68096099 AAAAGCCAAAATGCCA
1 AAAAGCCGAAATACCA
*
68096115 AAAAGCCGAAATACCG
1 AAAAGCCGAAATACCA
68096131 AAAAGCCGAAA
1 AAAAGCCGAAA
68096142 GTTGGGCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.56, C:0.23, G:0.16, T:0.05
Consensus pattern (16 bp):
AAAAGCCGAAATACCA
Found at i:68096421 original size:29 final size:29
Alignment explanation
Indices: 68096352--68096470 Score: 109
Period size: 29 Copynumber: 4.2 Consensus size: 29
68096342 GTGAGCATGA
* *
68096352 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
*
68096380 ATATGAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
** * *
68096409 ATAAAAATATGAACTAGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTAG-TGGGCC
* * *
68096438 ATTTGAATAAG-ATTGGGCATAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
*
68096466 CTATG
1 ATATG
68096471 CATGTATGTA
Statistics
Matches: 71, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
28 20 0.28
29 51 0.72
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAGTGGGCC
Found at i:68102335 original size:339 final size:339
Alignment explanation
Indices: 68101715--68102392 Score: 1356
Period size: 339 Copynumber: 2.0 Consensus size: 339
68101705 CTTATGTAAT
68101715 CTTTTATGTGCTTATGAGATTGAATTAATTTTTTGAATTGGCATAGAGATATGTATAAGAGATTA
1 CTTTTATGTGCTTATGAGATTGAATTAATTTTTTGAATTGGCATAGAGATATGTATAAGAGATTA
68101780 CTTTAATTTCATAAGTATGTATGTGCATTAACACATTTGCCTATTAAAATTTGTTTAATCTGTAA
66 CTTTAATTTCATAAGTATGTATGTGCATTAACACATTTGCCTATTAAAATTTGTTTAATCTGTAA
68101845 TAGCCCAATTTCGGTGTAATCGGAATAGTGGTTTCGGGACCACAAATCTGAGCCAAAAATAAGAT
131 TAGCCCAATTTCGGTGTAATCGGAATAGTGGTTTCGGGACCACAAATCTGAGCCAAAAATAAGAT
68101910 TTATTTTTATTTTATTATATGATCCGTATTATATTAGAAATGTCATGTGAAAATTTTTATGAGAA
196 TTATTTTTATTTTATTATATGATCCGTATTATATTAGAAATGTCATGTGAAAATTTTTATGAGAA
68101975 AATTTTACTGATTATGTGCTTAATCACGAAAAGGACTAAATTGCATAAAATACAAAAGTTGAAGT
261 AATTTTACTGATTATGTGCTTAATCACGAAAAGGACTAAATTGCATAAAATACAAAAGTTGAAGT
68102040 CTAGTAGCTATAAG
326 CTAGTAGCTATAAG
68102054 CTTTTATGTGCTTATGAGATTGAATTAATTTTTTGAATTGGCATAGAGATATGTATAAGAGATTA
1 CTTTTATGTGCTTATGAGATTGAATTAATTTTTTGAATTGGCATAGAGATATGTATAAGAGATTA
68102119 CTTTAATTTCATAAGTATGTATGTGCATTAACACATTTGCCTATTAAAATTTGTTTAATCTGTAA
66 CTTTAATTTCATAAGTATGTATGTGCATTAACACATTTGCCTATTAAAATTTGTTTAATCTGTAA
68102184 TAGCCCAATTTCGGTGTAATCGGAATAGTGGTTTCGGGACCACAAATCTGAGCCAAAAATAAGAT
131 TAGCCCAATTTCGGTGTAATCGGAATAGTGGTTTCGGGACCACAAATCTGAGCCAAAAATAAGAT
68102249 TTATTTTTATTTTATTATATGATCCGTATTATATTAGAAATGTCATGTGAAAATTTTTATGAGAA
196 TTATTTTTATTTTATTATATGATCCGTATTATATTAGAAATGTCATGTGAAAATTTTTATGAGAA
68102314 AATTTTACTGATTATGTGCTTAATCACGAAAAGGACTAAATTGCATAAAATACAAAAGTTGAAGT
261 AATTTTACTGATTATGTGCTTAATCACGAAAAGGACTAAATTGCATAAAATACAAAAGTTGAAGT
68102379 CTAGTAGCTATAAG
326 CTAGTAGCTATAAG
68102393 GATTAAATAG
Statistics
Matches: 339, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
339 339 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (339 bp):
CTTTTATGTGCTTATGAGATTGAATTAATTTTTTGAATTGGCATAGAGATATGTATAAGAGATTA
CTTTAATTTCATAAGTATGTATGTGCATTAACACATTTGCCTATTAAAATTTGTTTAATCTGTAA
TAGCCCAATTTCGGTGTAATCGGAATAGTGGTTTCGGGACCACAAATCTGAGCCAAAAATAAGAT
TTATTTTTATTTTATTATATGATCCGTATTATATTAGAAATGTCATGTGAAAATTTTTATGAGAA
AATTTTACTGATTATGTGCTTAATCACGAAAAGGACTAAATTGCATAAAATACAAAAGTTGAAGT
CTAGTAGCTATAAG
Found at i:68104569 original size:34 final size:35
Alignment explanation
Indices: 68104526--68104599 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
68104516 TTACAATGGC
* **
68104526 ATGTATAGGTTAT-ATTGGTCATATTTTCATGTAA
1 ATGTATAGGTCATAATTGGTCATATTGACATGTAA
68104560 ATGTATAGGTCATAATTGGTCATATTGACATGTAA
1 ATGTATAGGTCATAATTGGTCATATTGACATGTAA
68104595 ATGTA
1 ATGTA
68104600 AATGATTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 12 0.33
35 24 0.67
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (35 bp):
ATGTATAGGTCATAATTGGTCATATTGACATGTAA
Found at i:68112497 original size:23 final size:23
Alignment explanation
Indices: 68112469--68112514 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
68112459 TGATCTCAAA
68112469 CAGGTAAGTAAAAATCATGAACC
1 CAGGTAAGTAAAAATCATGAACC
*
68112492 CAGGTAAGTACAAATCATGAACC
1 CAGGTAAGTAAAAATCATGAACC
68112515 TCGTGTGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (23 bp):
CAGGTAAGTAAAAATCATGAACC
Found at i:68115864 original size:6 final size:6
Alignment explanation
Indices: 68115853--68115914 Score: 94
Period size: 6 Copynumber: 10.8 Consensus size: 6
68115843 CCTCCTTTTT
68115853 TTATTC TTATTC TTATTC TTATTC TTATTC TTATTC TTATT- TTATT-
1 TTATTC TTATTC TTATTC TTATTC TTATTC TTATTC TTATTC TTATTC
*
68115899 TTATT- TTATTT TTATT
1 TTATTC TTATTC TTATT
68115915 TTTGTTTTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 15 0.27
6 40 0.73
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.73
Consensus pattern (6 bp):
TTATTC
Found at i:68115915 original size:6 final size:6
Alignment explanation
Indices: 68115850--68115927 Score: 63
Period size: 6 Copynumber: 13.5 Consensus size: 6
68115840 AATCCTCCTT
* * * * * *
68115850 TTTTTA TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA TTCTTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
68115897 -TTTTA -TTTTA TTTTTA TTTTTG TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
68115928 CAATTTTATT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
5 14 0.21
6 52 0.79
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:68118378 original size:20 final size:20
Alignment explanation
Indices: 68118353--68118392 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
68118343 GATAAAACTT
68118353 GATTTGTTCTTAATTATGTG
1 GATTTGTTCTTAATTATGTG
68118373 GATTTGTTCTTAATTATGTG
1 GATTTGTTCTTAATTATGTG
68118393 TTATTAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (20 bp):
GATTTGTTCTTAATTATGTG
Found at i:68118845 original size:13 final size:13
Alignment explanation
Indices: 68118829--68118861 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
68118819 TTTAATTAAA
*
68118829 TTAGTTAATTAGT
1 TTAGATAATTAGT
68118842 TTAGATAATTAGT
1 TTAGATAATTAGT
68118855 TTA-ATAA
1 TTAGATAA
68118862 ACAAACCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:68120504 original size:25 final size:25
Alignment explanation
Indices: 68120469--68120520 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
68120459 GAACTCCTGC
68120469 TTCCAACATC-TCTTCCAAATTTATG
1 TTCCAACATCTTCTTCC-AATTTATG
* *
68120494 TTCCAATATCTTCTTCCCATTTATG
1 TTCCAACATCTTCTTCCAATTTATG
68120519 TT
1 TT
68120521 TGCACTTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.23, C:0.27, G:0.04, T:0.46
Consensus pattern (25 bp):
TTCCAACATCTTCTTCCAATTTATG
Found at i:68122109 original size:31 final size:31
Alignment explanation
Indices: 68122071--68122134 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
68122061 CCTTTTCATA
68122071 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
68122102 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
68122133 TT
1 TT
68122135 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:68122436 original size:25 final size:24
Alignment explanation
Indices: 68122342--68122473 Score: 203
Period size: 25 Copynumber: 5.4 Consensus size: 24
68122332 CTAGAGGCCT
68122342 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
68122366 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
68122390 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
68122414 AGCCCTTTATCATAACTGAGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
*
68122439 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
68122464 AGCCCTTTTA
1 AGCCCTTTTA
68122474 CACTTCCTAC
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
23 18 0.18
24 38 0.37
25 46 0.45
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:68122443 original size:49 final size:49
Alignment explanation
Indices: 68122319--68122471 Score: 204
Period size: 50 Copynumber: 3.1 Consensus size: 49
68122309 AGCATAGCTG
*
68122319 CTTTATCATATAACTAGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCC
1 CTTTATC--ATAACT-GAGGCATAAGCC-CTTTTAATAACTGGGGCATAAGCC
* *
68122370 CTTT-TAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
*
68122418 CTTTATCATAACTGAGGCATAAGCCCTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGAGGCATAAGCCCTTT-TAATAACTGGGGCATAAGCC
68122468 CTTT
1 CTTT
68122472 TACACTTCCT
Statistics
Matches: 92, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
47 23 0.25
48 19 0.21
49 22 0.24
50 24 0.26
51 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (49 bp):
CTTTATCATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
Found at i:68122547 original size:20 final size:20
Alignment explanation
Indices: 68122522--68122588 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
68122512 TTATGAATAC
68122522 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
68122542 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
68122562 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
68122582 ACCATGT
1 ATCATGT
68122589 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:68122553 original size:11 final size:11
Alignment explanation
Indices: 68122522--68122577 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
68122512 TTATGAATAC
68122522 ATCATGTGCAT
1 ATCATGTGCAT
*
68122533 ATCA--TACAT
1 ATCATGTGCAT
68122542 ATCATGTGCAT
1 ATCATGTGCAT
*
68122553 ATCA--TACAT
1 ATCATGTGCAT
*
68122562 GTCATGTGCAT
1 ATCATGTGCAT
68122573 ATCAT
1 ATCAT
68122578 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:68129140 original size:16 final size:16
Alignment explanation
Indices: 68129119--68129149 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
68129109 TGTAAAACAG
68129119 ATGAAATGAGGTTTAC
1 ATGAAATGAGGTTTAC
68129135 ATGAAATGAGGTTTA
1 ATGAAATGAGGTTTA
68129150 TTAAGGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGAAATGAGGTTTAC
Found at i:68135244 original size:100 final size:100
Alignment explanation
Indices: 68135071--68135269 Score: 265
Period size: 100 Copynumber: 2.0 Consensus size: 100
68135061 CACTTGTAGC
* * * * * *
68135071 CAAAGCTATCTGGTACACATAGTAGCCTGCAGTTAGTACTATACATACGACCAATTATCCAGTAC
1 CAAAGCTATCGGGTACACATAGTAGCATACAGTTAATACTACACATACGACCAATAATCCAGTAC
*
68135136 ACGTAGTAGCC-AGCACTTAGTACTACACACGTGAT
66 ACATAGTAGCCTA-CACTTAGTACTACACACGTGAT
* * * * *
68135171 CAAAGTTATCGGGTACACATAGTAGCATACATTTAATACTACACATGCGACCAATAATTCGGTAC
1 CAAAGCTATCGGGTACACATAGTAGCATACAGTTAATACTACACATACGACCAATAATCCAGTAC
*
68135236 ACATAGTAGCCTACACTTAGTACTACACATGTGA
66 ACATAGTAGCCTACACTTAGTACTACACACGTGA
68135270 CATCACAATA
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 84 0.99
101 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.26
Consensus pattern (100 bp):
CAAAGCTATCGGGTACACATAGTAGCATACAGTTAATACTACACATACGACCAATAATCCAGTAC
ACATAGTAGCCTACACTTAGTACTACACACGTGAT
Found at i:68135260 original size:49 final size:49
Alignment explanation
Indices: 68135082--68135266 Score: 185
Period size: 49 Copynumber: 3.7 Consensus size: 49
68135072 AAAGCTATCT
* * * * * *
68135082 GGTACACATAGTAGCCTGCAGTTAGTACTATACATACGACCAATTATCC
1 GGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATTC
* * * * * *
68135131 AGTACACGTAGTAGCC-AGCACTTAGTACTACACACGTGATCAA-AGTTATC
1 GGTACACATAGTAGCCTA-CACTTAGTACTACACATGCGACCAATA-AT-TC
* * *
68135181 GGGTACACATAGTAGCATACATTTAATACTACACATGCGACCAATAATTC
1 -GGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATTC
68135231 GGTACACATAGTAGCCTACACTTAGTACTACACATG
1 GGTACACATAGTAGCCTACACTTAGTACTACACATG
68135267 TGACATCACA
Statistics
Matches: 106, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
49 67 0.63
50 3 0.03
51 34 0.32
52 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (49 bp):
GGTACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATTC
Found at i:68137538 original size:29 final size:28
Alignment explanation
Indices: 68137502--68137579 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
68137492 TCATGAGATT
68137502 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
68137532 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
68137559 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
68137580 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:68140705 original size:24 final size:24
Alignment explanation
Indices: 68140665--68140767 Score: 108
Period size: 24 Copynumber: 4.4 Consensus size: 24
68140655 AGCTCCTCCT
*
68140665 GAGCTGATAAATAGTAAGCTCTATC
1 GAGCTGA-AAATGGTAAGCTCTATC
68140690 GAGCTGAAAATGGTAAGCTCTATC
1 GAGCTGAAAATGGTAAGCTCTATC
* *
68140714 GAGCTG--AATTGTAAGCTCTTTC
1 GAGCTGAAAATGGTAAGCTCTATC
*
68140736 GAGCT--AAATCGGTAAGCTCCAAT-
1 GAGCTGAAAAT-GGTAAGCT-CTATC
68140759 GAGCTGAAA
1 GAGCTGAAA
68140768 CAGTAAGCTT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
22 22 0.33
23 12 0.18
24 24 0.36
25 9 0.13
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (24 bp):
GAGCTGAAAATGGTAAGCTCTATC
Found at i:68140730 original size:22 final size:22
Alignment explanation
Indices: 68140678--68140754 Score: 100
Period size: 22 Copynumber: 3.4 Consensus size: 22
68140668 CTGATAAATA
68140678 GTAAGCTCTATCGAGCTGAAAATG
1 GTAAGCTCTATCGAGCTG--AATG
*
68140702 GTAAGCTCTATCGAGCTGAATT
1 GTAAGCTCTATCGAGCTGAATG
* *
68140724 GTAAGCTCTTTCGAGCTAAATCG
1 GTAAGCTCTATCGAGCTGAAT-G
68140747 GTAAGCTC
1 GTAAGCTC
68140755 CAATGAGCTG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
22 22 0.46
23 8 0.17
24 18 0.38
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (22 bp):
GTAAGCTCTATCGAGCTGAATG
Found at i:68140765 original size:45 final size:45
Alignment explanation
Indices: 68140678--68140766 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 45
68140668 CTGATAAATA
*
68140678 GTAAGCTCTATCGAGCTGAAAATGGTAAGCTCTATCGAGCTGAATT
1 GTAAGCTCTATCGAGCT-AAAATGGTAAGCTCAATCGAGCTGAATT
*
68140724 GTAAGCTCTTTCGAGCT-AAATCGGTAAGCTCCAAT-GAGCTGAA
1 GTAAGCTCTATCGAGCTAAAAT-GGTAAGCT-CAATCGAGCTGAA
68140767 ACAGTAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 4 0.10
45 16 0.41
46 19 0.49
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
GTAAGCTCTATCGAGCTAAAATGGTAAGCTCAATCGAGCTGAATT
Found at i:68140774 original size:46 final size:45
Alignment explanation
Indices: 68140677--68140781 Score: 115
Period size: 46 Copynumber: 2.3 Consensus size: 45
68140667 GCTGATAAAT
* *
68140677 AGTAAGCTCTATCGAGCTGAAAATGGTAAGCTCTATCGAGCTGAAT
1 AGTAAGCTCTATCGAGCT-AAAATGGTAAGCTCAATCGAGCTGAAC
* *
68140723 TGTAAGCTCTTTCGAGCT-AAATCGGTAAGCTCCAAT-GAGCTGAAAC
1 AGTAAGCTCTATCGAGCTAAAAT-GGTAAGCT-CAATCGAGCTG-AAC
68140769 AGTAAGCTTCTAT
1 AGTAAGC-TCTAT
68140782 AAGTTGTGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
44 4 0.08
45 14 0.29
46 27 0.55
47 4 0.08
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
AGTAAGCTCTATCGAGCTAAAATGGTAAGCTCAATCGAGCTGAAC
Found at i:68151945 original size:13 final size:13
Alignment explanation
Indices: 68151927--68151952 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68151917 AAGTAATCAT
68151927 ACACGGGCGTGTC
1 ACACGGGCGTGTC
68151940 ACACGGGCGTGTC
1 ACACGGGCGTGTC
68151953 CCTGTCGAGC
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:68152042 original size:17 final size:17
Alignment explanation
Indices: 68152020--68152075 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
68152010 TCCCTCAGAA
68152020 GTTTTGGGTTTTCTTAT
1 GTTTTGGGTTTTCTTAT
* *
68152037 GTTTT--GTTATTTTTAA
1 GTTTTGGGTT-TTCTTAT
68152053 GTTTTGGGTTTTCTTAT
1 GTTTTGGGTTTTCTTAT
68152070 GTTTTG
1 GTTTTG
68152076 TTATTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 3 0.09
16 10 0.31
17 16 0.50
18 3 0.09
ACGTcount: A:0.09, C:0.04, G:0.21, T:0.66
Consensus pattern (17 bp):
GTTTTGGGTTTTCTTAT
Found at i:68152058 original size:16 final size:16
Alignment explanation
Indices: 68152037--68152084 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
68152027 GTTTTCTTAT
68152037 GTTTTGTTATTTTTAA
1 GTTTTGTTATTTTTAA
* *
68152053 GTTTTGGGTT-TTCTTAT
1 GTTTT--GTTATTTTTAA
68152070 GTTTTGTTATTTTTA
1 GTTTTGTTATTTTTA
68152085 TTCATTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 3 0.12
16 10 0.38
17 10 0.38
18 3 0.12
ACGTcount: A:0.12, C:0.02, G:0.17, T:0.69
Consensus pattern (16 bp):
GTTTTGTTATTTTTAA
Found at i:68152060 original size:33 final size:33
Alignment explanation
Indices: 68152018--68152084 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
68152008 ATTCCCTCAG
68152018 AAGTTTTGGGTTTTCTTATGTTTTGTTATTTTT
1 AAGTTTTGGGTTTTCTTATGTTTTGTTATTTTT
68152051 AAGTTTTGGGTTTTCTTATGTTTTGTTATTTTT
1 AAGTTTTGGGTTTTCTTATGTTTTGTTATTTTT
68152084 A
1 A
68152085 TTCATTTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.03, G:0.18, T:0.66
Consensus pattern (33 bp):
AAGTTTTGGGTTTTCTTATGTTTTGTTATTTTT
Found at i:68155912 original size:17 final size:18
Alignment explanation
Indices: 68155887--68155920 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
68155877 AAAGTCATTC
68155887 TCTTGTAAAACATTATTA
1 TCTTGTAAAACATTATTA
*
68155905 TCTT-TAAAACTTTATT
1 TCTTGTAAAACATTATT
68155921 TTCTCCGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (18 bp):
TCTTGTAAAACATTATTA
Found at i:68156383 original size:21 final size:20
Alignment explanation
Indices: 68156353--68156393 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
68156343 TATTACCAGC
68156353 CCAGTCCAACCAACACACCA
1 CCAGTCCAACCAACACACCA
*
68156373 CCAGTACCAACCAGCACACCA
1 CCAGT-CCAACCAACACACCA
68156394 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.49, G:0.07, T:0.05
Consensus pattern (20 bp):
CCAGTCCAACCAACACACCA
Found at i:68156767 original size:21 final size:22
Alignment explanation
Indices: 68156743--68156794 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
68156733 GGCACACAAT
*
68156743 CATAATCAGGTT-GGACAAAGC
1 CATAATCAGGTTAGCACAAAGC
68156764 CATATAT-AGGTTAGCACAAAGC
1 CATA-ATCAGGTTAGCACAAAGC
68156786 CATAATCAG
1 CATAATCAG
68156795 AAAATTGGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (22 bp):
CATAATCAGGTTAGCACAAAGC
Found at i:68156989 original size:40 final size:41
Alignment explanation
Indices: 68156945--68157024 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 41
68156935 ATCCTTAATC
68156945 GGTGGATCCAC-AGTCGTCAAGCAA-CATGCGATCATCAATA
1 GGTGGATCCACGA-TCGTCAAGCAACCATGCGATCATCAATA
*
68156985 GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
1 GGTGGATCCACGATCGTCAAGCAACCATGCGATCATCAAT
68157025 TTCTTCCTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
40 22 0.59
41 15 0.41
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.20
Consensus pattern (41 bp):
GGTGGATCCACGATCGTCAAGCAACCATGCGATCATCAATA
Found at i:68157296 original size:27 final size:27
Alignment explanation
Indices: 68157264--68157740 Score: 340
Period size: 27 Copynumber: 17.7 Consensus size: 27
68157254 TTGGTAAATC
* *
68157264 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* * *
68157291 TGCAAACCAATGGTATTTCTG-TAATTT
1 TACAAATCAAGGGTATTT-TGATAATTT
**
68157318 TTGAAAGTCAAGGGTATTTTTG-TAATTT
1 TACAAA-TCAAGGGTA-TTTTGATAATTT
** * *
68157346 TGTAAACCAGGGGTATTTATG-TAATTT
1 TACAAATCAAGGGTATTT-TGATAATTT
* *
68157373 TCCAAATCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* * * * *
68157400 TCCAAATTAGGGGTGTTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* *
68157427 TACAAATTAAAGGTATTTT-AGTAATTT
1 TACAAATCAAGGGTATTTTGA-TAATTT
* * *
68157454 TACAAGTCAATGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* ** * * *
68157481 TATAGGTCGAGCGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* *
68157508 CACAAATCAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* * *
68157535 TACAAACCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* *
68157562 TACAAGTCGAA-GGTA-TTTAAGTAATTT
1 TACAAATC-AAGGGTATTTTGA-TAATTT
* *
68157589 TACAAGTCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* * *
68157616 CACAAATTAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* *
68157643 TACAAACCAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* * *
68157670 TGCTAATCGAGGGTATTTT-AGTAATTT
1 TACAAATCAAGGGTATTTTGA-TAATTT
** * * *
68157697 TGTAAACCAATGGTATTTAG-TAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
** *
68157723 TGTAAACCAAGGGTATTT
1 TACAAATCAAGGGTATTT
68157741 CAGTAATTCT
Statistics
Matches: 364, Mismatches: 73, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
26 32 0.09
27 304 0.84
28 25 0.07
29 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTTGATAATTT
Found at i:68158006 original size:8 final size:8
Alignment explanation
Indices: 68157993--68158023 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
68157983 CCGTGTGACT
68157993 GGCATTTC
1 GGCATTTC
68158001 GGCATTTC
1 GGCATTTC
68158009 GGCATTTC
1 GGCATTTC
*
68158017 GACATTT
1 GGCATTT
68158024 GCTGTTCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (8 bp):
GGCATTTC
Found at i:68159120 original size:30 final size:30
Alignment explanation
Indices: 68159084--68159144 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
68159074 TTCCCGAGCC
*
68159084 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
68159114 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
68159144 T
1 T
68159145 GTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:68180811 original size:46 final size:45
Alignment explanation
Indices: 68180640--68180805 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 45
68180630 AACCCGCCCA
*
68180640 AAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGA-CATTCGCATCCAT
* * *
68180686 AAGTGAACTCAGACTCAACTCAACGAGCTCGA-ATAC-CTAGT-TAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGACATTCGC-A-TCCAT
** * * *
68180730 ATCTCTCGAGCTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 A--AGT-GAACTCGGACTCAACTCAACGAGCTC-GACATTCGCATCCAT
68180779 AAGTGAACTCGGACTCAACTCAACGAG
1 AAGTGAACTCGGACTCAACTCAACGAG
68180806 TTCGGATGCC
Statistics
Matches: 95, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
43 1 0.01
44 6 0.06
45 1 0.01
46 53 0.56
47 23 0.24
48 3 0.03
49 7 0.07
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCAT
Found at i:68183240 original size:30 final size:30
Alignment explanation
Indices: 68183196--68183284 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
68183186 CAAAGATAAC
*
68183196 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
68183225 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
68183255 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
68183285 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:68183244 original size:15 final size:14
Alignment explanation
Indices: 68183196--68183278 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
68183186 CAAAGATAAC
*
68183196 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
68183210 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
68183225 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
68183240 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
68183255 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
68183270 AAGAAACCC
1 AAGAAACCC
68183279 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:68183284 original size:15 final size:15
Alignment explanation
Indices: 68183207--68183284 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
68183197 AGAAAACCGA
68183207 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
68183222 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
68183236 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
68183251 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
68183267 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
68183282 ATA
1 ATA
68183285 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:68184599 original size:47 final size:47
Alignment explanation
Indices: 68184530--68184622 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
68184520 CTCGTATCAT
* *
68184530 AATATTATGACCTTTATTCATACCTGTACTACTTTTTATTTATTCCA
1 AATATTATGACCTTTATTCATACCTCTACTACTTTCTATTTATTCCA
68184577 AATATTATGACCTTTATTCATACCTCTACTACTTTCTATTTATTCC
1 AATATTATGACCTTTATTCATACCTCTACTACTTTCTATTTATTCC
68184623 GTTCATCTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.27, C:0.22, G:0.03, T:0.48
Consensus pattern (47 bp):
AATATTATGACCTTTATTCATACCTCTACTACTTTCTATTTATTCCA
Found at i:68188588 original size:9 final size:9
Alignment explanation
Indices: 68188574--68188599 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
68188564 TACTAACGAT
68188574 TTTAAATTA
1 TTTAAATTA
68188583 TTTAAATTA
1 TTTAAATTA
68188592 TTTAAATT
1 TTTAAATT
68188600 TCAATTTTCA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTAAATTA
Found at i:68196558 original size:13 final size:13
Alignment explanation
Indices: 68196536--68196568 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
68196526 AAGGGTTTGT
68196536 TTAT-TAAACTAA
1 TTATCTAAACTAA
68196548 TTATCTAAACTAA
1 TTATCTAAACTAA
*
68196561 TTAACTAA
1 TTATCTAA
68196569 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:68196572 original size:281 final size:281
Alignment explanation
Indices: 68196063--68196624 Score: 1088
Period size: 281 Copynumber: 2.0 Consensus size: 281
68196053 CACTGATCAC
*
68196063 GTGATTCGTAACAAGTAATAAATATTTATAATGAAGATCAAACCTAGACTAACTATTATTACGAC
1 GTGATTCGTAACAAGTAATAAATATTTATAATGAAGATCAAACCTAGACTAACTATTATCACGAC
68196128 GAAAAGGCAAGCGCACCTATCGAACAATAGTATGTAATGGCAAGACCGGGATATCGTACCCAAGG
66 GAAAAGGCAAGCGCACCTATCGAACAATAGTATGTAATGGCAAGACCGGGATATCGTACCCAAGG
*
68196193 GAACCAAAAGTACTAGTAATAACTATCTTTTTATTATCTAGCCTAAGAATAAAAGGGTTTGTTTA
131 GAACCAAAAGTACTAGTAATAACTATATTTTTATTATCTAGCCTAAGAATAAAAGGGTTTGTTTA
*
68196258 TTAAACTAATTATCTAAACTAATTAAATAATTTAATTAAAGCAAATAGAAAATTTGGAAAAAGAC
196 TTAAACTAATTATCTAAACTAATTAAATAATTTAATTAAAGCAAAGAGAAAATTTGGAAAAAGAC
68196323 TTGAAGAAAAGCAATTGATAA
261 TTGAAGAAAAGCAATTGATAA
68196344 GTGATTCGTAACAAGTAATAAATATTTATAATGAAGATCAAACCTAGACTAACTATTATCACGAC
1 GTGATTCGTAACAAGTAATAAATATTTATAATGAAGATCAAACCTAGACTAACTATTATCACGAC
68196409 GAAAAGGCAAGCGCACCTATCGAACAATAGTATGTAATGGCAAGACCGGGATATCGTACCCAAGG
66 GAAAAGGCAAGCGCACCTATCGAACAATAGTATGTAATGGCAAGACCGGGATATCGTACCCAAGG
68196474 GAACCAAAAGTACTAGTAATAACTATATTTTTATTATCTAGCCTAAGAATAAAAGGGTTTGTTTA
131 GAACCAAAAGTACTAGTAATAACTATATTTTTATTATCTAGCCTAAGAATAAAAGGGTTTGTTTA
*
68196539 TTAAACTAATTATCTAAACTAATTAACTAATTTAATTAAAGCAAAGAGAAAATTTGGAAAAAGAC
196 TTAAACTAATTATCTAAACTAATTAAATAATTTAATTAAAGCAAAGAGAAAATTTGGAAAAAGAC
68196604 TTGAAGAAAAGCAATTGATAA
261 TTGAAGAAAAGCAATTGATAA
68196625 AAACGACACC
Statistics
Matches: 277, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
281 277 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (281 bp):
GTGATTCGTAACAAGTAATAAATATTTATAATGAAGATCAAACCTAGACTAACTATTATCACGAC
GAAAAGGCAAGCGCACCTATCGAACAATAGTATGTAATGGCAAGACCGGGATATCGTACCCAAGG
GAACCAAAAGTACTAGTAATAACTATATTTTTATTATCTAGCCTAAGAATAAAAGGGTTTGTTTA
TTAAACTAATTATCTAAACTAATTAAATAATTTAATTAAAGCAAAGAGAAAATTTGGAAAAAGAC
TTGAAGAAAAGCAATTGATAA
Found at i:68198726 original size:21 final size:21
Alignment explanation
Indices: 68198702--68198766 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
68198692 TGGGTAGTGT
68198702 GAAAATGTATAACGACTTGAA
1 GAAAATGTATAACGACTTGAA
* *
68198723 G-AAAT-TGTAA-G---T-AT
1 GAAAATGTATAACGACTTGAA
68198737 GAAAATGTATAACGACTTGAA
1 GAAAATGTATAACGACTTGAA
*
68198758 GAAATTGTA
1 GAAAATGTA
68198767 CTGGTGGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 14
0.63 0.10 0.27
Matches are distributed among these distances:
14 2 0.06
15 5 0.16
16 4 0.12
17 1 0.03
18 1 0.03
19 4 0.12
20 5 0.16
21 10 0.31
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (21 bp):
GAAAATGTATAACGACTTGAA
Found at i:68200830 original size:48 final size:48
Alignment explanation
Indices: 68200715--68201072 Score: 207
Period size: 48 Copynumber: 7.5 Consensus size: 48
68200705 TATGTGTGCT
** ***
68200715 AGTGTAAGACATGTCTGGGACATGCATTGGCCACTTTACGA-G--AGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCTTCGAGA-GATGCAAGCC
68200761 AGTGTAAGACATGTCTGGGACATGCATTGGCTTCGAGAGATGCAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCTTCGAGAGATGCAAGCC
* * * *
68200809 AGTGTAAGACATGTCTAGGACATGCATCGGCATT---GAGA-CCAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGGC-TTCGAGAGATGCA-AGCC
* * * * * * *
68200855 AGTGTAAGACATGTCTGGGATATGGATCGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGGCTTCGAGAGATGCAAGCC
** * *** * * *
68200903 AGCATAAGACCTGTCTGGGACATGGCATCAACATCGATAAATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATTGGCTTCGAGAGATGCA-AGCC
* * * * * * *
68200952 AGTGTAAGACTTGTCTGGGACACGACATTAGCCTT-GATATATGAAAGTC
1 AGTGTAAGACATGTCTGGGACATG-CATT-GGCTTCGAGAGATGCAAGCC
* * * * * *
68201001 AGTGTAAGACCTCTCTGGGACATGGCATTGACTTTGA-TG-TGCTAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATTGGCTTCGAGAGATGCAAGCC
*
68201048 AATGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
68201073 GCATCGGCAT
Statistics
Matches: 246, Mismatches: 49, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
45 5 0.02
46 69 0.28
47 14 0.06
48 77 0.31
49 77 0.31
50 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCTTCGAGAGATGCAAGCC
Found at i:68200884 original size:46 final size:46
Alignment explanation
Indices: 68200715--68200885 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
68200705 TATGTGTGCT
* *
68200715 AGTGTAAGACATGTCTGGGACATGCATTGGCCACTT--TACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CA-TTGAGACGAGAGCC
*
68200761 AGTGTAAGACATGTCTGGGACATGCATTGGC-TTCGAGA-GATGCAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATT-GAGACGA-G--AGCC
* * *
68200809 AGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGACCAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCC
* *
68200855 AGTGTAAGACATGTCTGGGATATGGATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
68200886 CTCGAGATAT
Statistics
Matches: 109, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
43 2 0.02
45 3 0.03
46 63 0.58
48 38 0.35
49 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCC
Found at i:68200891 original size:94 final size:94
Alignment explanation
Indices: 68200715--68200931 Score: 258
Period size: 94 Copynumber: 2.3 Consensus size: 94
68200705 TATGTGTGCT
* * *
68200715 AGTGTAAGACATGTCTGGGACATGCATTGGCCACTTTACGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACTTGACCAGAGCCAGTGTAAGACATGTCTGGG
* * *
68200780 ACATGCATTGGCTTCGAGAGATGCAAGCC
66 ACATGCATCGGCCTCGAGAGATACAAGCC
* *
68200809 AGTGTAAGACATGTCTAGGACATGCATCGG-CA-TTGAGACCAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACTT--GACCAGAGCCAGTGTAAGACATGTCTG
* * * *
68200872 GGATATGGATCGGCCTCGAGATATACAAGCT
64 GGACATGCATCGGCCTCGAGAGATACAAGCC
** *
68200903 AGCATAAGACCTGTCTGGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACAT-GCATC
68200932 AACATCGATA
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
92 2 0.02
93 2 0.02
94 95 0.91
95 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACTTGACCAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCCTCGAGAGATACAAGCC
Found at i:68200967 original size:49 final size:49
Alignment explanation
Indices: 68200907--68201077 Score: 148
Period size: 49 Copynumber: 3.5 Consensus size: 49
68200897 CAAGCTAGCA
*
68200907 TAAGACCTGTCTGGGACATGGCATCAACATCGATAAATGAGAGCCAGTG
1 TAAGACCTGTCTGGGACATGGCATCAACATCGATAAATGAAAGCCAGTG
* * * * * * * * *
68200956 TAAGACTTGTCTGGGACACGACATTAGCCTTGATATATGAAAGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCAACATCGATAAATGAAAGCCAGTG
* ** * * * ** *
68201005 TAAGACCTCTCTGGGACATGGCATTGACTTTGAT--GTGCTAGCCAATG
1 TAAGACCTGTCTGGGACATGGCATCAACATCGATAAATGAAAGCCAGTG
68201052 TAAGACCATGTCTGGGACATGGCATC
1 TAAGACC-TGTCTGGGACATGGCATC
68201078 GGCATCTTAT
Statistics
Matches: 97, Mismatches: 24, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
47 15 0.15
48 16 0.16
49 66 0.68
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATCAACATCGATAAATGAAAGCCAGTG
Found at i:68202632 original size:35 final size:36
Alignment explanation
Indices: 68202568--68202648 Score: 103
Period size: 35 Copynumber: 2.2 Consensus size: 36
68202558 GGGGTGTTAC
*
68202568 ATACAGAATATCATAATTGGGCTTGAGCCCATGTCAG
1 ATACAG-ATATCATAATTGGGCCTGAGCCCATGTCAG
*
68202605 ATACAGATAT-A-AATTCGGGCCTGAGCCCATTTCAG
1 ATACAGATATCATAATT-GGGCCTGAGCCCATGTCAG
*
68202640 ATATAGATA
1 ATACAGATA
68202649 AGGTTACAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
34 4 0.10
35 26 0.65
36 4 0.10
37 6 0.15
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (36 bp):
ATACAGATATCATAATTGGGCCTGAGCCCATGTCAG
Found at i:68218407 original size:27 final size:26
Alignment explanation
Indices: 68218359--68218418 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
68218349 GCGAGGCTGC
*
68218359 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
68218386 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
68218412 CAGATAT
1 CAGATAT
68218419 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:68218463 original size:71 final size:67
Alignment explanation
Indices: 68218386--68218527 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
68218376 TCACCAGATA
* * * *
68218386 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATATGTCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATATGGCGAAGCCACCAGATTGCAGCGA
*
68218451 GGTTGC
62 GGCTGC
* * *
68218457 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATATGGCGAAGCCACCAGATTGCAGCGAGGCT
68218522 GC
66 GC
68218524 CAGA
1 CAGA
68218528 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 38 0.60
71 25 0.40
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATATGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:68218505 original size:27 final size:26
Alignment explanation
Indices: 68218457--68218508 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
68218447 GCGAGGTTGC
*
68218457 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
68218483 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
68218509 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:68231517 original size:63 final size:63
Alignment explanation
Indices: 68231426--68231593 Score: 210
Period size: 63 Copynumber: 2.7 Consensus size: 63
68231416 TAAAAAGTTG
* * * * * * *
68231426 GTCACACAACCTAGACACATGCCTGTGTCTCTAGCTCGTGTGCTCTTTAATAGCAAACAGTGA
1 GTCACACGACCTGGACACATGCCCGTGTCTCTAGCCCGTGTGATCCTTAATAGAAAACAGTGA
* * * *
68231489 GTCACATGACCTGGACATATGCCCGTGTCTCTGGCCCGTGTGATCCTTAATGGAAAACAGTGA
1 GTCACACGACCTGGACACATGCCCGTGTCTCTAGCCCGTGTGATCCTTAATAGAAAACAGTGA
* * *
68231552 GTTACACGGCCTGGAGACATGCCCGTGTCTCTAGCCCGTGTG
1 GTCACACGACCTGGACACATGCCCGTGTCTCTAGCCCGTGTG
68231594 GTTTCTAAAG
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 88 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (63 bp):
GTCACACGACCTGGACACATGCCCGTGTCTCTAGCCCGTGTGATCCTTAATAGAAAACAGTGA
Found at i:68236201 original size:7 final size:7
Alignment explanation
Indices: 68236189--68236215 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
68236179 CACATTTCTA
68236189 CTCATCC
1 CTCATCC
68236196 CTCATCC
1 CTCATCC
68236203 CTCATCC
1 CTCATCC
68236210 CTCATC
1 CTCATC
68236216 ATTCATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.56, G:0.00, T:0.30
Consensus pattern (7 bp):
CTCATCC
Found at i:68236221 original size:14 final size:14
Alignment explanation
Indices: 68236188--68236222 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
68236178 TCACATTTCT
68236188 ACTCATCCCTCATC
1 ACTCATCCCTCATC
*
68236202 CCTCATCCCTCATC
1 ACTCATCCCTCATC
*
68236216 ATTCATC
1 ACTCATC
68236223 ATTCTCTCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.20, C:0.49, G:0.00, T:0.31
Consensus pattern (14 bp):
ACTCATCCCTCATC
Found at i:68243150 original size:7 final size:7
Alignment explanation
Indices: 68243138--68243164 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
68243128 CACATTTCTA
68243138 CTCATCC
1 CTCATCC
68243145 CTCATCC
1 CTCATCC
68243152 CTCATCC
1 CTCATCC
68243159 CTCATC
1 CTCATC
68243165 ATTCATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.56, G:0.00, T:0.30
Consensus pattern (7 bp):
CTCATCC
Found at i:68243170 original size:14 final size:14
Alignment explanation
Indices: 68243137--68243171 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
68243127 TCACATTTCT
68243137 ACTCATCCCTCATC
1 ACTCATCCCTCATC
*
68243151 CCTCATCCCTCATC
1 ACTCATCCCTCATC
*
68243165 ATTCATC
1 ACTCATC
68243172 ATTCTCTCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.20, C:0.49, G:0.00, T:0.31
Consensus pattern (14 bp):
ACTCATCCCTCATC
Found at i:68250079 original size:13 final size:13
Alignment explanation
Indices: 68250061--68250137 Score: 64
Period size: 13 Copynumber: 5.8 Consensus size: 13
68250051 AGTTCTTCAT
68250061 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
* *
68250074 TGCTTTTGAGAAG
1 TGCTTTTAAAAAG
* **
68250087 TGCTGTGGAAAAG
1 TGCTTTTAAAAAG
* *
68250100 TGCTTTTTAGAAG
1 TGCTTTTAAAAAG
* *
68250113 TGCTTTTAAGAGG
1 TGCTTTTAAAAAG
68250126 TGCTTTTGAAAA
1 TGCTTTT-AAAA
68250138 TTTTGAGTGT
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
13 48 0.94
14 3 0.06
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.38
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:68250128 original size:26 final size:25
Alignment explanation
Indices: 68250061--68250134 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 25
68250051 AGTTCTTCAT
68250061 TGCTTTTAAAAAGTGCTTTTGAGAAG
1 TGCTTTT-AAAAGTGCTTTTGAGAAG
** *
68250087 TGCTGTGGAAAAGTGCTTTTTAGAAG
1 TGCT-TTTAAAAGTGCTTTTGAGAAG
*
68250113 TGCTTTTAAGAGGTGCTTTTGA
1 TGCTTTTAA-AAGTGCTTTTGA
68250135 AAATTTTGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.08
26 35 0.90
27 1 0.03
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.39
Consensus pattern (25 bp):
TGCTTTTAAAAGTGCTTTTGAGAAG
Found at i:68250624 original size:15 final size:15
Alignment explanation
Indices: 68250604--68250669 Score: 100
Period size: 15 Copynumber: 4.5 Consensus size: 15
68250594 TGTTAATTCC
68250604 ATTTATGTAATTAAT
1 ATTTATGTAATTAAT
68250619 ATTTATGTAATT-AT
1 ATTTATGTAATTAAT
*
68250633 AAGTT-TGTAATTAAT
1 -ATTTATGTAATTAAT
68250648 ATTTATGTAATTAAT
1 ATTTATGTAATTAAT
68250663 ATTTATG
1 ATTTATG
68250670 ATTTTAGTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
14 12 0.26
15 34 0.74
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
ATTTATGTAATTAAT
Found at i:68252949 original size:6 final size:6
Alignment explanation
Indices: 68252919--68252987 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
68252909 AAGAAACATT
* * *
68252919 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
68252968 ATCAAA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
68252988 TAGGTGACAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 2 0.04
6 43 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:68253008 original size:31 final size:31
Alignment explanation
Indices: 68252933--68253008 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
68252923 GAACTAGAAT
* *
68252933 CAAAATGAGAATCAGAATCAGAATCAGGTGA
1 CAAAATCAGAATCAAAATCAGAATCAGGTGA
* * *
68252964 CAGAATCAAAATCAAAATCAGAATTAGGTGA
1 CAAAATCAGAATCAAAATCAGAATCAGGTGA
*
68252995 CAAAATTAGAATCA
1 CAAAATCAGAATCA
68253009 GTATCAAGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.18
Consensus pattern (31 bp):
CAAAATCAGAATCAAAATCAGAATCAGGTGA
Found at i:68253192 original size:27 final size:26
Alignment explanation
Indices: 68253155--68253262 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
68253145 AGCATGGCTG
* *
68253155 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
68253181 CCAGATACAGATATTGTGGCAGAGCCT
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
68253208 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
68253235 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
68253262 C
1 C
68253263 TTAACAGAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 12 0.17
27 52 0.72
28 8 0.11
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:68253245 original size:54 final size:53
Alignment explanation
Indices: 68253155--68253260 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 53
68253145 AGCATGGCTG
* * * *
68253155 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCT
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCT
* *
68253208 CCAGAACAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCC
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCC
68253261 ACTTAACAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCT
Found at i:68253455 original size:22 final size:22
Alignment explanation
Indices: 68253421--68253485 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
68253411 GCAAATACGT
** *
68253421 TTGGCACCCAGCCCTAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
68253443 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
*
68253465 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
68253486 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:68253789 original size:27 final size:27
Alignment explanation
Indices: 68253759--68253954 Score: 252
Period size: 27 Copynumber: 7.3 Consensus size: 27
68253749 GGGGCAAAAT
* *
68253759 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
*
68253786 GGTAATTCTACCCTACAGGGGTA-CTTC
1 GGTAATTCTACCCTACAAGGGTATC-TC
*
68253813 GGTATTTCTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATCTC
*
68253840 AGTAATTCTACCCTACAAGGGTAAT-TC
1 GGTAATTCTACCCTACAAGGGT-ATCTC
* * * *
68253867 GATATTTCTACCCTACAAGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATCTC
*
68253894 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
* *
68253921 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATCTC
68253948 GGTAATT
1 GGTAATT
68253955 TTGTAAATCG
Statistics
Matches: 149, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.02
27 143 0.96
28 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATCTC
Found at i:68254033 original size:27 final size:27
Alignment explanation
Indices: 68254003--68254060 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
68253993 CGGTACTTTG
*
68254003 GTAATTTTACAAGTTGAGCGTATTTCA
1 GTAATTTTACAAGTCGAGCGTATTTCA
* * *
68254030 GTAATTTTACAGGTCGAGGGTATTTTA
1 GTAATTTTACAAGTCGAGCGTATTTCA
68254057 GTAA
1 GTAA
68254061 CTTCACAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAGCGTATTTCA
Found at i:68254107 original size:81 final size:80
Alignment explanation
Indices: 68253994--68254353 Score: 371
Period size: 81 Copynumber: 4.4 Consensus size: 80
68253984 ATAAATCGGC
* * * * * ** * *
68253994 GGTACTTTGGTAATTTTAC-AAGTTGAGCGTATTTCAGTAATTTTACAGGTCGAGGGTATTTTAG
1 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAGTAATTTTACA-AACAAGGGTATTTTGG
* * *
68254058 TAACTTCACAAACCAGG
64 TAATTTTACAAACCAAG
* * *
68254075 GGCATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAA-CAAGGGTATTTTGGT
*
68254140 AATTTTATAAACCAAG
65 AATTTTACAAACCAAG
* * * *** * **
68254156 GGTATTTTAGTAATTTTAAAAACCAAAAGTATTTTGGTAATTTTGTAAACAAAGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAAC-AAGGGTATTTTGGT
68254221 AATTTTACAAACCAAAG
65 AATTTTACAAACC-AAG
* * *
68254238 GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTATAAACCAAAGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAA-CAAGGGTATTTTGGT
** *
68254303 AATTTTGTAAACAAAG
65 AATTTTACAAACCAAG
*
68254319 GGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
68254354 GGTGATTTGG
Statistics
Matches: 234, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.00
81 160 0.68
82 72 0.31
83 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (80 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACAAGGGTATTTTGGTA
ATTTTACAAACCAAG
Found at i:68254288 original size:109 final size:108
Alignment explanation
Indices: 68254022--68254353 Score: 448
Period size: 109 Copynumber: 3.1 Consensus size: 108
68254012 CAAGTTGAGC
* *** * * * * *** *
68254022 GTATTTCAGTAATTTTACAGGTCGAGGGTATTTTAGTAACTTCACAAACCAGGGGCATTTTGGTA
1 GTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAAAAACCAAAAGTATTTTGGTA
** * *
68254087 ATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGG
66 ATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACCAGGG
* *
68254130 GTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTAAAAACCAAAAGTATTTTGGTA
1 GTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAAAAACCAAAAGTATTTTGGTA
*
68254195 ATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACCAAAGG
66 ATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACC-AGGG
* * * *
68254239 GTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTATAAACCAAAGGTATTTTGGTA
1 GTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAAAAACCAAAAGTATTTTGGTA
68254304 ATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACCAGGG
66 ATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACCAGGG
68254347 GTATTTT
1 GTATTTT
68254354 GGTGATTTGG
Statistics
Matches: 197, Mismatches: 26, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
108 96 0.49
109 101 0.51
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (108 bp):
GTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAAAAACCAAAAGTATTTTGGTA
ATTTTGTAAACAAAGGGTATTTTGGTAATTTTACAAACCAGGG
Found at i:68254368 original size:27 final size:27
Alignment explanation
Indices: 68254046--68254361 Score: 380
Period size: 27 Copynumber: 11.7 Consensus size: 27
68254036 TTACAGGTCG
* * *
68254046 AGGGTATTTTAGTAACTTCACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
68254073 GGGGCATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
68254100 GGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
68254127 GGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
68254154 AGGGTATTTTAGTAATTTTAAAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
** ** *
68254181 AAAGTATTTTGGTAATTTTGTAAACAA
1 AGGGTATTTTGGTAATTTTACAAACCA
68254208 AGGGTATTTTGGTAATTTTACAAACCAA
1 AGGGTATTTTGGTAATTTTACAAACC-A
* *
68254236 AGGGTATTTTAGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
68254263 GGGGTATTTTAGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* ** *
68254290 AAGGTATTTTGGTAATTTTGTAAACAA
1 AGGGTATTTTGGTAATTTTACAAACCA
68254317 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
68254344 GGGGTATTTTGGTGATTT
1 AGGGTATTTTGGTAATTT
68254362 GGTAAACTAA
Statistics
Matches: 249, Mismatches: 39, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 224 0.90
28 25 0.10
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:68256252 original size:6 final size:6
Alignment explanation
Indices: 68256231--68256290 Score: 68
Period size: 6 Copynumber: 9.8 Consensus size: 6
68256221 TGTCAGAACT
* * *
68256231 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
68256280 AGAATC AGAAT
1 AGAATC AGAAT
68256291 TAGGTGACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
5 1 0.02
6 40 0.89
7 3 0.07
8 1 0.02
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (6 bp):
AGAATC
Done.