Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 155 of 182
Found at i:47730298 original size:17 final size:17
Alignment explanation
Indices: 47730252--47730317 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
47730242 ATATATATGG
**
47730252 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* **
47730269 AGATGCAGCGACAATAA
1 AAATGCAATGACAATAA
*
47730286 AAATGCAATGACATTAA
1 AAATGCAATGACAATAA
* *
47730303 TAATGCAAGGACAAT
1 AAATGCAATGACAAT
47730318 TATACTACAA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:47730309 original size:34 final size:34
Alignment explanation
Indices: 47730252--47730317 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
47730242 ATATATATGG
*
47730252 AAATGCAATGACAATGTAGATGC-AGCGACAATAA
1 AAATGCAATGACAATATAGATGCAAG-GACAATAA
*
47730286 AAATGCAATGACATTAATA-ATGCAAGGACAAT
1 AAATGCAATGACAAT-ATAGATGCAAGGACAAT
47730318 TATACTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 24 0.86
35 4 0.14
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (34 bp):
AAATGCAATGACAATATAGATGCAAGGACAATAA
Found at i:47734104 original size:24 final size:22
Alignment explanation
Indices: 47734049--47734104 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
47734039 CCCCTCTGAG
47734049 TTTTATTTAAACATTCACCACC
1 TTTTATTTAAACATTCACCACC
* * *
47734071 ATTT-TTTAAACATATCTCTACAC
1 TTTTATTTAAACAT-TCACCAC-C
47734094 TTTTATTTAAA
1 TTTTATTTAAA
47734105 GAAATCCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 9 0.33
22 8 0.30
23 4 0.15
24 6 0.22
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTTATTTAAACATTCACCACC
Found at i:47736105 original size:18 final size:19
Alignment explanation
Indices: 47736079--47736120 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
47736069 CTCAGCTCCT
*
47736079 GAGATTCCTCTGCTGCC-C
1 GAGACTCCTCTGCTGCCTC
47736097 GAGACTCCTCTGCTGCCTC
1 GAGACTCCTCTGCTGCCTC
47736116 GAGAC
1 GAGAC
47736121 CGTTTCTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.14, C:0.38, G:0.24, T:0.24
Consensus pattern (19 bp):
GAGACTCCTCTGCTGCCTC
Found at i:47736295 original size:2 final size:2
Alignment explanation
Indices: 47736288--47736317 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47736278 AGAAGGAAAA
47736288 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
47736318 CAAAAGAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47739081 original size:21 final size:21
Alignment explanation
Indices: 47739039--47739082 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
47739029 AAAACAATTT
*
47739039 TTAAAAATTTTAATGATCAAA
1 TTAAAAATTTTAATAATCAAA
* * *
47739060 TTAAAATTTTTTATAATTAAA
1 TTAAAAATTTTAATAATCAAA
47739081 TT
1 TT
47739083 TAGTGATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTAAAAATTTTAATAATCAAA
Found at i:47739164 original size:7 final size:7
Alignment explanation
Indices: 47739152--47739176 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47739142 GAAAATTGGC
47739152 TGATAGT
1 TGATAGT
47739159 TGATAGT
1 TGATAGT
47739166 TGATAGT
1 TGATAGT
47739173 TGAT
1 TGAT
47739177 TGCAGTGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (7 bp):
TGATAGT
Found at i:47740947 original size:17 final size:17
Alignment explanation
Indices: 47740925--47740961 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
47740915 TGAGATTCAT
47740925 AATAAGCATGTT-TAAAA
1 AATAAGCAT-TTATAAAA
47740942 AATAAGCATTTATAAAA
1 AATAAGCATTTATAAAA
47740959 AAT
1 AAT
47740962 TAGTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (17 bp):
AATAAGCATTTATAAAA
Found at i:47745568 original size:17 final size:17
Alignment explanation
Indices: 47745546--47745582 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
47745536 TGAGATTCAT
47745546 AATAAGCATGTT-TAAAA
1 AATAAGCAT-TTATAAAA
47745563 AATAAGCATTTATAAAA
1 AATAAGCATTTATAAAA
47745580 AAT
1 AAT
47745583 TAATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (17 bp):
AATAAGCATTTATAAAA
Found at i:47748007 original size:447 final size:447
Alignment explanation
Indices: 47747322--47748207 Score: 1763
Period size: 447 Copynumber: 2.0 Consensus size: 447
47747312 GGTACATCTT
47747322 ATATTTCACACATCATTATCTGGATACCCCGTCAACTACATCAGCGCTTAATAGTAAAAATAGAT
1 ATATTTCACACATCATTATCTGGATACCCCGTCAACTACATCAGCGCTTAATAGTAAAAATAGAT
47747387 GAAATTTTTAACAAGATGTCTAGTTTTCTTTTTGATATAACGTACAAAGATTATTTTGCTTCTTT
66 GAAATTTTTAACAAGATGTCTAGTTTTCTTTTTGATATAACGTACAAAGATTATTTTGCTTCTTT
47747452 ATTGAGTAAAAGAGACAAAATGCAATTTAACTCCTAATATAGGGGCTTTCATGGTACTTTTACCC
131 ATTGAGTAAAAGAGACAAAATGCAATTTAACTCCTAATATAGGGGCTTTCATGGTACTTTTACCC
*
47747517 ATTATGAATTTTTTTATCTTATGTCTACTATAATTAGCAGAATTGTAAGATTTGCCTCTAATGTT
196 ATTATGAATTTTTTTATCTTATGTCTACTATAATTAGCAGAATTGTAAGATTTGCCTCTAACGTT
47747582 TGTAGATTTATTCACTTTAGCCCTTAACTTTCTTTTCTCATATTAACCCTCATTGTAGCAAAATT
261 TGTAGATTTATTCACTTTAGCCCTTAACTTTCTTTTCTCATATTAACCCTCATTGTAGCAAAATT
47747647 TTTCAAATAAATCCAAAATTAATGGAAATTGTTAGTAAGCTAATAATCAATATTTTATCCAATGT
326 TTTCAAATAAATCCAAAATTAATGGAAATTGTTAGTAAGCTAATAATCAATATTTTATCCAATGT
47747712 GGCATGACACCTCAGTTGATGACTCTACTAATTTGGCATGATATGGCATGATTTGAA
391 GGCATGACACCTCAGTTGATGACTCTACTAATTTGGCATGATATGGCATGATTTGAA
47747769 ATATTTCACACATCATTATCTGGATACCCCGTCAACTACATCAGCGCTTAATAGTAAAAATAGAT
1 ATATTTCACACATCATTATCTGGATACCCCGTCAACTACATCAGCGCTTAATAGTAAAAATAGAT
47747834 GAAATTTTTAACAAGATGTCTAGTTTTCTTTTTGATATAACGTACAAAGATTATTTTGCTTCTTT
66 GAAATTTTTAACAAGATGTCTAGTTTTCTTTTTGATATAACGTACAAAGATTATTTTGCTTCTTT
47747899 ATTGAGTAAAAGAGACAAAATGCAATTTAACTCCTAATATAGGGGCTTTCATGGTACTTTTACCC
131 ATTGAGTAAAAGAGACAAAATGCAATTTAACTCCTAATATAGGGGCTTTCATGGTACTTTTACCC
47747964 ATTATGAATTTTTTTATCTTATGTCTACTATAATTAGCAGAATTGTAAGATTTGCCTCTAACGTT
196 ATTATGAATTTTTTTATCTTATGTCTACTATAATTAGCAGAATTGTAAGATTTGCCTCTAACGTT
47748029 TGTAGATTTATTCACTTTAGCCCTTAACTTTCTTTTCTCATATTAACCCTCATTGTAGCAAAATT
261 TGTAGATTTATTCACTTTAGCCCTTAACTTTCTTTTCTCATATTAACCCTCATTGTAGCAAAATT
47748094 TTTCAAATAAATCCAAAATTAATGGAAATTGTTAGTAAGCTAATAATCAATATTTTATCCAATGT
326 TTTCAAATAAATCCAAAATTAATGGAAATTGTTAGTAAGCTAATAATCAATATTTTATCCAATGT
47748159 GGCATGACACCTCAGTTGATGACTCTACTAATTTGGCATGATATGGCAT
391 GGCATGACACCTCAGTTGATGACTCTACTAATTTGGCATGATATGGCAT
47748208 TGATGATTTG
Statistics
Matches: 438, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
447 438 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (447 bp):
ATATTTCACACATCATTATCTGGATACCCCGTCAACTACATCAGCGCTTAATAGTAAAAATAGAT
GAAATTTTTAACAAGATGTCTAGTTTTCTTTTTGATATAACGTACAAAGATTATTTTGCTTCTTT
ATTGAGTAAAAGAGACAAAATGCAATTTAACTCCTAATATAGGGGCTTTCATGGTACTTTTACCC
ATTATGAATTTTTTTATCTTATGTCTACTATAATTAGCAGAATTGTAAGATTTGCCTCTAACGTT
TGTAGATTTATTCACTTTAGCCCTTAACTTTCTTTTCTCATATTAACCCTCATTGTAGCAAAATT
TTTCAAATAAATCCAAAATTAATGGAAATTGTTAGTAAGCTAATAATCAATATTTTATCCAATGT
GGCATGACACCTCAGTTGATGACTCTACTAATTTGGCATGATATGGCATGATTTGAA
Found at i:47748286 original size:24 final size:25
Alignment explanation
Indices: 47748259--47748308 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
47748249 AAAGCTTATA
47748259 AAAATATAAA-AAAAAATATTT-TTT
1 AAAATA-AAATAAAAAATATTTATTT
*
47748283 AAAATAAAATTAAAAATATTTATTT
1 AAAATAAAATAAAAAATATTTATTT
47748308 A
1 A
47748309 TCTTGATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 3 0.13
24 16 0.70
25 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAATAAAATAAAAAATATTTATTT
Found at i:47755556 original size:3 final size:3
Alignment explanation
Indices: 47755548--47755573 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47755538 TTATTTTTGT
47755548 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
47755574 TCTCTTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:47756269 original size:20 final size:21
Alignment explanation
Indices: 47756246--47756287 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
47756236 TCCTCATTTT
47756246 ATAA-TTTTTAAAAAATTAAA
1 ATAATTTTTTAAAAAATTAAA
*
47756266 ATAATTTTTTATAAAATTAAA
1 ATAATTTTTTAAAAAATTAAA
47756287 A
1 A
47756288 AATCAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATTTTTTAAAAAATTAAA
Found at i:47768238 original size:25 final size:25
Alignment explanation
Indices: 47768186--47768236 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
47768176 AAAATCAAGA
47768186 TAAATAAATATTTTTTAATTTTATTT
1 TAAATAAATATTTTTT-ATTTTATTT
47768212 TAAA-AAATATTTTTT-TTTATATTT
1 TAAATAAATATTTTTTATTT-TATTT
47768236 T
1 T
47768237 TATAAGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 3 0.12
24 6 0.25
25 11 0.46
26 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TAAATAAATATTTTTTATTTTATTT
Found at i:47769122 original size:447 final size:447
Alignment explanation
Indices: 47768288--47769173 Score: 1763
Period size: 447 Copynumber: 2.0 Consensus size: 447
47768278 CAAATCATCA
47768288 ATGCCATATCATGCCAAATTAGTAGAGTCATCAACTGAGGTGTCATGCCACATTGGATAAAATAT
1 ATGCCATATCATGCCAAATTAGTAGAGTCATCAACTGAGGTGTCATGCCACATTGGATAAAATAT
47768353 TGATTATTAGCTTACTAACAATTTCCATTAATTTTGGATTTATTTGAAAAATTTTGCTACAATGA
66 TGATTATTAGCTTACTAACAATTTCCATTAATTTTGGATTTATTTGAAAAATTTTGCTACAATGA
*
47768418 GGGTTAATATGAGAAAAGAAAGTTAAGGGCTAAAGTGAATAAATCTACAAACGTTAGAGGCAAAT
131 GGGTTAATATGAGAAAAGAAAGTTAAGGGCTAAAGTGAATAAATCTACAAACATTAGAGGCAAAT
47768483 CTTACAATTCTGCTAATTATAGTAGACATAAGATAAAAAAATTCATAATGGGTAAAAGTACCATG
196 CTTACAATTCTGCTAATTATAGTAGACATAAGATAAAAAAATTCATAATGGGTAAAAGTACCATG
47768548 AAAGCCCCTATATTAGGAGTTAAATTGCATTTTGTCTCTTTTACTCAATAAAGAAGCAAAATAAT
261 AAAGCCCCTATATTAGGAGTTAAATTGCATTTTGTCTCTTTTACTCAATAAAGAAGCAAAATAAT
47768613 CTTTGTACGTTATATCAAAAAGAAAACTAGACATCTTGTTAAAAATTTCATCTATTTTTACTATT
326 CTTTGTACGTTATATCAAAAAGAAAACTAGACATCTTGTTAAAAATTTCATCTATTTTTACTATT
47768678 AAGCGCTGATGTAGTTGACGGGGTATCCAGATAATGATGTGTGAAATATTTCAAATC
391 AAGCGCTGATGTAGTTGACGGGGTATCCAGATAATGATGTGTGAAATATTTCAAATC
47768735 ATGCCATATCATGCCAAATTAGTAGAGTCATCAACTGAGGTGTCATGCCACATTGGATAAAATAT
1 ATGCCATATCATGCCAAATTAGTAGAGTCATCAACTGAGGTGTCATGCCACATTGGATAAAATAT
47768800 TGATTATTAGCTTACTAACAATTTCCATTAATTTTGGATTTATTTGAAAAATTTTGCTACAATGA
66 TGATTATTAGCTTACTAACAATTTCCATTAATTTTGGATTTATTTGAAAAATTTTGCTACAATGA
47768865 GGGTTAATATGAGAAAAGAAAGTTAAGGGCTAAAGTGAATAAATCTACAAACATTAGAGGCAAAT
131 GGGTTAATATGAGAAAAGAAAGTTAAGGGCTAAAGTGAATAAATCTACAAACATTAGAGGCAAAT
47768930 CTTACAATTCTGCTAATTATAGTAGACATAAGATAAAAAAATTCATAATGGGTAAAAGTACCATG
196 CTTACAATTCTGCTAATTATAGTAGACATAAGATAAAAAAATTCATAATGGGTAAAAGTACCATG
47768995 AAAGCCCCTATATTAGGAGTTAAATTGCATTTTGTCTCTTTTACTCAATAAAGAAGCAAAATAAT
261 AAAGCCCCTATATTAGGAGTTAAATTGCATTTTGTCTCTTTTACTCAATAAAGAAGCAAAATAAT
47769060 CTTTGTACGTTATATCAAAAAGAAAACTAGACATCTTGTTAAAAATTTCATCTATTTTTACTATT
326 CTTTGTACGTTATATCAAAAAGAAAACTAGACATCTTGTTAAAAATTTCATCTATTTTTACTATT
47769125 AAGCGCTGATGTAGTTGACGGGGTATCCAGATAATGATGTGTGAAATAT
391 AAGCGCTGATGTAGTTGACGGGGTATCCAGATAATGATGTGTGAAATAT
47769174 AAGATGTACC
Statistics
Matches: 438, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
447 438 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (447 bp):
ATGCCATATCATGCCAAATTAGTAGAGTCATCAACTGAGGTGTCATGCCACATTGGATAAAATAT
TGATTATTAGCTTACTAACAATTTCCATTAATTTTGGATTTATTTGAAAAATTTTGCTACAATGA
GGGTTAATATGAGAAAAGAAAGTTAAGGGCTAAAGTGAATAAATCTACAAACATTAGAGGCAAAT
CTTACAATTCTGCTAATTATAGTAGACATAAGATAAAAAAATTCATAATGGGTAAAAGTACCATG
AAAGCCCCTATATTAGGAGTTAAATTGCATTTTGTCTCTTTTACTCAATAAAGAAGCAAAATAAT
CTTTGTACGTTATATCAAAAAGAAAACTAGACATCTTGTTAAAAATTTCATCTATTTTTACTATT
AAGCGCTGATGTAGTTGACGGGGTATCCAGATAATGATGTGTGAAATATTTCAAATC
Found at i:47770934 original size:17 final size:16
Alignment explanation
Indices: 47770912--47770947 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
47770902 TATTAAATTA
47770912 ATTTTTTATAAATGCTT
1 ATTTTTTA-AAATGCTT
*
47770929 ATTTTTTAACATGCTT
1 ATTTTTTAAAATGCTT
47770945 ATT
1 ATT
47770948 ATGAATCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (16 bp):
ATTTTTTAAAATGCTT
Found at i:47775550 original size:17 final size:17
Alignment explanation
Indices: 47775528--47775564 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
47775518 TATTAAACTA
47775528 ATTTTTTATAA-ATGCTT
1 ATTTTTTA-AACATGCTT
47775545 ATTTTTTAAACATGCTT
1 ATTTTTTAAACATGCTT
47775562 ATT
1 ATT
47775565 ATGAATCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (17 bp):
ATTTTTTAAACATGCTT
Found at i:47777324 original size:7 final size:7
Alignment explanation
Indices: 47777312--47777336 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47777302 AACCACTGCA
47777312 ATCAACT
1 ATCAACT
47777319 ATCAACT
1 ATCAACT
47777326 ATCAACT
1 ATCAACT
47777333 ATCA
1 ATCA
47777337 GCCAATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
ATCAACT
Found at i:47778613 original size:17 final size:17
Alignment explanation
Indices: 47778590--47778623 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47778580 GATTTATTCA
*
47778590 AAAAAAATAAAAAGAAAC
1 AAAAAAA-AGAAAGAAAC
47778608 AAAAAAAAGAAAGAAA
1 AAAAAAAAGAAAGAAA
47778624 ATGAACATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (17 bp):
AAAAAAAAGAAAGAAAC
Found at i:47780171 original size:2 final size:2
Alignment explanation
Indices: 47780164--47780191 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47780154 TATTCTTTTG
47780164 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
47780192 TTTTCCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:47780389 original size:18 final size:19
Alignment explanation
Indices: 47780359--47780400 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
47780349 CAGAGAAACG
47780359 GTCTCGAGGCAGCAGAGGA
1 GTCTCGAGGCAGCAGAGGA
47780378 GTCTCG-GGCAGCAGAGGA
1 GTCTCGAGGCAGCAGAGGA
47780396 GTCTC
1 GTCTC
47780401 AGGAGCTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.21, C:0.24, G:0.40, T:0.14
Consensus pattern (19 bp):
GTCTCGAGGCAGCAGAGGA
Found at i:47786182 original size:17 final size:16
Alignment explanation
Indices: 47786120--47786184 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 16
47786110 CTGTAGTATA
*
47786120 ATTGTCCTTGCATTATT
1 ATTGTCATTGCATTA-T
*
47786137 AATT-TCATTGCATTTTT
1 -ATTGTCATTGCA-TTAT
**
47786154 ATTGTCGCTGCATCTAT
1 ATTGTCATTGCAT-TAT
47786171 ATTGTCATTGCATT
1 ATTGTCATTGCATT
47786185 TCCATATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
16 5 0.14
17 27 0.73
18 5 0.14
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (16 bp):
ATTGTCATTGCATTAT
Found at i:47786760 original size:11 final size:11
Alignment explanation
Indices: 47786734--47786779 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
47786724 TCTTAATCAC
47786734 ATAAAAAG-AA
1 ATAAAAAGAAA
*
47786744 AGAAAAAGAAA
1 ATAAAAAGAAA
47786755 ATAAAAAGAAA
1 ATAAAAAGAAA
*
47786766 A-AAGAAAAAAA
1 ATAA-AAAGAAA
47786777 ATA
1 ATA
47786780 TATTTATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 9 0.30
11 20 0.67
12 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.07
Consensus pattern (11 bp):
ATAAAAAGAAA
Found at i:47786760 original size:21 final size:22
Alignment explanation
Indices: 47786734--47786779 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
47786724 TCTTAATCAC
* *
47786734 ATAAAAAGAAAGAA-AAAGAAA
1 ATAAAAAGAAAAAAGAAAAAAA
47786755 ATAAAAAGAAAAAAGAAAAAAA
1 ATAAAAAGAAAAAAGAAAAAAA
47786777 ATA
1 ATA
47786780 TATTTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.07
Consensus pattern (22 bp):
ATAAAAAGAAAAAAGAAAAAAA
Found at i:47786764 original size:17 final size:17
Alignment explanation
Indices: 47786736--47786777 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
47786726 TTAATCACAT
*
47786736 AAAAAGAAAG-AAAAAG
1 AAAAAAAAAGAAAAAAG
47786752 AAAATAAAAAGAAAAAAG
1 AAAA-AAAAAGAAAAAAG
47786770 AAAAAAAA
1 AAAAAAAA
47786778 TATATTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 9 0.39
18 10 0.43
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:47789039 original size:23 final size:23
Alignment explanation
Indices: 47789007--47789059 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
47788997 ATAATTTAAA
*
47789007 ACAAATATAATGGCTGAAGAGTT
1 ACAAAAATAATGGCTGAAGAGTT
47789030 ACAAAAATAATGGCTGAAGAGTT
1 ACAAAAATAATGGCTGAAGAGTT
47789053 ACAAAAA
1 ACAAAAA
47789060 ATTGAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (23 bp):
ACAAAAATAATGGCTGAAGAGTT
Found at i:47793195 original size:41 final size:41
Alignment explanation
Indices: 47793120--47793289 Score: 227
Period size: 41 Copynumber: 4.2 Consensus size: 41
47793110 TTTCATAAAT
* *
47793120 GCCGC-AAAGGTAA-AGCATTAACGGGGCTTATGGGAAAGC
1 GCCGCTAAAGGTAAGAGCATTAACGGCGCTTGTGGGAAAGC
* *
47793159 GCCGCTAAAGGTAAGAGCATTAGCGGCGCTTGTGGGAGAGC
1 GCCGCTAAAGGTAAGAGCATTAACGGCGCTTGTGGGAAAGC
* * *
47793200 GCCCCTAAAGGTCAGAGCATTAGCGGCGCTTGTGGGAAAGC
1 GCCGCTAAAGGTAAGAGCATTAACGGCGCTTGTGGGAAAGC
* * * *
47793241 GCCGCTAAAGGTCAGAGCATTAACGACGCTAGTGGAAAAGC
1 GCCGCTAAAGGTAAGAGCATTAACGGCGCTTGTGGGAAAGC
47793282 GCCGCTAA
1 GCCGCTAA
47793290 TGCTATGGAA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.04
40 8 0.07
41 104 0.89
ACGTcount: A:0.29, C:0.22, G:0.34, T:0.16
Consensus pattern (41 bp):
GCCGCTAAAGGTAAGAGCATTAACGGCGCTTGTGGGAAAGC
Found at i:47793311 original size:22 final size:23
Alignment explanation
Indices: 47793268--47793311 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
47793258 CATTAACGAC
* *
47793268 GCTAGTGGAAAAGCGCCGCTAAT
1 GCTAGTGGAAAAGCACCACTAAT
47793291 GCTA-TGGAAAAGCACCACTAA
1 GCTAGTGGAAAAGCACCACTAA
47793312 AAGTGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (23 bp):
GCTAGTGGAAAAGCACCACTAAT
Found at i:47793381 original size:20 final size:20
Alignment explanation
Indices: 47793356--47793395 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47793346 TATTTAATTT
*
47793356 ATATTTCCATAAAAATATTA
1 ATATTTACATAAAAATATTA
**
47793376 ATATTTATTTAAAAATATTA
1 ATATTTACATAAAAATATTA
47793396 TACTATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTTACATAAAAATATTA
Found at i:47794042 original size:6 final size:6
Alignment explanation
Indices: 47794021--47794100 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
47794011 ATTTTAAAGA
* * * **
47794021 TTAAAT TT-ATT TTAAAT TTAAAT TT-ATT TTAAGT TTAAAT TT-GTT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
47794066 TTAAAAT TTAAAT TTATAT TTATAT TTATAT TTAA
1 TT-AAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
47794101 CACTTAATAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
5 11 0.19
6 45 0.76
7 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (6 bp):
TTAAAT
Found at i:47794043 original size:17 final size:17
Alignment explanation
Indices: 47794001--47794099 Score: 117
Period size: 18 Copynumber: 5.6 Consensus size: 17
47793991 TAAACCCATT
47794001 TTTAAGATTTATTTTAAA
1 TTTAA-ATTTATTTTAAA
*
47794019 GATTAAATTTATTTTAAA
1 -TTTAAATTTATTTTAAA
*
47794037 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
47794054 TTTAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
*
47794072 TTTAAATTTATATTTATA
1 TTTAAATTTAT-TTTAAA
*
47794090 TTTATATTTA
1 TTTAAATTTA
47794100 ACACTTAATA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
17 28 0.40
18 35 0.50
19 7 0.10
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:47794051 original size:35 final size:36
Alignment explanation
Indices: 47794011--47794087 Score: 72
Period size: 34 Copynumber: 2.2 Consensus size: 36
47794001 TTTAAGATTT
*
47794011 ATTTTAAAGA-TTAAATTTATTTTAAA-TTTAAATTT
1 ATTTTAAA-ATTTAAATTTATTTTAAAGATTAAATTT
* *
47794046 ATTTT-AAGTTTAAATTTGTTTTAAA-ATTTAAATTT
1 ATTTTAAAATTTAAATTTATTTTAAAGA-TTAAATTT
47794081 ATATTTA
1 AT-TTTA
47794088 TATTTATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
34 17 0.49
35 15 0.43
36 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (36 bp):
ATTTTAAAATTTAAATTTATTTTAAAGATTAAATTT
Found at i:47794846 original size:21 final size:21
Alignment explanation
Indices: 47794789--47794846 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
47794779 ATATTAAATA
*
47794789 TTTTAATAATAAT-AATATTT
1 TTTTAATAATAATAAATAATT
*
47794809 TTTTAAATGATAATAAATAATT
1 TTTT-AATAATAATAAATAATT
47794831 TTTTAATAATAATAAA
1 TTTTAATAATAATAAA
47794847 GTTATTAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 19 0.58
22 10 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTAATAATAATAAATAATT
Found at i:47795984 original size:29 final size:29
Alignment explanation
Indices: 47795951--47796266 Score: 296
Period size: 29 Copynumber: 10.8 Consensus size: 29
47795941 CCCTAAATTG
* *
47795951 TCCAAAACTTACATTTTCACCCTCGAACT
1 TCCAAAAATTACATTTTTACCCTCGAACT
* *
47795980 TCCAAAAATTAAATTTTGA-CCTCGAAACT
1 TCCAAAAATTACATTTTTACCCTCG-AACT
* *
47796009 TCCAAAAGTTACATTTTTACCCTCAAACT
1 TCCAAAAATTACATTTTTACCCTCGAACT
*
47796038 TCCAAAAATTCCATTTTTGACCC-CGAAACT
1 TCCAAAAATTACATTTTT-ACCCTCG-AACT
** *
47796068 TCCAAAAATTATGTTTTTACCCTCAAACT
1 TCCAAAAATTACATTTTTACCCTCGAACT
* ** * *
47796097 TCCAAAAATTCCATTTTTAATCTCAAAATT
1 TCCAAAAATTACATTTTTACCCTC-GAACT
** *
47796127 TCCAAAAATTATGTTTTTACACTCGAACT
1 TCCAAAAATTACATTTTTACCCTCGAACT
* *
47796156 TCCAAAAATTCCATTTTTAACCTCGAAACT
1 TCCAAAAATTACATTTTTACCCTCG-AACT
* * * *
47796186 TCCAAAAAGTCCATTTTTAACCTCGAATT
1 TCCAAAAATTACATTTTTACCCTCGAACT
* * *
47796215 TCCAAAAAATCCATTTTTGA-CCTTGAACT
1 TCCAAAAATTACATTTTT-ACCCTCGAACT
*
47796244 TCCAAAAATTCCATTTTTGACCC
1 TCCAAAAATTACATTTTT-ACCC
47796267 CAAAATTTTT
Statistics
Matches: 240, Mismatches: 38, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
28 5 0.02
29 153 0.64
30 82 0.34
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTACCCTCGAACT
Found at i:47796085 original size:59 final size:59
Alignment explanation
Indices: 47795951--47796266 Score: 384
Period size: 59 Copynumber: 5.4 Consensus size: 59
47795941 CCCTAAATTG
* * * *
47795951 TCCAAAACTTACATTTTCACCCTCGAACTTCCAAAAATT-AAATTTTGACCTCGAAACT
1 TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTCGAAACT
* * *
47796009 TCCAAAAGTTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCCCGAAACT
1 TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTCGAAACT
** * * * * *
47796068 TCCAAAAATTATGTTTTTACCCTCAAACTTCCAAAAATTCCATTTTTAATCTCAAAATT
1 TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTCGAAACT
** * *
47796127 TCCAAAAATTATGTTTTTACACTCGAACTTCCAAAAATTCCATTTTTAACCTCGAAACT
1 TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTCGAAACT
* * * * * *
47796186 TCCAAAAAGTCCATTTTTAACCTCGAATTTCCAAAAAATCCATTTTTGACCTTG-AACT
1 TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTCGAAACT
*
47796244 TCCAAAAATTCCATTTTTGACCC
1 TCCAAAAATTACATTTTT-ACCC
47796267 CAAAATTTTT
Statistics
Matches: 225, Mismatches: 31, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
58 57 0.25
59 168 0.75
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (59 bp):
TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTCGAAACT
Found at i:47796254 original size:88 final size:88
Alignment explanation
Indices: 47795971--47796261 Score: 340
Period size: 88 Copynumber: 3.3 Consensus size: 88
47795961 ACATTTTCAC
* * * * *
47795971 CCTCGAACTTCCAAAAATT-AAATTTTGACCTCGAAACTTCC-AAAAGTTACATTTTTACCCTCA
1 CCTCGAACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAAG-TCCATTTTTAACCTCA
* *
47796034 AACTTCCAAAAATTCCATTTTTGA
65 AATTTCCAAAAAATCCATTTTTGA
* *** * * *
47796058 CCCCGAAACTTCCAAAAATTATGTTTTTACCCTC-AAACTTCCAAAAATTCCATTTTTAATCTCA
1 CCTCG-AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAAGTCCATTTTTAACCTC-
* *
47796122 AAATTTCC-AAAAAT-TATGTTTTTA
64 AAATTTCCAAAAAATCCAT-TTTTGA
*
47796146 CACTCGAACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAAGTCCATTTTTAACCTCG
1 C-CTCGAACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAAGTCCATTTTTAACCTCA
47796211 AATTTCCAAAAAATCCATTTTTGA
65 AATTTCCAAAAAATCCATTTTTGA
*
47796235 CCTTGAACTTCCAAAAATTCCATTTTT
1 CCTCGAACTTCCAAAAATTCCATTTTT
47796262 GACCCCAAAA
Statistics
Matches: 170, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
87 6 0.04
88 101 0.59
89 61 0.36
90 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (88 bp):
CCTCGAACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAAGTCCATTTTTAACCTCAA
ATTTCCAAAAAATCCATTTTTGA
Found at i:47796404 original size:58 final size:60
Alignment explanation
Indices: 47796244--47796408 Score: 151
Period size: 58 Copynumber: 2.8 Consensus size: 60
47796234 ACCTTGAACT
* * ** ** *
47796244 TCCAAAAAT-TCCATTTTTGACCCCAAAATTTT--TGAAATTACCATTTTACCCCTGGATG
1 TCCAAAAATATCAATTTTTAACCCC-AAATTTTCCAAAAATTACCATTTTACCCCTAAATA
* ** *
47796302 TCCAAAAATATCAATTTTTATCCCCATTTTTTCTAAAAATTACCATTTTACCCCTAAATA
1 TCCAAAAATATCAATTTTTAACCCCAAATTTTCCAAAAATTACCATTTTACCCCTAAATA
* * * *
47796362 T-CTAAAATGT-AATTTTTAACCCTAAATTTTCCCAAAATTACCATTTT
1 TCCAAAAATATCAATTTTTAACCCCAAATTTTCCAAAAATTACCATTTT
47796409 GCCCTCGGGC
Statistics
Matches: 86, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
58 45 0.52
59 19 0.22
60 22 0.26
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (60 bp):
TCCAAAAATATCAATTTTTAACCCCAAATTTTCCAAAAATTACCATTTTACCCCTAAATA
Found at i:47809302 original size:19 final size:19
Alignment explanation
Indices: 47809280--47809324 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47809270 TTATATTAGG
47809280 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
47809299 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
47809318 ATTTAAT
1 ATTTAAT
47809325 TTATGCTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:47827492 original size:22 final size:21
Alignment explanation
Indices: 47827451--47827492 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
47827441 CGATCTGAGG
*
47827451 AAAATAAAAGAAACAGAATTA
1 AAAATAAAAGAAACACAATTA
47827472 AAAATAAAAGAAAACACAATT
1 AAAATAAAAG-AAACACAATT
47827493 GAAAGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAATAAAAGAAACACAATTA
Found at i:47828333 original size:19 final size:19
Alignment explanation
Indices: 47828309--47828351 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
47828299 AAGCATAAAT
47828309 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
47828328 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
47828347 TAAAT
1 TAAAT
47828352 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:47841285 original size:58 final size:60
Alignment explanation
Indices: 47841223--47841353 Score: 149
Period size: 58 Copynumber: 2.2 Consensus size: 60
47841213 GCCCGAGGGC
* ** * * **
47841223 AAAATGGTAATTTTGGGAAAATTTAGGGTTAAAAATT-ACA-TTTTAGATATTTAGGGGT
1 AAAATGGTAATTTTGAGAAAAAATAGGGATAAAAATTGACATTTTTAGACATCCAGGGGT
* * * *
47841281 AAAATGGTAATTTTTAGAAAAAATGGGGATAAAAATTGATATTTTTGGACATCCAGGGGT
1 AAAATGGTAATTTTGAGAAAAAATAGGGATAAAAATTGACATTTTTAGACATCCAGGGGT
47841341 AAAATGGTAATTT
1 AAAATGGTAATTT
47841354 CAAAAATTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 31 0.52
59 2 0.03
60 27 0.45
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (60 bp):
AAAATGGTAATTTTGAGAAAAAATAGGGATAAAAATTGACATTTTTAGACATCCAGGGGT
Found at i:47841293 original size:28 final size:31
Alignment explanation
Indices: 47841223--47841383 Score: 85
Period size: 28 Copynumber: 5.5 Consensus size: 31
47841213 GCCCGAGGGC
* *
47841223 AAAATGGTAATTTTGGGAAAATTTAGGGTTA
1 AAAATGGTAATTTTGAGAAAATTTAGGGGTA
*
47841254 AAAAT--TACATTTT-AG-ATATTTAGGGGT-
1 AAAATGGTA-ATTTTGAGAAAATTTAGGGGTA
* **
47841281 AAAATGGTAATTTTTAGAAAAAAT-GGGGATA
1 AAAATGGTAATTTTGAGAAAATTTAGGGG-TA
* * * **
47841312 AAAATTGATATTTTTG-G-ACATCCAGGGGT-
1 AAAA-TGGTAATTTTGAGAAAATTTAGGGGTA
* *
47841341 AAAATGGTAA-TTTCA-AAAATTTTGGGGTCA
1 AAAATGGTAATTTTGAGAAAATTTAGGGGT-A
47841371 AAAATGG-AATTTT
1 AAAATGGTAATTTT
47841384 TGGAAGTTCA
Statistics
Matches: 96, Mismatches: 20, Indels: 29
0.66 0.14 0.20
Matches are distributed among these distances:
27 8 0.08
28 27 0.28
29 17 0.18
30 22 0.23
31 14 0.15
32 8 0.08
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.35
Consensus pattern (31 bp):
AAAATGGTAATTTTGAGAAAATTTAGGGGTA
Found at i:47841398 original size:29 final size:30
Alignment explanation
Indices: 47841366--47841660 Score: 308
Period size: 29 Copynumber: 10.1 Consensus size: 30
47841356 AAAATTTTGG
*
47841366 GGTCAAAAATGGAATTTTTGGAAG-TTCAA
1 GGTCAAAAATGGAATTTTTGGAAGTTTCGA
* *
47841395 GGTCAAAAATGGATTTTTTGGAA-ATTCGA
1 GGTCAAAAATGGAATTTTTGGAAGTTTCGA
* *
47841424 GGTTAAAAATGGACTTTTTGGAAGTTTCGA
1 GGTCAAAAATGGAATTTTTGGAAGTTTCGA
*
47841454 GGTTAAAAATGGAATTTTTGGAAG-TTCGA
1 GGTCAAAAATGGAATTTTTGGAAGTTTCGA
* * *
47841483 GTGTAAAAACAT--AATTTTTGGAAATTTTGA
1 G-GTCAAAA-ATGGAATTTTTGGAAGTTTCGA
* *
47841513 GATTAAAAATGGAATTTTTGGAAGTTT-GA
1 GGTCAAAAATGGAATTTTTGGAAGTTTCGA
* *
47841542 GGGTAAAAACAT--AATTTTTGGAAGTTTCGG
1 -GGTCAAAA-ATGGAATTTTTGGAAGTTTCGA
47841572 GGTCAAAAATGGAATTTTTGGAAGTTT-GA
1 GGTCAAAAATGGAATTTTTGGAAGTTTCGA
* *
47841601 GGGT-AAAAATGTAACTTTTGGAAGTTTCGA
1 -GGTCAAAAATGGAATTTTTGGAAGTTTCGA
**
47841631 GGTC-AAAATTTAATTTTTGGAAG-TTCGA
1 GGTCAAAAATGGAATTTTTGGAAGTTTCGA
47841659 GG
1 GG
47841661 GTGAAAATGT
Statistics
Matches: 230, Mismatches: 21, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.05
29 135 0.59
30 80 0.35
31 4 0.02
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (30 bp):
GGTCAAAAATGGAATTTTTGGAAGTTTCGA
Found at i:47841420 original size:59 final size:59
Alignment explanation
Indices: 47841361--47841680 Score: 341
Period size: 59 Copynumber: 5.5 Consensus size: 59
47841351 TTTCAAAAAT
* * * *
47841361 TTTG-GGGTCAAAAATGGAATTTTTGGAAG-TTCAAGGTCAAAAATGGATTTTTTGGAAA
1 TTTGAGGGTAAAAAAT-GAATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAG
* * * *
47841419 TTCGA-GGTTAAAAATGGACTTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAG
1 TTTGAGGGTAAAAAAT-GAATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAG
* * * * * *
47841478 TTCGAGTGTAAAAACAT-AATTTTTGGAAATTTTGAGATTAAAAATGGAATTTTTGGAAG
1 TTTGAGGGTAAAAA-ATGAATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAG
*
47841537 TTTGAGGGTAAAAACAT-AATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGAAG
1 TTTGAGGGTAAAAA-ATGAATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAG
* **
47841596 TTTGAGGGT-AAAAATGTAACTTTTGGAAGTTTCGAGGTC-AAAATTTAATTTTTGGAAG
1 TTTGAGGGTAAAAAATG-AATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAG
* * *
47841654 TTCGAGGGT-GAAAATGTAAGTTTTGGA
1 TTTGAGGGTAAAAAATG-AATTTTTGGA
47841681 CAATTTAGGG
Statistics
Matches: 229, Mismatches: 27, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
57 2 0.01
58 70 0.31
59 149 0.65
60 6 0.03
61 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.36
Consensus pattern (59 bp):
TTTGAGGGTAAAAAATGAATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAG
Found at i:47841620 original size:88 final size:88
Alignment explanation
Indices: 47841378--47841686 Score: 335
Period size: 88 Copynumber: 3.5 Consensus size: 88
47841368 TCAAAAATGG
* * * *
47841378 AATTTTTGGAAGTTC-AAGGTCAAAAATGGATTTTTTGGAAATTCGAGGTTAAAAATGGACTTTT
1 AATTTTTGGAAGTTCGAGGGTCAAAAATGGAATTTTTGGAAATTTGAGGTTAAAAATGAAC-TTT
* **
47841442 TGGAAGTTTCGAGGTTAAAAATGG
65 TGGAAGTTTCGAGGGTAAAAATAT
* * * *
47841466 AATTTTTGGAAGTTCGAGTGTAAAAACAT--AATTTTTGGAAATTTTGAGATTAAAAATGGAATT
1 AATTTTTGGAAGTTCGAGGGTCAAAA-ATGGAATTTTTGGAAA-TTTGAGGTTAAAAAT-GAACT
*
47841529 TTTGGAAGTTT-GAGGGTAAAAACAT
63 TTTGGAAGTTTCGAGGGTAAAAATAT
* *
47841554 AATTTTTGGAAGTTTCG-GGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGTAAAAATGTAACTT
1 AATTTTTGGAAG-TTCGAGGGTCAAAAATGGAATTTTTGGAAATTTGAGGTTAAAAATG-AACTT
* *
47841618 TTGGAAGTTTCGA-GGTCAAAATTT
64 TTGGAAGTTTCGAGGGTAAAAATAT
* * *
47841642 AATTTTTGGAAGTTCGAGGGT-GAAAATGTAAGTTTTGGACAATTT
1 AATTTTTGGAAGTTCGAGGGTCAAAAATGGAATTTTTGGA-AATTT
47841687 AGGGACCTCT
Statistics
Matches: 185, Mismatches: 25, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
87 22 0.12
88 110 0.59
89 49 0.26
90 4 0.02
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (88 bp):
AATTTTTGGAAGTTCGAGGGTCAAAAATGGAATTTTTGGAAATTTGAGGTTAAAAATGAACTTTT
GGAAGTTTCGAGGGTAAAAATAT
Found at i:47842810 original size:21 final size:21
Alignment explanation
Indices: 47842785--47842842 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
47842775 TACTAATAAC
*
47842785 TTTATTATTATTAAAAAATTA
1 TTTATTATTATTAAAAAAATA
*
47842806 TTTATTATCATTTAAAAAAATA
1 TTTATTATTA-TTAAAAAAATA
47842828 -TTATTATTATTAAAA
1 TTTATTATTATTAAAA
47842843 TATTTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.18
21 17 0.52
22 10 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTATTATTATTAAAAAAATA
Found at i:47842813 original size:24 final size:23
Alignment explanation
Indices: 47842786--47842839 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
47842776 ACTAATAACT
*
47842786 TTATTATTATTAAAAAATTA-T-
1 TTATTATTATTAAAAAAATATTA
*
47842807 TTATTATCATTTAAAAAAATATTA
1 TTATTATTA-TTAAAAAAATATTA
47842831 TTATTATTA
1 TTATTATTA
47842840 AAATATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.30
22 10 0.37
23 1 0.04
24 8 0.30
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTATTATTATTAAAAAAATATTA
Found at i:47843566 original size:7 final size:6
Alignment explanation
Indices: 47843531--47843610 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
47843521 ATATTAAGTG
* * * ** *
47843531 TTAAAT ATAAAT ATAAAT ATAAAT TTAAATT TTAAA- ACAAAT TTAAAC
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA-T TTAAAT TTAAAT TTAAAT
* *
47843579 TTAAA- ATAAAT TTAAAT TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
47843611 TCTTTAAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
5 11 0.19
6 42 0.71
7 6 0.10
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:47843584 original size:17 final size:17
Alignment explanation
Indices: 47843544--47843630 Score: 102
Period size: 17 Copynumber: 4.9 Consensus size: 17
47843534 AATATAAATA
*
47843544 TAAATATAAATTTAAATTT
1 TAAA-ATAAATTTAAA-CT
*
47843563 TAAAACAAATTTAAACT
1 TAAAATAAATTTAAACT
*
47843580 TAAAATAAATTTAAATT
1 TAAAATAAATTTAAACT
*
47843597 TAAAATAAATTTAATCTT
1 TAAAATAAATTTAAAC-T
47843615 TAAAATAAATCTTAAA
1 TAAAATAAAT-TTAAA
47843631 AATGGGTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
17 30 0.51
18 21 0.36
19 8 0.14
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAATAAATTTAAACT
Found at i:47843588 original size:35 final size:35
Alignment explanation
Indices: 47843544--47843630 Score: 122
Period size: 35 Copynumber: 2.4 Consensus size: 35
47843534 AATATAAATA
47843544 TAAATATAAATTTAAATTTTAAAACAAATTTAAAC-T
1 TAAA-ATAAATTTAAA-TTTAAAACAAATTTAAACTT
* *
47843580 TAAAATAAATTTAAATTTAAAATAAATTTAATCTT
1 TAAAATAAATTTAAATTTAAAACAAATTTAAACTT
47843615 TAAAATAAATCTTAAA
1 TAAAATAAAT-TTAAA
47843631 AATGGGTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
34 16 0.34
35 22 0.47
36 9 0.19
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (35 bp):
TAAAATAAATTTAAATTTAAAACAAATTTAAACTT
Found at i:47844388 original size:41 final size:41
Alignment explanation
Indices: 47844342--47844511 Score: 227
Period size: 41 Copynumber: 4.2 Consensus size: 41
47844332 TTCCATAGCA
* * * *
47844342 TTAGCGGCGCTTTTCCACTAGCGTCGTTAATGCTCTGACCT
1 TTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACCT
47844383 TTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACCT
1 TTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACCT
* * *
47844424 TTAGGGGCGCTCTCCCACAAGCGCCGCTAATGCTCTTACCT
1 TTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACCT
* * * *
47844465 TTAGCGGCGCTTTCCCATAAGCCCCGTTAATGCT-TTACCT
1 TTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACCT
47844505 TT-GCGGC
1 TTAGCGGC
47844512 ATTTATGAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.04
40 8 0.07
41 104 0.89
ACGTcount: A:0.16, C:0.34, G:0.22, T:0.29
Consensus pattern (41 bp):
TTAGCGGCGCTTTCCCACAAGCGCCGCTAATGCTCTGACCT
Found at i:47850959 original size:23 final size:22
Alignment explanation
Indices: 47850933--47850977 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
47850923 GCATTATAAA
47850933 TATTTT-TTTTTCTGTTCTCTTTT
1 TATTTTCTTTTTCT-TTCT-TTTT
47850956 TATTTTCTTTTTCTTTCTTTTT
1 TATTTTCTTTTTCTTTCTTTTT
47850978 ATGTGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 10 0.48
24 7 0.33
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (22 bp):
TATTTTCTTTTTCTTTCTTTTT
Found at i:47850970 original size:17 final size:17
Alignment explanation
Indices: 47850935--47850977 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
47850925 ATTATAAATA
47850935 TTTTTTTTTCTGTTCTC
1 TTTTTTTTTCTGTTCTC
*
47850952 TTTTTATTTTCT-TTTTC
1 TTTTT-TTTTCTGTTCTC
47850969 TTTCTTTTT
1 TTT-TTTTT
47850978 ATGTGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTCTGTTCTC
Found at i:47850974 original size:21 final size:22
Alignment explanation
Indices: 47850933--47850979 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 22
47850923 GCATTATAAA
47850933 TATTTTTTTTTCTGTTCTCTTTT
1 TATTTTTTTTTC-GTTCTCTTTT
47850956 TATTTTCTTTTTC-TT-TCTTTT
1 TATTTT-TTTTTCGTTCTCTTTT
47850977 TAT
1 TAT
47850980 GTGATTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.39
22 2 0.09
23 6 0.26
24 6 0.26
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.79
Consensus pattern (22 bp):
TATTTTTTTTTCGTTCTCTTTT
Found at i:47851567 original size:34 final size:34
Alignment explanation
Indices: 47851529--47851594 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
47851519 ATATATATGG
47851529 AAATGCAATGACAA-T-ATAGATGCAGCGACAATAA
1 AAATGCAATGA-AATTAATA-ATGCAGCGACAATAA
*
47851563 AAATGCAATGAAATTAATAATGCAGGGACAAT
1 AAATGCAATGAAATTAATAATGCAGCGACAAT
47851595 TATACTACAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 2 0.07
34 24 0.83
35 3 0.10
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (34 bp):
AAATGCAATGAAATTAATAATGCAGCGACAATAA
Found at i:47857388 original size:18 final size:19
Alignment explanation
Indices: 47857365--47857406 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
47857355 CTCAGCTCCT
47857365 GAGACTCCTCTGCTGCC-C
1 GAGACTCCTCTGCTGCCTC
47857383 GAGACTCCTCTGCTGCCTC
1 GAGACTCCTCTGCTGCCTC
47857402 GAGAC
1 GAGAC
47857407 CGTTTCTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.14, C:0.40, G:0.24, T:0.21
Consensus pattern (19 bp):
GAGACTCCTCTGCTGCCTC
Found at i:47874309 original size:39 final size:40
Alignment explanation
Indices: 47874255--47874335 Score: 128
Period size: 39 Copynumber: 2.0 Consensus size: 40
47874245 TATGCACTCA
* *
47874255 ATGGACACCTTTTGAAGAGTCAGAACCC-TTTCAAATTGG
1 ATGGACACCTTTTGAAGAATCACAACCCTTTTCAAATTGG
*
47874294 ATGGACACCTTTTGAAGAATCACAACCCTTTTCATATTGG
1 ATGGACACCTTTTGAAGAATCACAACCCTTTTCAAATTGG
47874334 AT
1 AT
47874336 ATACCTCTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 26 0.68
40 12 0.32
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (40 bp):
ATGGACACCTTTTGAAGAATCACAACCCTTTTCAAATTGG
Found at i:47874350 original size:39 final size:38
Alignment explanation
Indices: 47874258--47874350 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
47874248 GCACTCAATG
* * *
47874258 GACACCTTTTGAAGAGTCAGAACCCTTTCAAATTGGAT
1 GACACCTTTGGAAGAATCACAACCCTTTCAAATTGGAT
* *
47874296 GGACACCTTTTGAAGAATCACAACCCTTTTCATATTGGAT
1 -GACACCTTTGGAAGAATCACAACCC-TTTCAAATTGGAT
*
47874336 -ATACCTCTTGGAAGA
1 GACACCT-TTGGAAGA
47874351 GAGTTGTCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.11
39 30 0.64
40 12 0.26
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (38 bp):
GACACCTTTGGAAGAATCACAACCCTTTCAAATTGGAT
Found at i:47880080 original size:14 final size:14
Alignment explanation
Indices: 47880044--47880083 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
47880034 TAAAAAAAGC
47880044 ATAAAT-AAAAATT
1 ATAAATAAAAAATT
*
47880057 ATAATTTAAAAAATT
1 ATAA-ATAAAAAATT
47880072 ATAAATAAAAAA
1 ATAAATAAAAAA
47880084 CTCTTTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 4 0.17
14 8 0.35
15 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAATAAAAAATT
Found at i:47883650 original size:34 final size:32
Alignment explanation
Indices: 47883612--47883691 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 32
47883602 AATTCAATCC
* *
47883612 AAATTTTAATTTTAAATAAGTTTGAATTTATTTT
1 AAATTTAAATTTT--ATAAGTTTGAATTTACTTT
* *
47883646 AAATTTAAATTCATTCTGAGTTTGAATTTACTTT
1 AAATTTAAATT--TTATAAGTTTGAATTTACTTT
47883680 AAATTTAAATTT
1 AAATTTAAATTT
47883692 ATTTTCAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 1 0.03
34 37 0.93
36 2 0.05
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (32 bp):
AAATTTAAATTTTATAAGTTTGAATTTACTTT
Found at i:47883656 original size:17 final size:17
Alignment explanation
Indices: 47883636--47883707 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
47883626 AATAAGTTTG
47883636 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* * * * *
47883653 AATTCATTCTGAGTTTG
1 AATTTATTTTAAATTTA
*
47883670 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
47883687 AATTTATTTTCAATTAA
1 AATTTATTTTAAATTTA
47883704 AATT
1 AATT
47883708 AATTAAAAAG
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:47883960 original size:25 final size:25
Alignment explanation
Indices: 47883932--47883981 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
47883922 AACCAAGTTA
*
47883932 CCACCACCAGCTTCAACTTGCTCTG
1 CCACCACCAGCTTCAACCTGCTCTG
47883957 CCACCACCAGCTTCAACCTGCTCTG
1 CCACCACCAGCTTCAACCTGCTCTG
47883982 TCATTACCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.46, G:0.12, T:0.22
Consensus pattern (25 bp):
CCACCACCAGCTTCAACCTGCTCTG
Found at i:47884397 original size:3 final size:3
Alignment explanation
Indices: 47884389--47884472 Score: 62
Period size: 3 Copynumber: 27.0 Consensus size: 3
47884379 TAAATATCAT
* * * * *
47884389 TAA TAA TAA TAT TAA TTAA AAA TAA TAA T-A TCAA TAA CAA TAA CAT
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* *
47884435 TAA TTAA TAA TAA TTGA TAA TAA TAT TAA TAA TAA TAA
1 TAA -TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
47884473 AAAAGTTGAA
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
2 2 0.03
3 50 0.81
4 10 0.16
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:47884412 original size:13 final size:12
Alignment explanation
Indices: 47884367--47884418 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
47884357 TTTATTTTTC
47884367 AAAACATATTAAT
1 AAAA-ATATTAAT
*
47884380 AAATATCATTAAT
1 AAAAAT-ATTAAT
*
47884393 AATAATATTAATT
1 AAAAATATTAA-T
*
47884406 AAAAATAATAAT
1 AAAAATATTAAT
47884418 A
1 A
47884419 TCAATAACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 9 0.28
13 23 0.72
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAAATATTAAT
Found at i:47884420 original size:34 final size:35
Alignment explanation
Indices: 47884376--47884448 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
47884366 CAAAACATAT
* * *
47884376 TAATAAATATCATTAATAATAATATTAATTAAAAA
1 TAATAAATATCAATAACAATAACATTAATTAAAAA
*
47884411 TAAT-AATATCAATAACAATAACATTAATTAATAA
1 TAATAAATATCAATAACAATAACATTAATTAAAAA
47884445 TAAT
1 TAAT
47884449 TGATAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 30 0.88
35 4 0.12
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (35 bp):
TAATAAATATCAATAACAATAACATTAATTAAAAA
Found at i:47885570 original size:30 final size:29
Alignment explanation
Indices: 47885536--47885914 Score: 111
Period size: 30 Copynumber: 12.9 Consensus size: 29
47885526 CCTTAAAGGT
47885536 CCCTAAACTATCCAAAAATTACATTTTTAC
1 CCCTAAACT-TCCAAAAATTACATTTTTAC
* *
47885566 CCCTAAACTTCCAAAAATTCCATTTATAAC
1 CCCTAAACTTCCAAAAATTACATTT-TTAC
* **
47885596 CCCAAAACTTCTTAAAATTACCA-TTTTAC
1 CCCTAAACTTCCAAAAATTA-CATTTTTAC
* * *
47885625 CCC-AAA-TATCC-AAATTTCCTTTTTTGAC
1 CCCTAAACT-TCCAAAAATTACATTTTT-AC
**
47885653 CCC-AAATCTTTTGAAAAA-TACCA-TTTTAC
1 CCCTAAA-C-TTCCAAAAATTA-CATTTTTAC
** ** * *
47885682 CCCCGAAGGTCTAAAAATT-CTATTTTTAA
1 CCCTAAACTTCCAAAAATTAC-ATTTTTAC
* * * *
47885711 CCTTGAACTTTCCAAAAATTATAATTTTA-
1 CCCTAAAC-TTCCAAAAATTACATTTTTAC
** * * *
47885740 CCCTCGGA-TGTCTAAAAATTCCATTTTTGAT
1 CCCT-AAACT-TCCAAAAATTACATTTTT-AC
* * * *
47885771 CCCGAACCTTCCAAGAAGTACCA-TTTTAC
1 CCCTAAACTTCCAAAAATTA-CATTTTTAC
* *
47885800 CCCTAAA-TATCTAAAAATTCCATTTTTGA-
1 CCCTAAACT-TCCAAAAATTACATTTTT-AC
* *
47885829 CCTTGAACCTTCCAAAAATTACCA-TTTTAC
1 CCCT-AAACTTCCAAAAATTA-CATTTTTAC
** * * *
47885859 CCCCGAACGTCTAAAAATTCCATTTTTGAC
1 CCCTAAACTTCCAAAAATTACATTTTT-AC
* * *
47885889 CTCGAACCTTCCAAAAATTACCATTT
1 CCCTAAACTTCCAAAAATTA-CATTT
47885915 ACCCTCGAGT
Statistics
Matches: 249, Mismatches: 68, Indels: 63
0.66 0.18 0.17
Matches are distributed among these distances:
26 1 0.00
27 11 0.04
28 26 0.10
29 90 0.36
30 100 0.40
31 21 0.08
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTACATTTTTAC
Found at i:47885741 original size:59 final size:59
Alignment explanation
Indices: 47885546--47885918 Score: 319
Period size: 59 Copynumber: 6.4 Consensus size: 59
47885536 CCCTAAACTA
** * * * * *
47885546 TCCAAAAATTA-CATTTTTACCCCTAAACT-TCCAAAAATTCCATTTATAACCCCAAAACT
1 TCCAAAAATTACCA-TTTTACCCCCGAA-TGTCTAAAAATTCCATTTTTAACCTCGAACCT
** * * * * * * * * *
47885605 TCTTAAAATTACCATTTTA-CCCCAAATATC-CAAATTTCCTTTTTTGACCCCAAATCTT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTAACCTCGAA-CCT
** * * * *
47885663 TTGAAAAA-TACCATTTTACCCCCGAAGGTCTAAAAATTCTATTTTTAACCTTGAACTT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTAACCTCGAACCT
** * * *
47885721 TCCAAAAATTATAATTTTACCCTCGGATGTCTAAAAATTCCATTTTTGATCC-CGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTT-AACCTCGAACCT
* * ** * * *
47885780 TCCAAGAAGTACCATTTTACCCCTAAATATCTAAAAATTCCATTTTTGACCTTGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTAACCTCGAACCT
* *
47885839 TCCAAAAATTACCATTTTACCCCCGAACGTCTAAAAATTCCATTTTTGACCTCGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTAACCTCGAACCT
47885898 TCCAAAAATTACCA-TTTACCC
1 TCCAAAAATTACCATTTTACCC
47885919 TCGAGTATCC
Statistics
Matches: 252, Mismatches: 54, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
57 30 0.12
58 40 0.16
59 177 0.70
60 5 0.02
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (59 bp):
TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTAACCTCGAACCT
Found at i:47885920 original size:29 final size:30
Alignment explanation
Indices: 47885666--47885946 Score: 130
Period size: 29 Copynumber: 9.6 Consensus size: 30
47885656 AAATCTTTTG
* ** *
47885666 AAAAA-TACCATTTTACCCCCGAA-GGTCT
1 AAAAATTACCATTTTACCCTCGAACCTTCC
* * * *
47885694 AAAAATT-CTATTTTTAACCTTGAACTTTCC
1 AAAAATTACCA-TTTTACCCTCGAACCTTCC
** * *
47885724 AAAAATTATAATTTTACCCTCGGA--TGTCT
1 AAAAATTACCATTTTACCCTCGAACCT-TCC
*
47885753 AAAAATT-CCATTTTTGATCC-CGAACCTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAACCTTCC
* * * * *
47885783 AAGAAGTACCATTTTACCC-CTAA-ATATCT
1 AAAAATTACCATTTTACCCTCGAACCT-TCC
*
47885812 AAAAATT-CCATTTTTGA-CCTTGAACCTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAACCTTCC
* * *
47885842 AAAAATTACCATTTTACCCCCGAA-CGTCT
1 AAAAATTACCATTTTACCCTCGAACCTTCC
47885871 AAAAATT-CCATTTTTGA-CCTCGAACCTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAACCTTCC
*
47885901 AAAAATTACCA-TTTACCCTCG-A-GTATCC
1 AAAAATTACCATTTTACCCTCGAACCT-TCC
*
47885929 -AAAATTACCGTTTTACCC
1 AAAAATTACCATTTTACCC
47885947 CTGGGCATCC
Statistics
Matches: 190, Mismatches: 39, Indels: 48
0.69 0.14 0.17
Matches are distributed among these distances:
27 10 0.05
28 28 0.15
29 75 0.39
30 65 0.34
31 12 0.06
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.33
Consensus pattern (30 bp):
AAAAATTACCATTTTACCCTCGAACCTTCC
Found at i:47887315 original size:59 final size:60
Alignment explanation
Indices: 47887237--47887376 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 60
47887227 AAAATTTGTG
* * * * *
47887237 TTTTTGGTTGTTGGCCATGCAATGGTCGACACCCCC-TTTTTGTCAGATAATAATTCGAAT
1 TTTTTGG-TGTCGGCCATGCAATGGCCGACACCCCCTTTTTTATCAGATAAAAATTCAAAT
* * * *
47887297 TTTTTTGTGTCGGCCATGCCATGGCCGACACCCCCTTTTTTATCTGGTAAAAATTCAAAT
1 TTTTTGGTGTCGGCCATGCAATGGCCGACACCCCCTTTTTTATCAGATAAAAATTCAAAT
47887357 TTTTTGGTGTCGGCCATGCA
1 TTTTTGGTGTCGGCCATGCA
47887377 CCAACTTTCC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 25 0.37
60 43 0.63
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (60 bp):
TTTTTGGTGTCGGCCATGCAATGGCCGACACCCCCTTTTTTATCAGATAAAAATTCAAAT
Found at i:47889010 original size:22 final size:22
Alignment explanation
Indices: 47888952--47889003 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
47888942 TTAGGGTGTT
*
47888952 GGTGAGCTGGAATTTCGGTTTT
1 GGTGAGCTGGAATTTCGGTTTA
* *
47888974 GATGAGTTGGAATTTCGGTTTA
1 GGTGAGCTGGAATTTCGGTTTA
47888996 GGTGAGCT
1 GGTGAGCT
47889004 AAAATTTGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.08, G:0.37, T:0.38
Consensus pattern (22 bp):
GGTGAGCTGGAATTTCGGTTTA
Found at i:47889353 original size:38 final size:38
Alignment explanation
Indices: 47889311--47889437 Score: 96
Period size: 38 Copynumber: 3.2 Consensus size: 38
47889301 TTTTATTTAA
47889311 ATATTAAAATTTGATAAATAATGTATTGTCAAATCAAC
1 ATATTAAAATTTGATAAATAATGTATTGTCAAATCAAC
* * * * * *
47889349 ATATTATTTGATAAAAATT-ATAATATAATAATATTTTTAATTTAA-
1 --A-TA--T--TAAAATTTGATAA-ATAAT-GTATTGTCAAATCAAC
47889394 ATATTAAAATTTGATAAATAATGTATTGTCAAATCAAC
1 ATATTAAAATTTGATAAATAATGTATTGTCAAATCAAC
*
47889432 AAATTA
1 ATATTA
47889438 TTTGATAAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 20
0.66 0.13 0.20
Matches are distributed among these distances:
37 10 0.15
38 17 0.26
39 4 0.06
40 2 0.03
41 2 0.03
42 2 0.03
43 2 0.03
44 4 0.06
45 12 0.18
46 10 0.15
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.41
Consensus pattern (38 bp):
ATATTAAAATTTGATAAATAATGTATTGTCAAATCAAC
Found at i:47889361 original size:83 final size:84
Alignment explanation
Indices: 47889103--47889482 Score: 631
Period size: 83 Copynumber: 4.5 Consensus size: 84
47889093 TAAATTTAAA
47889103 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
47889168 ATTGTCAAATCAACACATT
66 ATTGTCAAATCAACACATT
* *
47889187 ATTTGATAAAAATTGTAATATAATAATGATTTTTTAATTTAAATAATAAAATTTGATAAAT-ATG
1 ATTTGATAAAAATTGTAATATAATAAT-AATTTTTAATTTAAATATTAAAATTTGATAAATAATG
*
47889251 TATTGTCAAATCAATACATT
65 TATTGTCAAATCAACACATT
*
47889271 ATCTGATAAAAATTGTAATATAATAATAATTTTT-ATTTAAATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
*
47889335 ATTGTCAAATCAACATATT
66 ATTGTCAAATCAACACATT
*
47889354 ATTTGATAAAAATTATAATATAATAAT-ATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
*
47889418 ATTGTCAAATCAACAAATT
66 ATTGTCAAATCAACACATT
* *
47889437 ATTTGATAAAAATTGTAATGTAATAATAATCTTTTTTATTTAAATA
1 ATTTGATAAAAATTGTAATATAATAATAA--TTTTTAATTTAAATA
47889483 ATGTTAAATT
Statistics
Matches: 276, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
82 30 0.11
83 125 0.45
84 76 0.28
85 31 0.11
86 14 0.05
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (84 bp):
ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
ATTGTCAAATCAACACATT
Found at i:47889377 original size:45 final size:44
Alignment explanation
Indices: 47889315--47889451 Score: 119
Period size: 45 Copynumber: 3.2 Consensus size: 44
47889305 ATTTAAATAT
*
47889315 TAAAATTTGATAAATAATGTATTGTCAAATCAACATATTATTTGA
1 TAAAAATTGATAAATAATGTATTGTCAAATCAACA-ATTATTTGA
* ** **
47889360 TAAAAATT-ATAATATAATAATATT-TTTAATTTA-AA-TA--T--
1 TAAAAATTGATAA-ATAAT-GTATTGTCAAATCAACAATTATTTGA
*
47889398 TAAAATTTGATAAATAATGTATTGTCAAATCAACAAATTATTTGA
1 TAAAAATTGATAAATAATGTATTGTCAAATCAAC-AATTATTTGA
47889443 TAAAAATTG
1 TAAAAATTG
47889452 TAATGTAATA
Statistics
Matches: 68, Mismatches: 13, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
37 4 0.06
38 17 0.25
39 4 0.06
40 3 0.04
41 2 0.03
42 2 0.03
43 2 0.03
44 5 0.07
45 25 0.37
46 4 0.06
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (44 bp):
TAAAAATTGATAAATAATGTATTGTCAAATCAACAATTATTTGA
Found at i:47889525 original size:23 final size:23
Alignment explanation
Indices: 47889481--47889529 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
47889471 TTTATTTAAA
* *
47889481 TAATGTTAAATTAATTTTAAATG
1 TAATGTTAAATTAACTTCAAATG
47889504 TAAT-TTAAATTCAACTTCAAATG
1 TAATGTTAAATT-AACTTCAAATG
47889527 TAA
1 TAA
47889530 AGTAGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (23 bp):
TAATGTTAAATTAACTTCAAATG
Found at i:47897831 original size:39 final size:40
Alignment explanation
Indices: 47897777--47897857 Score: 128
Period size: 39 Copynumber: 2.0 Consensus size: 40
47897767 TATGCACTCA
* *
47897777 ATGGACACCTTTTGAAGAGTCAGAACCC-TTTCAAATTGG
1 ATGGACACCTTTTGAAGAATCACAACCCTTTTCAAATTGG
*
47897816 ATGGACACCTTTTGAAGAATCACAACCCTTTTCATATTGG
1 ATGGACACCTTTTGAAGAATCACAACCCTTTTCAAATTGG
47897856 AT
1 AT
47897858 ATACCTCTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 26 0.68
40 12 0.32
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (40 bp):
ATGGACACCTTTTGAAGAATCACAACCCTTTTCAAATTGG
Found at i:47897872 original size:39 final size:38
Alignment explanation
Indices: 47897780--47897872 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 38
47897770 GCACTCAATG
* * *
47897780 GACACCTTTTGAAGAGTCAGAACCCTTTCAAATTGGAT
1 GACACCTTTGGAAGAATCACAACCCTTTCAAATTGGAT
* *
47897818 GGACACCTTTTGAAGAATCACAACCCTTTTCATATTGGAT
1 -GACACCTTTGGAAGAATCACAACCC-TTTCAAATTGGAT
*
47897858 -ATACCTCTTGGAAGA
1 GACACCT-TTGGAAGA
47897873 GAGTTGTCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.11
39 30 0.64
40 12 0.26
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (38 bp):
GACACCTTTGGAAGAATCACAACCCTTTCAAATTGGAT
Found at i:47903600 original size:14 final size:14
Alignment explanation
Indices: 47903564--47903603 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
47903554 TAAAAAAAGC
47903564 ATAAAT-AAAAATT
1 ATAAATAAAAAATT
*
47903577 ATAATTTAAAAAATT
1 ATAA-ATAAAAAATT
47903592 ATAAATAAAAAA
1 ATAAATAAAAAA
47903604 CTCTTTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 4 0.17
14 8 0.35
15 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAATAAAAAATT
Found at i:47907169 original size:34 final size:32
Alignment explanation
Indices: 47907131--47907210 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 32
47907121 AATTCAATCC
* *
47907131 AAATTTTAATTTTAAATAAGTTTGAATTTATTTT
1 AAATTTAAATTTT--ATAAGTTTGAATTTACTTT
* *
47907165 AAATTTAAATTCATTCTGAGTTTGAATTTACTTT
1 AAATTTAAATT--TTATAAGTTTGAATTTACTTT
47907199 AAATTTAAATTT
1 AAATTTAAATTT
47907211 ATTTTCAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
32 1 0.03
34 37 0.93
36 2 0.05
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (32 bp):
AAATTTAAATTTTATAAGTTTGAATTTACTTT
Found at i:47907175 original size:17 final size:17
Alignment explanation
Indices: 47907155--47907226 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
47907145 AATAAGTTTG
47907155 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* * * * *
47907172 AATTCATTCTGAGTTTG
1 AATTTATTTTAAATTTA
*
47907189 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
47907206 AATTTATTTTCAATTAA
1 AATTTATTTTAAATTTA
47907223 AATT
1 AATT
47907227 AATTAAAAAG
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:47907479 original size:25 final size:25
Alignment explanation
Indices: 47907451--47907500 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
47907441 AACCAAGTTA
*
47907451 CCACCACCAGCTTCAACTTGCTCTG
1 CCACCACCAGCTTCAACCTGCTCTG
47907476 CCACCACCAGCTTCAACCTGCTCTG
1 CCACCACCAGCTTCAACCTGCTCTG
47907501 TCATTACCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.46, G:0.12, T:0.22
Consensus pattern (25 bp):
CCACCACCAGCTTCAACCTGCTCTG
Found at i:47907916 original size:3 final size:3
Alignment explanation
Indices: 47907908--47907991 Score: 62
Period size: 3 Copynumber: 27.0 Consensus size: 3
47907898 TAAATATCAT
* * * * *
47907908 TAA TAA TAA TAT TAA TTAA AAA TAA TAA T-A TCAA TAA CAA TAA CAT
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* *
47907954 TAA TTAA TAA TAA TTGA TAA TAA TAT TAA TAA TAA TAA
1 TAA -TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
47907992 AAAAGTTGAA
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
2 2 0.03
3 50 0.81
4 10 0.16
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:47907931 original size:13 final size:12
Alignment explanation
Indices: 47907886--47907937 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
47907876 TTTATTTTTC
47907886 AAAACATATTAAT
1 AAAA-ATATTAAT
*
47907899 AAATATCATTAAT
1 AAAAAT-ATTAAT
*
47907912 AATAATATTAATT
1 AAAAATATTAA-T
*
47907925 AAAAATAATAAT
1 AAAAATATTAAT
47907937 A
1 A
47907938 TCAATAACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 9 0.28
13 23 0.72
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAAATATTAAT
Found at i:47907939 original size:34 final size:35
Alignment explanation
Indices: 47907895--47907967 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
47907885 CAAAACATAT
* * *
47907895 TAATAAATATCATTAATAATAATATTAATTAAAAA
1 TAATAAATATCAATAACAATAACATTAATTAAAAA
*
47907930 TAAT-AATATCAATAACAATAACATTAATTAATAA
1 TAATAAATATCAATAACAATAACATTAATTAAAAA
47907964 TAAT
1 TAAT
47907968 TGATAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 30 0.88
35 4 0.12
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (35 bp):
TAATAAATATCAATAACAATAACATTAATTAAAAA
Found at i:47909089 original size:30 final size:29
Alignment explanation
Indices: 47909055--47909433 Score: 111
Period size: 30 Copynumber: 12.9 Consensus size: 29
47909045 CCTTAAAGGT
47909055 CCCTAAACTATCCAAAAATTACATTTTTAC
1 CCCTAAACT-TCCAAAAATTACATTTTTAC
* *
47909085 CCCTAAACTTCCAAAAATTCCATTTATAAC
1 CCCTAAACTTCCAAAAATTACATTT-TTAC
* **
47909115 CCCAAAACTTCTTAAAATTACCA-TTTTAC
1 CCCTAAACTTCCAAAAATTA-CATTTTTAC
* * *
47909144 CCC-AAA-TATCC-AAATTTCCTTTTTTGAC
1 CCCTAAACT-TCCAAAAATTACATTTTT-AC
**
47909172 CCC-AAATCTTTTGAAAAA-TACCA-TTTTAC
1 CCCTAAA-C-TTCCAAAAATTA-CATTTTTAC
** ** * *
47909201 CCCCGAAGGTCTAAAAATT-CTATTTTTAA
1 CCCTAAACTTCCAAAAATTAC-ATTTTTAC
* * * *
47909230 CCTTGAACTTTCCAAAAATTATAATTTTA-
1 CCCTAAAC-TTCCAAAAATTACATTTTTAC
** * * *
47909259 CCCTCGGA-TGTCTAAAAATTCCATTTTTGAT
1 CCCT-AAACT-TCCAAAAATTACATTTTT-AC
* * * *
47909290 CCCGAACCTTCCAAGAAGTACCA-TTTTAC
1 CCCTAAACTTCCAAAAATTA-CATTTTTAC
* *
47909319 CCCTAAA-TATCTAAAAATTCCATTTTTGA-
1 CCCTAAACT-TCCAAAAATTACATTTTT-AC
* *
47909348 CCTTGAACCTTCCAAAAATTACCA-TTTTAC
1 CCCT-AAACTTCCAAAAATTA-CATTTTTAC
** * * *
47909378 CCCCGAACGTCTAAAAATTCCATTTTTGAC
1 CCCTAAACTTCCAAAAATTACATTTTT-AC
* * *
47909408 CTCGAACCTTCCAAAAATTACCATTT
1 CCCTAAACTTCCAAAAATTA-CATTT
47909434 ACCCTCGAGT
Statistics
Matches: 249, Mismatches: 68, Indels: 63
0.66 0.18 0.17
Matches are distributed among these distances:
26 1 0.00
27 11 0.04
28 26 0.10
29 90 0.36
30 100 0.40
31 21 0.08
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTACATTTTTAC
Found at i:47909260 original size:59 final size:59
Alignment explanation
Indices: 47909065--47909437 Score: 319
Period size: 59 Copynumber: 6.4 Consensus size: 59
47909055 CCCTAAACTA
** * * * * *
47909065 TCCAAAAATTA-CATTTTTACCCCTAAACT-TCCAAAAATTCCATTTATAACCCCAAAACT
1 TCCAAAAATTACCA-TTTTACCCCCGAA-TGTCTAAAAATTCCATTTTTAACCTCGAACCT
** * * * * * * * * *
47909124 TCTTAAAATTACCATTTTA-CCCCAAATATC-CAAATTTCCTTTTTTGACCCCAAATCTT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTAACCTCGAA-CCT
** * * * *
47909182 TTGAAAAA-TACCATTTTACCCCCGAAGGTCTAAAAATTCTATTTTTAACCTTGAACTT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTAACCTCGAACCT
** * * *
47909240 TCCAAAAATTATAATTTTACCCTCGGATGTCTAAAAATTCCATTTTTGATCC-CGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTT-AACCTCGAACCT
* * ** * * *
47909299 TCCAAGAAGTACCATTTTACCCCTAAATATCTAAAAATTCCATTTTTGACCTTGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTAACCTCGAACCT
* *
47909358 TCCAAAAATTACCATTTTACCCCCGAACGTCTAAAAATTCCATTTTTGACCTCGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTAACCTCGAACCT
47909417 TCCAAAAATTACCA-TTTACCC
1 TCCAAAAATTACCATTTTACCC
47909438 TCGAGTATCC
Statistics
Matches: 252, Mismatches: 54, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
57 30 0.12
58 40 0.16
59 177 0.70
60 5 0.02
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (59 bp):
TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTAACCTCGAACCT
Found at i:47909439 original size:29 final size:30
Alignment explanation
Indices: 47909185--47909465 Score: 130
Period size: 29 Copynumber: 9.6 Consensus size: 30
47909175 AAATCTTTTG
* ** *
47909185 AAAAA-TACCATTTTACCCCCGAA-GGTCT
1 AAAAATTACCATTTTACCCTCGAACCTTCC
* * * *
47909213 AAAAATT-CTATTTTTAACCTTGAACTTTCC
1 AAAAATTACCA-TTTTACCCTCGAACCTTCC
** * *
47909243 AAAAATTATAATTTTACCCTCGGA--TGTCT
1 AAAAATTACCATTTTACCCTCGAACCT-TCC
*
47909272 AAAAATT-CCATTTTTGATCC-CGAACCTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAACCTTCC
* * * * *
47909302 AAGAAGTACCATTTTACCC-CTAA-ATATCT
1 AAAAATTACCATTTTACCCTCGAACCT-TCC
*
47909331 AAAAATT-CCATTTTTGA-CCTTGAACCTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAACCTTCC
* * *
47909361 AAAAATTACCATTTTACCCCCGAA-CGTCT
1 AAAAATTACCATTTTACCCTCGAACCTTCC
47909390 AAAAATT-CCATTTTTGA-CCTCGAACCTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAACCTTCC
*
47909420 AAAAATTACCA-TTTACCCTCG-A-GTATCC
1 AAAAATTACCATTTTACCCTCGAACCT-TCC
*
47909448 -AAAATTACCGTTTTACCC
1 AAAAATTACCATTTTACCC
47909466 CTGGGCATCC
Statistics
Matches: 190, Mismatches: 39, Indels: 48
0.69 0.14 0.17
Matches are distributed among these distances:
27 10 0.05
28 28 0.15
29 75 0.39
30 65 0.34
31 12 0.06
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.33
Consensus pattern (30 bp):
AAAAATTACCATTTTACCCTCGAACCTTCC
Found at i:47910834 original size:59 final size:60
Alignment explanation
Indices: 47910756--47910895 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 60
47910746 AAAATTTGTG
* * * * *
47910756 TTTTTGGTTGTTGGCCATGCAATGGTCGACACCCCC-TTTTTGTCAGATAATAATTCGAAT
1 TTTTTGG-TGTCGGCCATGCAATGGCCGACACCCCCTTTTTTATCAGATAAAAATTCAAAT
* * * *
47910816 TTTTTTGTGTCGGCCATGCCATGGCCGACACCCCCTTTTTTATCTGGTAAAAATTCAAAT
1 TTTTTGGTGTCGGCCATGCAATGGCCGACACCCCCTTTTTTATCAGATAAAAATTCAAAT
47910876 TTTTTGGTGTCGGCCATGCA
1 TTTTTGGTGTCGGCCATGCA
47910896 CCAACTTTCC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 25 0.37
60 43 0.63
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (60 bp):
TTTTTGGTGTCGGCCATGCAATGGCCGACACCCCCTTTTTTATCAGATAAAAATTCAAAT
Found at i:47912529 original size:22 final size:22
Alignment explanation
Indices: 47912471--47912522 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
47912461 TTAGGGTGTT
*
47912471 GGTGAGCTGGAATTTCGGTTTT
1 GGTGAGCTGGAATTTCGGTTTA
* *
47912493 GATGAGTTGGAATTTCGGTTTA
1 GGTGAGCTGGAATTTCGGTTTA
47912515 GGTGAGCT
1 GGTGAGCT
47912523 AAAATTTGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.08, G:0.37, T:0.38
Consensus pattern (22 bp):
GGTGAGCTGGAATTTCGGTTTA
Found at i:47912872 original size:38 final size:38
Alignment explanation
Indices: 47912830--47912956 Score: 96
Period size: 38 Copynumber: 3.2 Consensus size: 38
47912820 TTTTATTTAA
47912830 ATATTAAAATTTGATAAATAATGTATTGTCAAATCAAC
1 ATATTAAAATTTGATAAATAATGTATTGTCAAATCAAC
* * * * * *
47912868 ATATTATTTGATAAAAATT-ATAATATAATAATATTTTTAATTTAA-
1 --A-TA--T--TAAAATTTGATAA-ATAAT-GTATTGTCAAATCAAC
47912913 ATATTAAAATTTGATAAATAATGTATTGTCAAATCAAC
1 ATATTAAAATTTGATAAATAATGTATTGTCAAATCAAC
*
47912951 AAATTA
1 ATATTA
47912957 TTTGATAAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 20
0.66 0.13 0.20
Matches are distributed among these distances:
37 10 0.15
38 17 0.26
39 4 0.06
40 2 0.03
41 2 0.03
42 2 0.03
43 2 0.03
44 4 0.06
45 12 0.18
46 10 0.15
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.41
Consensus pattern (38 bp):
ATATTAAAATTTGATAAATAATGTATTGTCAAATCAAC
Found at i:47912880 original size:83 final size:84
Alignment explanation
Indices: 47912622--47913001 Score: 631
Period size: 83 Copynumber: 4.5 Consensus size: 84
47912612 TAAATTTAAA
47912622 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
47912687 ATTGTCAAATCAACACATT
66 ATTGTCAAATCAACACATT
* *
47912706 ATTTGATAAAAATTGTAATATAATAATGATTTTTTAATTTAAATAATAAAATTTGATAAAT-ATG
1 ATTTGATAAAAATTGTAATATAATAAT-AATTTTTAATTTAAATATTAAAATTTGATAAATAATG
*
47912770 TATTGTCAAATCAATACATT
65 TATTGTCAAATCAACACATT
*
47912790 ATCTGATAAAAATTGTAATATAATAATAATTTTT-ATTTAAATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
*
47912854 ATTGTCAAATCAACATATT
66 ATTGTCAAATCAACACATT
*
47912873 ATTTGATAAAAATTATAATATAATAAT-ATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
1 ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
*
47912937 ATTGTCAAATCAACAAATT
66 ATTGTCAAATCAACACATT
* *
47912956 ATTTGATAAAAATTGTAATGTAATAATAATCTTTTTTATTTAAATA
1 ATTTGATAAAAATTGTAATATAATAATAA--TTTTTAATTTAAATA
47913002 ATGTTAAATT
Statistics
Matches: 276, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
82 30 0.11
83 125 0.45
84 76 0.28
85 31 0.11
86 14 0.05
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (84 bp):
ATTTGATAAAAATTGTAATATAATAATAATTTTTAATTTAAATATTAAAATTTGATAAATAATGT
ATTGTCAAATCAACACATT
Found at i:47912896 original size:45 final size:44
Alignment explanation
Indices: 47912834--47912970 Score: 119
Period size: 45 Copynumber: 3.2 Consensus size: 44
47912824 ATTTAAATAT
*
47912834 TAAAATTTGATAAATAATGTATTGTCAAATCAACATATTATTTGA
1 TAAAAATTGATAAATAATGTATTGTCAAATCAACA-ATTATTTGA
* ** **
47912879 TAAAAATT-ATAATATAATAATATT-TTTAATTTA-AA-TA--T--
1 TAAAAATTGATAA-ATAAT-GTATTGTCAAATCAACAATTATTTGA
*
47912917 TAAAATTTGATAAATAATGTATTGTCAAATCAACAAATTATTTGA
1 TAAAAATTGATAAATAATGTATTGTCAAATCAAC-AATTATTTGA
47912962 TAAAAATTG
1 TAAAAATTG
47912971 TAATGTAATA
Statistics
Matches: 68, Mismatches: 13, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
37 4 0.06
38 17 0.25
39 4 0.06
40 3 0.04
41 2 0.03
42 2 0.03
43 2 0.03
44 5 0.07
45 25 0.37
46 4 0.06
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (44 bp):
TAAAAATTGATAAATAATGTATTGTCAAATCAACAATTATTTGA
Found at i:47913044 original size:23 final size:23
Alignment explanation
Indices: 47913000--47913048 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
47912990 TTTATTTAAA
* *
47913000 TAATGTTAAATTAATTTTAAATG
1 TAATGTTAAATTAACTTCAAATG
47913023 TAAT-TTAAATTCAACTTCAAATG
1 TAATGTTAAATT-AACTTCAAATG
47913046 TAA
1 TAA
47913049 AGTAGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (23 bp):
TAATGTTAAATTAACTTCAAATG
Found at i:47916146 original size:11 final size:12
Alignment explanation
Indices: 47916103--47916150 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
47916093 TTATTTTAGT
*
47916103 TTATTTCTTAAAA
1 TTATTT-TTAATA
*
47916116 TTAATTTTAATTA
1 TTATTTTTAA-TA
47916129 TTATTTTTAATA
1 TTATTTTTAATA
47916141 -TATTTTTAAT
1 TTATTTTTAAT
47916151 TTGACGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 10 0.32
12 6 0.19
13 15 0.48
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTTTTAATA
Found at i:47917140 original size:118 final size:117
Alignment explanation
Indices: 47916861--47917421 Score: 391
Period size: 120 Copynumber: 4.9 Consensus size: 117
47916851 AAAAGCTGGT
* * *
47916861 GTCGGCCATTGCATGGCCAACACCAAAAAAATTGATTTTTTACCAGATAAAAAAGAGGGTGTCGA
1 GTCGG-CATTGCATGGCCAACACCAAAAAATTTGATTTTTTATCAGAT-AAAAAGGGGGTGTCGA
*
47916926 CCATGGCATGACCAACACAAAAAAAATTAAATTTTTTATCTGACAAAAAGGGGGC
64 CCATGGCATGACCAACACAAAAAAAATTAAATTTTTTATCTGA-AAAAAGGGGAC
* * * *
47916981 GTCGGCAATTGTATGGCCAACACCCAAAAATTTGATTTTTTATTCAGATAAAGAGGGGGTGTCGG
1 GTCGGC-ATTGCATGGCCAACACCAAAAAATTTGATTTTTTA-TCAGATAAAAAGGGGGTGTCGA
* * * * *
47917046 CCATGGCATGGCCAACACCAAAACAATTTGAAA-TTTTTATTTG-AAAAA-GGGAT
64 CCATGGCATGACCAACA-CAAAAAAAATT-AAATTTTTTATCTGAAAAAAGGGGAC
* ** *
47917099 GTCTGTCATTGCATGGCCAACACTTAAAAATTTGATTTTTTATCAGATAAATA----G-G--G--
1 GTC-GGCATTGCATGGCCAACACCAAAAAATTTGATTTTTTATCAGATAAAAAGGGGGTGTCGAC
* *
47917155 -ATGGC-TGA-C-AC-CAAAAAAATTTGAAATTTTTTAATCTG-AAAAAGGGG-T
65 CATGGCATGACCAACACAAAAAAAATT-AAATTTTTT-ATCTGAAAAAAGGGGAC
* * * * * * *
47917203 GTCGGCCATTGCATAGCCAACA-CAAAAAA-ATGATTTTGTTACCAAAT-AAATGGGGGTGTTGG
1 GTCGG-CATTGCATGGCCAACACCAAAAAATTTGATTTT-TTATCAGATAAAAAGGGGGTGTCGA
* ** * * *
47917265 TCATACCATGGCCAACACAAAAAAAATTAAAATTTTT-TCCGACAAAAAAGGGGTA-
64 CCATGGCATGACCAACACAAAAAAAATTAAATTTTTTATCTG--AAAAAAGGGG-AC
* * * * * * * *
47917320 -TCGGCCATTGTATGACCAACACCCAAAAATTTGTTTTTTTTATCAAATTAAAAGGGAGTGTCGG
1 GTCGG-CATTGCATGGCCAACACCAAAAAATTTG-ATTTTTTATCAGATAAAAAGGGGGTGTCGA
* * **
47917384 TCATTGCATGACCAACAC-AAAAAAATTTGATTTTTTAT
64 CCATGGCATGACCAACACAAAAAAAATTAAATTTTTTAT
47917422 TAGATAACAG
Statistics
Matches: 355, Mismatches: 52, Indels: 69
0.75 0.11 0.14
Matches are distributed among these distances:
102 23 0.06
103 18 0.05
104 30 0.08
105 4 0.01
106 3 0.01
107 6 0.02
109 1 0.00
110 1 0.00
112 4 0.01
113 6 0.02
114 1 0.00
115 10 0.03
116 37 0.10
117 16 0.05
118 63 0.18
119 40 0.11
120 66 0.19
121 23 0.06
122 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (117 bp):
GTCGGCATTGCATGGCCAACACCAAAAAATTTGATTTTTTATCAGATAAAAAGGGGGTGTCGACC
ATGGCATGACCAACACAAAAAAAATTAAATTTTTTATCTGAAAAAAGGGGAC
Found at i:47917155 original size:58 final size:57
Alignment explanation
Indices: 47916858--47917428 Score: 307
Period size: 60 Copynumber: 9.9 Consensus size: 57
47916848 AGAAAAAGCT
* *
47916858 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTGATTTTTTACCAGATAAAAAAGAG
1 GGTGTC-GCCATTGCATGGCCAACACCAAAAAATTTGATTTTTTATCAGAT-AAAAAG-G
* * * ** * *
47916918 GGTGTCGACCATGGCATGACCAACACAAAAAAAATTAAATTTTTTATCTGACAAAAAGGG
1 GGTGTCG-CCATTGCATGGCCAACAC-CAAAAAATTTGATTTTTTATCAGATAAAAA-GG
* * * * *
47916978 GGCGTCGGCAATTGTATGGCCAACACCCAAAAATTTGATTTTTTATTCAGATAAAGAGGG
1 GGTGTC-GCCATTGCATGGCCAACACCAAAAAATTTGATTTTTTA-TCAGATAAA-AAGG
* * **
47917038 GGTGTCGGCCATGGCATGGCCAACACCAAAACAATTTGAAATTTTTATTTG--AAAAAGG
1 GGTGTC-GCCATTGCATGGCCAACACCAAAA-AATTTG-ATTTTTTATCAGATAAAAAGG
* * ** *
47917096 GATGTCTGTCATTGCATGGCCAACACTTAAAAATTTGATTTTTTATCAGATAAATAGG
1 GGTGTC-GCCATTGCATGGCCAACACCAAAAAATTTGATTTTTTATCAGATAAAAAGG
* * *
47917154 GATG--G-C--TG-A----C-AC-CAAAAAAATTTGAAATTTTTTAATCTG--AAAAAGG
1 GGTGTCGCCATTGCATGGCCAACACCAAAAAATTTG--ATTTTTT-ATCAGATAAAAAGG
* * * * **
47917200 GGTGTCGGCCATTGCATAGCCAACA-CAAAAAA-ATGATTTTGTTACCAAATAAATGGG
1 GGTGTC-GCCATTGCATGGCCAACACCAAAAAATTTGATTTT-TTATCAGATAAAAAGG
* * ** * ** * * *
47917257 GGTGTTGGTCATACCATGGCCAACACAAAAAAAATTAAAATTTTT-TCCGACAAAAAAGG
1 GGTG-TCGCCATTGCATGGCCAACAC-CAAAAAATTTGATTTTTTATCAGA-TAAAAAGG
* * * * * * *
47917316 GGTATCGGCCATTGTATGACCAACACCCAAAAATTTGTTTTTTTTATCAAATTAAAAGG
1 GGTGTC-GCCATTGCATGGCCAACACCAAAAAATTTG-ATTTTTTATCAGATAAAAAGG
* * * *
47917375 GAGTGTCGGTCATTGCATGACCAACACAAAAAAATTTGATTTTTTATTAGATAA
1 G-GTGTC-GCCATTGCATGGCCAACACCAAAAAATTTGATTTTTTATCAGATAA
47917429 CAGCATGGCC
Statistics
Matches: 379, Mismatches: 94, Indels: 77
0.69 0.17 0.14
Matches are distributed among these distances:
45 10 0.03
46 11 0.03
47 8 0.02
48 4 0.01
49 1 0.00
50 1 0.00
51 1 0.00
52 4 0.01
53 1 0.00
54 1 0.00
55 8 0.02
56 11 0.03
57 32 0.08
58 57 0.15
59 73 0.19
60 120 0.32
61 29 0.08
62 7 0.02
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (57 bp):
GGTGTCGCCATTGCATGGCCAACACCAAAAAATTTGATTTTTTATCAGATAAAAAGG
Found at i:47917230 original size:102 final size:102
Alignment explanation
Indices: 47917060--47917253 Score: 257
Period size: 104 Copynumber: 1.9 Consensus size: 102
47917050 GGCATGGCCA
* * * * *
47917060 ACACCAAAACAATTTGAAATTTTTATTTGAAAAAGGGATGTCTGTCATTGCATGGCCAACACTTA
1 ACACCAAAAAAATTTGAAATTTTTATCTGAAAAAGGGATGTCGGCCATTGCATAGCCAACAC-TA
** * *
47917125 AAAATTTGATTTT-TTATCAGATAAATAGGGATGGCTG
65 AAAAAATGATTTTGTTACCAAATAAATAGGGATGGCTG
*
47917162 ACACCAAAAAAATTTGAAATTTTTTAATCTGAAAAAGGGGTGTCGGCCATTGCATAGCCAACAC-
1 ACACCAAAAAAATTTGAAA-TTTTT-ATCTGAAAAAGGGATGTCGGCCATTGCATAGCCAACACT
47917226 AAAAAAATGATTTTGTTACCAAATAAAT
64 AAAAAAATGATTTTGTTACCAAATAAAT
47917254 GGGGGTGTTG
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
102 30 0.38
103 16 0.20
104 33 0.42
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (102 bp):
ACACCAAAAAAATTTGAAATTTTTATCTGAAAAAGGGATGTCGGCCATTGCATAGCCAACACTAA
AAAAATGATTTTGTTACCAAATAAATAGGGATGGCTG
Found at i:47917421 original size:59 final size:57
Alignment explanation
Indices: 47917194--47917420 Score: 194
Period size: 59 Copynumber: 3.9 Consensus size: 57
47917184 TTTAATCTGA
47917194 AAAAGGGGTGTCGGCCATTGCAT-AGCCAACACAAAAAAA--TGATTTTGTTACCAAAT
1 AAAAGGGGTGTCGGCCATTGCATGA-CCAACACAAAAAAATTTGATTTT-TTACCAAAT
* * * ** * **
47917250 AAATGGGGGTGTTGGTCATACCATGGCCAACACAAAAAAAATTAAAATTTTTT-CCGACAA-
1 AAA-AGGGGTGTCGGCCATTGCATGACCAACAC-AAAAAAATT-TGATTTTTTACC-A-AAT
* * ** * *
47917310 AAAAGGGGTATCGGCCATTGTATGACCAACACCCAAAAATTTGTTTTTTTTATCAAATT
1 AAAAGGGGTGTCGGCCATTGCATGACCAACACAAAAAAATTTG-ATTTTTTACCAAA-T
*
47917369 AAAAGGGAGTGTCGGTCATTGCATGACCAACACAAAAAAATTTGATTTTTTA
1 AAAAGGG-GTGTCGGCCATTGCATGACCAACACAAAAAAATTTGATTTTTTA
47917421 TTAGATAACA
Statistics
Matches: 130, Mismatches: 28, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
56 3 0.02
57 24 0.18
58 21 0.16
59 38 0.29
60 37 0.28
61 7 0.05
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (57 bp):
AAAAGGGGTGTCGGCCATTGCATGACCAACACAAAAAAATTTGATTTTTTACCAAAT
Found at i:47918973 original size:30 final size:29
Alignment explanation
Indices: 47918905--47918977 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
47918895 ACAAAATGAT
*
47918905 AACATAAGTGACTAAAATATAACATTTCA
1 AACAAAAGTGACTAAAATATAACATTTCA
*
47918934 AACATAAGTGACTAAAATATAAC-TTAGTCA
1 AACAAAAGTGACTAAAATATAACATT--TCA
*
47918964 AATAAAAGTGACTA
1 AACAAAAGTGACTA
47918978 TTTTATAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
30 15 0.38
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (29 bp):
AACAAAAGTGACTAAAATATAACATTTCA
Found at i:47920418 original size:29 final size:30
Alignment explanation
Indices: 47920386--47920521 Score: 95
Period size: 30 Copynumber: 4.6 Consensus size: 30
47920376 TCGAACTTTC
*
47920386 CTAAAATCACGTTTTGACCCCTAAAC-TCT
1 CTAAAATCACATTTTGACCCCTAAACTTCT
* * *
47920415 CTAAAAATTACATTTT-AACCTTCAAACTTCT
1 CT-AAAATCACATTTTGACCCCT-AAACTTCT
* * * *
47920446 CAAAAATTACATTTTGACCCTTAAACTTTT
1 CTAAAATCACATTTTGACCCCTAAACTTCT
* *
47920476 CCAAAATCATA-TTTGACCCC-AAAC-TCT
1 CTAAAATCACATTTTGACCCCTAAACTTCT
* *
47920503 TTGAAACTC-CATTTTGACC
1 CT-AAAATCACATTTTGACC
47920522 TCATTTTTTT
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
27 3 0.04
28 16 0.19
29 14 0.16
30 43 0.51
31 9 0.11
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (30 bp):
CTAAAATCACATTTTGACCCCTAAACTTCT
Found at i:47920435 original size:59 final size:60
Alignment explanation
Indices: 47920358--47920472 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
47920348 TATTTTGTCC
* * * *
47920358 AAAAATTATATTTCAACC-TCGAACTT-TCCTAAAATCACGTTTTGACCCCTAAACTCTCT
1 AAAAATTACATTTCAACCTTCAAACTTCT-CAAAAATCACATTTTGACCCCTAAACTCTCT
* * *
47920417 AAAAATTACATTTTAACCTTCAAACTTCTCAAAAATTACATTTTGACCCTTAAACT
1 AAAAATTACATTTCAACCTTCAAACTTCTCAAAAATCACATTTTGACCCCTAAACT
47920473 TTTCCAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
59 16 0.34
60 30 0.64
61 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.35
Consensus pattern (60 bp):
AAAAATTACATTTCAACCTTCAAACTTCTCAAAAATCACATTTTGACCCCTAAACTCTCT
Found at i:47920472 original size:30 final size:30
Alignment explanation
Indices: 47920388--47920494 Score: 105
Period size: 30 Copynumber: 3.6 Consensus size: 30
47920378 GAACTTTCCT
* * *
47920388 AAAATCACGTTTTGACCCCTAAAC-TCTCTA
1 AAAATTACATTTTGACCCTTAAACTTCTC-A
*
47920418 AAAATTACATTTT-AACCTTCAAACTTCTCA
1 AAAATTACATTTTGACCCTT-AAACTTCTCA
* *
47920448 AAAATTACATTTTGACCCTTAAACTTTTCC
1 AAAATTACATTTTGACCCTTAAACTTCTCA
47920478 AAAA-T-CATATTTGACCC
1 AAAATTACAT-TTTGACCC
47920495 CAAACTCTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
28 3 0.05
29 13 0.20
30 41 0.62
31 9 0.14
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCTTAAACTTCTCA
Found at i:47937644 original size:22 final size:21
Alignment explanation
Indices: 47937608--47937650 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
47937598 CGATCTGAGG
*
47937608 AAAAATAAAAGAAACAGAATT
1 AAAAATAAAAGAAACACAATT
47937629 AAAAATAAAAGAAAACACAATT
1 AAAAATAAAAG-AAACACAATT
47937651 GAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAGAAACACAATT
Found at i:47938494 original size:19 final size:19
Alignment explanation
Indices: 47938470--47938512 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
47938460 AAGCATAAAT
47938470 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
47938489 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
47938508 TAAAT
1 TAAAT
47938513 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:47946669 original size:11 final size:12
Alignment explanation
Indices: 47946626--47946673 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
47946616 TTATTTTAGT
*
47946626 TTATTTCTTAAAA
1 TTATTT-TTAATA
*
47946639 TTAATTTTAATTA
1 TTATTTTTAA-TA
47946652 TTATTTTTAATA
1 TTATTTTTAATA
47946664 -TATTTTTAAT
1 TTATTTTTAAT
47946674 TTGACGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 10 0.32
12 6 0.19
13 15 0.48
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTTTTAATA
Found at i:47947442 original size:60 final size:60
Alignment explanation
Indices: 47947378--47947670 Score: 283
Period size: 60 Copynumber: 4.9 Consensus size: 60
47947368 AGAAAAAGCT
* * *
47947378 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTGATTTTTTACCAGATAAAAAAGAG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTGATTTTTTATCAGATAAAAAAGGG
* * * * ** * *
47947438 GGTGTCGACCATGGCATGACCAACACAAAAAAAATTAAATTTTTTATCTGA-CAAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACAC-CAAAAAATTTGATTTTTTATCAGATAAAAAAGGG
* * * * *
47947498 GGCGTCGGCAATTGTATGGCCAACACCCAAAAATTTGATTTTTTATTCAGAT-AAAGAGGG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTGATTTTTTA-TCAGATAAAAAAGGG
* * *
47947558 GGTGTCGGCCATGGCATGGCCAACACCAAAACAATTTGAAATTTTTTAT---TTGAAAAA-GG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAA-AATTTG--ATTTTTTATCAGATAAAAAAGGG
* * * **
47947617 GATGTCTGTCATTGCATGGCCAACACTTAAAAATTTGATTTTTTATCAGATAAA
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTGATTTTTTATCAGATAAA
47947671 TAGGGATGGC
Statistics
Matches: 185, Mismatches: 38, Indels: 21
0.76 0.16 0.09
Matches are distributed among these distances:
56 9 0.05
58 6 0.03
59 46 0.25
60 91 0.49
61 24 0.13
62 1 0.01
63 8 0.04
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (60 bp):
GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTGATTTTTTATCAGATAAAAAAGGG
Found at i:47947587 original size:59 final size:58
Alignment explanation
Indices: 47947378--47947948 Score: 313
Period size: 59 Copynumber: 9.9 Consensus size: 58
47947368 AGAAAAAGCT
* * *
47947378 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTGATTTTTTACCAGATAAAAAAGAG
1 GGTGTCGGCCATTGCATGGCCAACACC-AAAAATTTGATTTTTTATCAGAT-AAAAAGGG
* * * * ** * *
47947438 GGTGTCGACCATGGCATGACCAACACAAAAAAAATTAAATTTTTTATCTGACAAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACAC--CAAAAATTTGATTTTTTATCAGATAAAAAGGG
* * * *
47947498 GGCGTCGGCAATTGTATGGCCAACACCCAAAAATTTGATTTTTTATTCAGATAAAGAGGG
1 GGTGTCGGCCATTGCATGGCCAACA-CCAAAAATTTGATTTTTTA-TCAGATAAAAAGGG
* **
47947558 GGTGTCGGCCATGGCATGGCCAACACCAAAACAATTTGAAATTTTTTATTTG--AAAAA-GG
1 GGTGTCGGCCATTGCATGGCCAACACC-AAA-AATTTG--ATTTTTTATCAGATAAAAAGGG
* * * * *
47947617 GATGTCTGTCATTGCATGGCCAACACTTAAAAATTTGATTTTTTATCAGATAAATA--G
1 GGTGTCGGCCATTGCATGGCCAACAC-CAAAAATTTGATTTTTTATCAGATAAAAAGGG
* * ** *
47947674 GG-AT-GG-C--TGACA---CCAA-A--AAAATTTGAAATTTTTTAATCTG--AAAAA-GG
1 GGTGTCGGCCATTG-CATGGCCAACACCAAAAATT-TGATTTTTT-ATCAGATAAAAAGGG
* ** * * *
47947721 GGTGTCGGCCATTGCATAGCCAACA-CAAAAAAATGATTTTGTTACCAAAT-AAATGGG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAATTTGATTTT-TTATCAGATAAAAAGGG
* * ** * ** * * * *
47947778 GGTGTTGGTCATACCATGGCCAACACAAAAAAAATTAAAATTTTT-TCTGACAAAAAAGG
1 GGTGTCGGCCATTGCATGGCCAACAC--CAAAAATTTGATTTTTTATCAGATAAAAAGGG
* * * * * *
47947837 GGTATCGGCCATTGTATGACCAACACCCAAAAATTTGTTTTTTTATCAAATTAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACA-CCAAAAATTTGATTTTTTATCAGATAAAAAGGG
* * * * *
47947896 AGTGTCGGTCATTGCATGACCAACACAAAAAAATTTGATTTTTTATTAGATAA
1 GGTGTCGGCCATTGCATGGCCAACAC-CAAAAATTTGATTTTTTATCAGATAA
47947949 CAGCATGGCC
Statistics
Matches: 376, Mismatches: 99, Indels: 73
0.69 0.18 0.13
Matches are distributed among these distances:
46 10 0.03
47 10 0.03
48 5 0.01
49 3 0.01
50 5 0.01
51 2 0.01
52 4 0.01
53 2 0.01
54 5 0.01
55 9 0.02
56 20 0.05
57 24 0.06
58 25 0.07
59 120 0.32
60 98 0.26
61 24 0.06
62 2 0.01
63 8 0.02
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (58 bp):
GGTGTCGGCCATTGCATGGCCAACACCAAAAATTTGATTTTTTATCAGATAAAAAGGG
Found at i:47947752 original size:103 final size:103
Alignment explanation
Indices: 47947580--47947774 Score: 268
Period size: 103 Copynumber: 1.9 Consensus size: 103
47947570 GGCATGGCCA
* * * * *
47947580 ACACCAAAACAATTTGAAATTTTTTATTTGAAAAAGGGATGTCTGTCATTGCATGGCCAACACTT
1 ACACCAAAAAAATTTGAAATTTTTTATCTGAAAAAGGGATGTCGGCCATTGCATAGCCAACAC-T
** * *
47947645 AAAAATTTGATTTT-TTATCAGATAAATAGGGATGGCTG
65 AAAAAAATGATTTTGTTACCAAATAAATAGGGATGGCTG
*
47947683 ACACCAAAAAAATTTGAAATTTTTTAATCTGAAAAAGGGGTGTCGGCCATTGCATAGCCAACAC-
1 ACACCAAAAAAATTTGAAATTTTTT-ATCTGAAAAAGGGATGTCGGCCATTGCATAGCCAACACT
47947747 AAAAAAATGATTTTGTTACCAAATAAAT
65 AAAAAAATGATTTTGTTACCAAATAAAT
47947775 GGGGGTGTTG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
102 12 0.15
103 35 0.44
104 33 0.41
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (103 bp):
ACACCAAAAAAATTTGAAATTTTTTATCTGAAAAAGGGATGTCGGCCATTGCATAGCCAACACTA
AAAAAATGATTTTGTTACCAAATAAATAGGGATGGCTG
Found at i:47947862 original size:220 final size:222
Alignment explanation
Indices: 47947463--47947884 Score: 478
Period size: 220 Copynumber: 1.9 Consensus size: 222
47947453 ATGACCAACA
* *
47947463 CAAAAAAAATTAAATTTTTTATCTGACAAAAAGGGGGCGTCGGCAATTGTATGGCCAACACCCAA
1 CAAAAAAAATTAAATTTTTTATCTGA-AAAAAGGGGGCGTCGGCAATTGCATAGCCAACA-CCAA
** * * ** * *
47947528 AAATTTGATTTTTTATTCAGATAAAGAGGGGGTGTCGGCCATGGCATGGCCAACACCAAAACAAT
64 AAAAATGATTTTTTATCCAAATAAAGAGGGGGTGTCGGCCATACCATGGCCAACACCAAAAAAAA
* *** * * * * **
47947593 TTGAAATTTTTTATTTGAAAAAGGGATGTCTGTCATTGCATGGCCAACACTTAAAAATTTGATTT
129 TTAAAATTTTTTATACAAAAAAGGGATATCGGCCATTGCATGACCAACACCCAAAAATTTGATTT
47947658 TTTATCAGATAAATAGGGATGGCTGACAC
194 TTTATCAGATAAATAGGGATGGCTGACAC
* * *
47947687 CAAAAAAATTTGAAATTTTTTAATCTG-AAAAA-GGGGTGTCGGCCATTGCATAGCCAACA-CAA
1 CAAAAAAAATT-AAATTTTTT-ATCTGAAAAAAGGGGGCGTCGGCAATTGCATAGCCAACACCAA
* * *
47947749 AAAAATGATTTTGTTA-CCAAATAAA-TGGGGGTGTTGGTCATACCATGGCCAACA-CAAAAAAA
64 AAAAATGATTTT-TTATCCAAATAAAGAGGGGGTGTCGGCCATACCATGGCCAACACCAAAAAAA
* * * *
47947811 ATTAAAATTTTTTCTGACAAAAAAGGGGTATCGGCCATTGTATGACCAACACCCAAAAATTTGTT
128 ATTAAAATTTTTTAT-ACAAAAAAGGGATATCGGCCATTGCATGACCAACACCCAAAAATTTGAT
47947876 TTTTTATCA
192 TTTTTATCA
47947885 AATTAAAAGG
Statistics
Matches: 164, Mismatches: 30, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
219 19 0.12
220 70 0.43
221 20 0.12
222 3 0.02
223 23 0.14
224 15 0.09
225 9 0.05
226 5 0.03
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (222 bp):
CAAAAAAAATTAAATTTTTTATCTGAAAAAAGGGGGCGTCGGCAATTGCATAGCCAACACCAAAA
AAATGATTTTTTATCCAAATAAAGAGGGGGTGTCGGCCATACCATGGCCAACACCAAAAAAAATT
AAAATTTTTTATACAAAAAAGGGATATCGGCCATTGCATGACCAACACCCAAAAATTTGATTTTT
TATCAGATAAATAGGGATGGCTGACAC
Found at i:47949470 original size:30 final size:29
Alignment explanation
Indices: 47949402--47949474 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
47949392 ACAAAATGAT
*
47949402 AACATAAGTGACTAAAATATAACATTTCA
1 AACAAAAGTGACTAAAATATAACATTTCA
*
47949431 AACATAAGTGACTAAAATATAAC-TTAGTCA
1 AACAAAAGTGACTAAAATATAACATT--TCA
*
47949461 AATAAAAGTGACTA
1 AACAAAAGTGACTA
47949475 GTTTATAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
30 15 0.38
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (29 bp):
AACAAAAGTGACTAAAATATAACATTTCA
Found at i:47950932 original size:59 final size:60
Alignment explanation
Indices: 47950855--47950969 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
47950845 TATTTTGTCC
* * *
47950855 AAAAATTACATTTCAACC-TCGAACTT-TCCTAAAATCACGTTTTGACCCCTAAACTCTCT
1 AAAAATTACATTTCAACCTTCAAACTTCT-CAAAAATCACATTTTGACCCCTAAACTCTCT
* * *
47950914 AAAAATTACATTTTAACCTTCAAACTTCTCAAAAATTACATTTTGACCCTTAAACT
1 AAAAATTACATTTCAACCTTCAAACTTCTCAAAAATCACATTTTGACCCCTAAACT
47950970 TTTCCAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 17 0.35
60 30 0.62
61 1 0.02
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.34
Consensus pattern (60 bp):
AAAAATTACATTTCAACCTTCAAACTTCTCAAAAATCACATTTTGACCCCTAAACTCTCT
Found at i:47950969 original size:30 final size:30
Alignment explanation
Indices: 47950885--47950991 Score: 105
Period size: 30 Copynumber: 3.6 Consensus size: 30
47950875 GAACTTTCCT
* * *
47950885 AAAATCACGTTTTGACCCCTAAAC-TCTCTA
1 AAAATTACATTTTGACCCTTAAACTTCTC-A
*
47950915 AAAATTACATTTT-AACCTTCAAACTTCTCA
1 AAAATTACATTTTGACCCTT-AAACTTCTCA
* *
47950945 AAAATTACATTTTGACCCTTAAACTTTTCC
1 AAAATTACATTTTGACCCTTAAACTTCTCA
47950975 AAAA-T-CATATTTGACCC
1 AAAATTACAT-TTTGACCC
47950992 CAAACTCTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
28 3 0.05
29 13 0.20
30 41 0.62
31 9 0.14
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCTTAAACTTCTCA
Found at i:47970053 original size:22 final size:21
Alignment explanation
Indices: 47970017--47970059 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
47970007 CGATCTGAGG
*
47970017 AAAAATAAAAGAAACAGAATT
1 AAAAATAAAAGAAACACAATT
47970038 AAAAATAAAAGAAAACACAATT
1 AAAAATAAAAG-AAACACAATT
47970060 GAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAGAAACACAATT
Found at i:47970903 original size:19 final size:19
Alignment explanation
Indices: 47970879--47970921 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
47970869 AAGCATAAAT
47970879 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
47970898 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
47970917 TAAAT
1 TAAAT
47970922 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:47991130 original size:22 final size:21
Alignment explanation
Indices: 47991094--47991136 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
47991084 CGATCTGAGG
*
47991094 AAAAATAAAAGAAACAGAATT
1 AAAAATAAAAGAAACACAATT
47991115 AAAAATAAAAGAAAACACAATT
1 AAAAATAAAAG-AAACACAATT
47991137 GAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAGAAACACAATT
Found at i:47991980 original size:19 final size:19
Alignment explanation
Indices: 47991956--47991998 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
47991946 AAGCATAAAT
47991956 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
47991975 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
47991994 TAAAT
1 TAAAT
47991999 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:48003580 original size:17 final size:17
Alignment explanation
Indices: 48003560--48003628 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 17
48003550 CTATTTCAAG
48003560 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
48003577 TTT-AA---A-CTT-AA
1 TTTAAATTTATTTTAAA
48003588 TTT-AATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
48003604 TTCAAATTTATTTTAAT
1 TTTAAATTTATTTTAAA
48003621 TTTAAATT
1 TTTAAATT
48003629 AAATTTCCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
11 7 0.17
12 2 0.05
13 1 0.02
14 1 0.02
15 2 0.05
16 6 0.15
17 22 0.54
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:48003595 original size:27 final size:27
Alignment explanation
Indices: 48003564--48003622 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
48003554 TTCAAGTTTA
*
48003564 AATTTATTTTAAATTTAAACTTAATTT
1 AATTTATTTTAAATTCAAACTTAATTT
* *
48003591 AATTTATTTTAAATTCAAATTTATTTT
1 AATTTATTTTAAATTCAAACTTAATTT
48003618 AATTT
1 AATTT
48003623 TAAATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (27 bp):
AATTTATTTTAAATTCAAACTTAATTT
Found at i:48003605 original size:11 final size:11
Alignment explanation
Indices: 48003560--48003634 Score: 55
Period size: 11 Copynumber: 6.8 Consensus size: 11
48003550 CTATTTCAAG
*
48003560 TTTAAATTTAT
1 TTTAAATTTAA
48003571 TTTAAATTTAAA
1 TTTAAATTT-AA
*
48003583 CTT-AATTTAA
1 TTTAAATTTAA
*
48003593 TTT-ATTTTAAA
1 TTTAAATTT-AA
* *
48003604 TTCAAATTTAT
1 TTTAAATTTAA
*
48003615 TTTAATTTTAA
1 TTTAAATTTAA
*
48003626 ATTAAATTT
1 TTTAAATTT
48003635 CCAGTCCAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
10 8 0.16
11 34 0.69
12 7 0.14
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:48003912 original size:41 final size:41
Alignment explanation
Indices: 48003867--48004123 Score: 182
Period size: 41 Copynumber: 6.3 Consensus size: 41
48003857 GTCTTTAGCG
* *
48003867 GTCGGGTTATTAGCAGCGCTTAGACACAAGCGCCACTAAAA
1 GTCGGGTCATTAGCGGCGCTTAGACACAAGCGCCACTAAAA
* * * *
48003908 GTCGGGTCATTAGCGGCGCTTAGCCACAAGCGTCGCTAAAG
1 GTCGGGTCATTAGCGGCGCTTAGACACAAGCGCCACTAAAA
* * * *
48003949 GTCGAGTCATTAGCGGCGCTT-CAC-CGTAAGCGTCGCTAAAA
1 GTCGGGTCATTAGCGGCGCTTAGACAC--AAGCGCCACTAAAA
* ** * * **
48003990 GT-GGAGTCATTAGCGACGCTTACCCACAAACGCCGCTAATG
1 GTCGG-GTCATTAGCGGCGCTTAGACACAAGCGCCACTAAAA
* * * * *
48004031 GTCGGGTCATTAGCGGCGCTTCA-CCGCGAGTGCCGCTAAAA
1 GTCGGGTCATTAGCGGCGCTT-AGACACAAGCGCCACTAAAA
** * * *
48004072 GT-GGAGTCATTAGCGGCGCTTACCCACAAACGCCGCTAAAG
1 GTCGG-GTCATTAGCGGCGCTTAGACACAAGCGCCACTAAAA
*
48004113 GTCTGGTCATT
1 GTCGGGTCATT
48004124 CTGGTCATTA
Statistics
Matches: 176, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 163 0.93
42 6 0.03
43 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.21
Consensus pattern (41 bp):
GTCGGGTCATTAGCGGCGCTTAGACACAAGCGCCACTAAAA
Found at i:48004003 original size:82 final size:81
Alignment explanation
Indices: 48003893--48004123 Score: 329
Period size: 82 Copynumber: 2.8 Consensus size: 81
48003883 CGCTTAGACA
* * * *
48003893 CAAGCGCCACTAAAAGTCGG-GTCATTAGCGGCGCTTAGCCACAAGCGTCGCTAAAGGTCGAGTC
1 CAAGCGCCGCTAAAAGT-GGAGTCATTAGCGGCGCTTACCCACAAACGCCGCTAAAGGTCG-GTC
48003957 ATTAGCGGCGCTTCACCG
64 ATTAGCGGCGCTTCACCG
* * * *
48003975 TAAGCGTCGCTAAAAGTGGAGTCATTAGCGACGCTTACCCACAAACGCCGCTAATGGTCGGGTCA
1 CAAGCGCCGCTAAAAGTGGAGTCATTAGCGGCGCTTACCCACAAACGCCGCTAAAGGTC-GGTCA
48004040 TTAGCGGCGCTTCACCG
65 TTAGCGGCGCTTCACCG
* *
48004057 CGAGTGCCGCTAAAAGTGGAGTCATTAGCGGCGCTTACCCACAAACGCCGCTAAAGGTCTGGTCA
1 CAAGCGCCGCTAAAAGTGGAGTCATTAGCGGCGCTTACCCACAAACGCCGCTAAAGGTC-GGTCA
48004122 TT
65 TT
48004124 CTGGTCATTA
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 2 0.02
82 129 0.98
83 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.20
Consensus pattern (81 bp):
CAAGCGCCGCTAAAAGTGGAGTCATTAGCGGCGCTTACCCACAAACGCCGCTAAAGGTCGGTCAT
TAGCGGCGCTTCACCG
Done.