Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 116 of 190
Found at i:35154152 original size:3 final size:3
Alignment explanation
Indices: 35154144--35154212 Score: 67
Period size: 3 Copynumber: 23.7 Consensus size: 3
35154134 TAAATGAGTA
*
35154144 AAT AAT AAT AAT AAT AAT AAT AAT ACA- AA- AAT AAT AAT -AT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
35154187 -AT AAT AAT -AT AAT AAT GAAT AGAT AA
1 AAT AAT AAT AAT AAT AAT -AAT A-AT AA
35154213 GTATAAAAAG
Statistics
Matches: 59, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
2 9 0.15
3 43 0.73
4 7 0.12
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:35154198 original size:8 final size:9
Alignment explanation
Indices: 35154144--35154212 Score: 67
Period size: 8 Copynumber: 7.9 Consensus size: 9
35154134 TAAATGAGTA
35154144 AATAATAAT
1 AATAATAAT
35154153 AATAATAAT
1 AATAATAAT
35154162 AATAATACA-
1 AATAATA-AT
35154171 AA-AATAAT
1 AATAATAAT
*
35154179 AAT-ATGAT
1 AATAATAAT
35154187 -ATAATAAT
1 AATAATAAT
35154195 -ATAATAAT
1 AATAATAAT
35154203 GAATAGATAA
1 -AATA-ATAA
35154213 GTATAAAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
7 3 0.06
8 22 0.43
9 18 0.35
10 4 0.08
11 4 0.08
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
AATAATAAT
Found at i:35156525 original size:404 final size:404
Alignment explanation
Indices: 35155776--35156574 Score: 1409
Period size: 404 Copynumber: 2.0 Consensus size: 404
35155766 TTATTGTATG
35155776 CAATGAAATGTAATGTTAATAAATGGAAAAGATGCATGCAAAAAGGCGTTGATTCTAGTTCAATT
1 CAATGAAATGTAATGTTAATAAATGGAAAAGATGCATGCAAAAAGGCGTTGATTCTAGTTCAATT
* *
35155841 CCATTAGAACAACTTTACTAGGAAACAAGTTTCTTTACATAAAGCAGATACATATACGGTATCAC
66 CCATTAGAACAACTTTACTAGAAAACAAGTTTCTTTACATAAAGCAGATACATATACGGCATCAC
*
35155906 CTTCACACTTAAAACCTTAACTTTCCCAAGAAACAAAGCTAATGCTTAGCCCTGGTCTGACTCTA
131 CTTCACACTTAAAACCTTAACTTTCCCAAGAAACAAAGCTAATGCTTAGCCCTGATCTGACTCTA
* * *
35155971 ATTCATATTTCAGGCTTTGAACGGCTGGGGTCTGCAAGTGGTCAGCTACTTCTCATACTCGAACC
196 ATTCATATTTCAGGCTTTGAACGGCTGGGGTCTGCAAATGGTCAGCCACTTATCATACTCGAACC
* * * *
35156036 AAAGCTTTGCTCATGACGTGGTCCATATCTCTAACCTTCCTCTCTTATAGGCTGTCACCTTTCAC
261 AAAGCTTCGCTCATGACGTGGTCCATATCTCTAACCTGCCTCTCTCACAGGCTGTCACCTTTCAC
35156101 TTGTTGCCTTTTCTTGGACCATATTTGTGTGACCGTGTTATCTTTCGCTTTATCAAGAAACCCAT
326 TTGTTGCCTTTTCTTGGACCATATTTGTGTGACCGTGTTATCTTTCGCTTTATCAAGAAACCCAT
35156166 TTTCCATTACATAT
391 TTTCCATTACATAT
*
35156180 CAATGAAATGTAATGTTAATGAATGGAAAAGATGCATGCAAAAAGGCGTTGATTCTAGTTCAATT
1 CAATGAAATGTAATGTTAATAAATGGAAAAGATGCATGCAAAAAGGCGTTGATTCTAGTTCAATT
* * * * *
35156245 CCATTAGAACAATTTTACTAGAAAACAAGTTTCTTTAGATAAAGCGGTTACATATACGGCATCGC
66 CCATTAGAACAACTTTACTAGAAAACAAGTTTCTTTACATAAAGCAGATACATATACGGCATCAC
*
35156310 CTTCACACTTAAAACCTTAACTTTCCCAAGAAACAAAGCTAATTCTTAGCCCTGATCTGACTCTA
131 CTTCACACTTAAAACCTTAACTTTCCCAAGAAACAAAGCTAATGCTTAGCCCTGATCTGACTCTA
* *
35156375 ATTCATATTTCAGGCTTTGAACGGTTGGGGTCTGCAAATGGTCAGCCACTTATCGTACTCGAACC
196 ATTCATATTTCAGGCTTTGAACGGCTGGGGTCTGCAAATGGTCAGCCACTTATCATACTCGAACC
35156440 AAAGCTTCGCTCATGACGTGGTCCATATCTCTAACCTGCCTCTCTCACAGGCTGTCACCTTTCAC
261 AAAGCTTCGCTCATGACGTGGTCCATATCTCTAACCTGCCTCTCTCACAGGCTGTCACCTTTCAC
* *
35156505 TTGTTGCCTTTTCTTGGACCATATTTGTGTGACCGTGTTGTCTTTCGCTTTATCAAGAAATCCAT
326 TTGTTGCCTTTTCTTGGACCATATTTGTGTGACCGTGTTATCTTTCGCTTTATCAAGAAACCCAT
35156570 TTTCC
391 TTTCC
35156575 CTGACAAGCT
Statistics
Matches: 374, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
404 374 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (404 bp):
CAATGAAATGTAATGTTAATAAATGGAAAAGATGCATGCAAAAAGGCGTTGATTCTAGTTCAATT
CCATTAGAACAACTTTACTAGAAAACAAGTTTCTTTACATAAAGCAGATACATATACGGCATCAC
CTTCACACTTAAAACCTTAACTTTCCCAAGAAACAAAGCTAATGCTTAGCCCTGATCTGACTCTA
ATTCATATTTCAGGCTTTGAACGGCTGGGGTCTGCAAATGGTCAGCCACTTATCATACTCGAACC
AAAGCTTCGCTCATGACGTGGTCCATATCTCTAACCTGCCTCTCTCACAGGCTGTCACCTTTCAC
TTGTTGCCTTTTCTTGGACCATATTTGTGTGACCGTGTTATCTTTCGCTTTATCAAGAAACCCAT
TTTCCATTACATAT
Found at i:35164026 original size:31 final size:31
Alignment explanation
Indices: 35163963--35164030 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
35163953 TTAACAGCCT
* *
35163963 AGTGATTTAAATAAAAACTTTTGAGTAATTC
1 AGTGACTTAAATAAAAACTTTTGAATAATTC
* *
35163994 AGTGACTTAAATGAAAACTTTCT-AATAGTTC
1 AGTGACTTAAATAAAAACTTT-TGAATAATTC
35164025 AGTGAC
1 AGTGAC
35164031 CATTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAATTC
Found at i:35166294 original size:46 final size:46
Alignment explanation
Indices: 35166227--35166318 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
35166217 TCATACCAAG
35166227 CTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAGCAA
1 CTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAGCAA
35166273 CTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAGCAA
1 CTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAGCAA
35166319 GCTGTCTTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.17
Consensus pattern (46 bp):
CTGAGCTGCCATTGCCATAACTCAAAAGACAACAAAGCTTGAGCAA
Found at i:35168120 original size:42 final size:42
Alignment explanation
Indices: 35168045--35168271 Score: 235
Period size: 42 Copynumber: 5.7 Consensus size: 42
35168035 GAAAAAAATA
**
35168045 CCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTTTCTAAGCG
1 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCG
* *
35168087 CCGCGAAAGAACATGATCTTTAGCGGCGTTTTTTT-TAAGCG
1 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCG
* *
35168128 CCTCTAAAGAACATGTTCTTTAGCGGCATTTTTTTCTAAGCG
1 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCG
* *
35168170 CCGCTAAAGAA-A-G--C---A---GCGTTTTCTTCTAAGCA
1 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCG
* * * *
35168202 CCGTTAAAGAACATGTTCTTTAGTGGCGATTTTTAT-TAAGTG
1 CCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTTTCTAAGCG
* *
35168244 CCGCTAAAGAACATGATCCTTAGCGGCG
1 CCGCTAAAGAACATGTTCTTTAGCGGCG
35168272 CCGCTAGAGA
Statistics
Matches: 152, Mismatches: 21, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
32 24 0.16
33 1 0.01
34 1 0.01
35 1 0.01
36 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 38 0.25
42 78 0.51
43 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (42 bp):
CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCG
Found at i:35168294 original size:28 final size:28
Alignment explanation
Indices: 35168243--35168300 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
35168233 TTTATTAAGT
*
35168243 GCCGCTAAAGAACATGATCCTTAGCGGC
1 GCCGCTAAAGAACATAATCCTTAGCGGC
* * *
35168271 GCCGCTAGAGATCATAATCTTTAGCGGC
1 GCCGCTAAAGAACATAATCCTTAGCGGC
35168299 GC
1 GC
35168301 TTTTTTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.21
Consensus pattern (28 bp):
GCCGCTAAAGAACATAATCCTTAGCGGC
Found at i:35168753 original size:21 final size:21
Alignment explanation
Indices: 35168729--35168779 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
35168719 TTCTTTTAAA
* *
35168729 CCTCTGCTTCTCTCGTTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
35168750 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
*
35168771 CCTCCGCTT
1 CCTCTGCTT
35168780 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.47, G:0.18, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:35174249 original size:26 final size:26
Alignment explanation
Indices: 35174217--35174274 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
35174207 TTAAAACGCC
*
35174217 AGTTATAACTATAAATGAGTTATGTA
1 AGTTATAACCATAAATGAGTTATGTA
* *
35174243 ATTTATAACCATAAATGATTTATGTA
1 AGTTATAACCATAAATGAGTTATGTA
35174269 AGTTAT
1 AGTTAT
35174275 GTAAGTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (26 bp):
AGTTATAACCATAAATGAGTTATGTA
Found at i:35174276 original size:9 final size:9
Alignment explanation
Indices: 35174262--35174536 Score: 248
Period size: 9 Copynumber: 31.4 Consensus size: 9
35174252 CATAAATGAT
35174262 TTATGTAAG
1 TTATGTAAG
35174271 TTATGTAAG
1 TTATGTAAG
* *
35174280 TTATTTAGG
1 TTATGTAAG
**
35174289 CAATGT-A-
1 TTATGTAAG
*
35174296 TTATGTAAA
1 TTATGTAAG
*
35174305 TAATGTAAG
1 TTATGTAAG
*
35174314 TTA-GGAAGG
1 TTATGTAA-G
35174323 TTATGT-A-
1 TTATGTAAG
35174330 TTATGTAAG
1 TTATGTAAG
*
35174339 TTATTTAAG
1 TTATGTAAG
35174348 TTATGTAAG
1 TTATGTAAG
* *
35174357 TTATTTAAT
1 TTATGTAAG
35174366 TTATGTAAG
1 TTATGTAAG
35174375 TTATGTAAG
1 TTATGTAAG
* *
35174384 TTATTTAGG
1 TTATGTAAG
**
35174393 CAATGT-A-
1 TTATGTAAG
*
35174400 TTATGTAAA
1 TTATGTAAG
*
35174409 TAATGTAAG
1 TTATGTAAG
*
35174418 TTA-GGAAGG
1 TTATGTAA-G
35174427 TTATGT-A-
1 TTATGTAAG
*
35174434 TTGTGTAAG
1 TTATGTAAG
*
35174443 TTATTTAAG
1 TTATGTAAG
35174452 TTATGTAAG
1 TTATGTAAG
35174461 TTATGTAAG
1 TTATGTAAG
* *
35174470 TTATTTAAT
1 TTATGTAAG
35174479 TTATGTAAG
1 TTATGTAAG
35174488 TTATGTAAG
1 TTATGTAAG
35174497 TTATGTAAG
1 TTATGTAAG
*
35174506 TTAAT-TAAT
1 TT-ATGTAAG
35174515 TTATGTAAG
1 TTATGTAAG
35174524 TTATGTAAG
1 TTATGTAAG
35174533 TTAT
1 TTAT
35174537 TTAGGCAATG
Statistics
Matches: 210, Mismatches: 42, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
7 19 0.09
8 12 0.06
9 175 0.83
10 4 0.02
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:35174311 original size:34 final size:34
Alignment explanation
Indices: 35174262--35174530 Score: 198
Period size: 34 Copynumber: 7.7 Consensus size: 34
35174252 CATAAATGAT
*
35174262 TTATGTAAGTTATGTAAGTTATTTAGGCAATGTA
1 TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
* * * * **
35174296 TTATGTAAATAATGTAAGTTAGGAAGGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
* * ** *
35174330 TTATGTAAGTTATTTAAGTTATGTAAGTTATTTAA
1 TTATGTAAGTTATGTAAGTTATGTAGGCAATGT-A
*
35174365 TTTATGTAAGTTATGTAAGTTATTTAGGCAATGTA
1 -TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
* * * * **
35174400 TTATGTAAATAATGTAAGTTAGGAAGGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
* * * **
35174434 TTGTGTAAGTTATTTAAGTTATGTAAGTTATGTAA
1 TTATGTAAGTTATGTAAGTTATGTAGGCAATGT-A
* * * **
35174469 GTTATTTAATTTATGTAAGTTATGTAAGTTATGTAA
1 -TTATGTAAGTTATGTAAGTTATGTAGGCAATGT-A
*
35174505 GTTAAT-TAATTTATGTAAGTTATGTA
1 -TT-ATGTAAGTTATGTAAGTTATGTA
35174531 AGTTATTTAG
Statistics
Matches: 192, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
34 106 0.55
35 3 0.02
36 81 0.42
37 2 0.01
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGTAGGCAATGTA
Found at i:35174398 original size:104 final size:104
Alignment explanation
Indices: 35174260--35174491 Score: 419
Period size: 104 Copynumber: 2.2 Consensus size: 104
35174250 ACCATAAATG
35174260 ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGTAAATAATGTAAGTTAGGAAGGTT
1 ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGTAAATAATGTAAGTTAGGAAGGTT
*
35174325 ATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATTTA
66 ATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATGTA
35174364 ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGTAAATAATGTAAGTTAGGAAGGTT
1 ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGTAAATAATGTAAGTTAGGAAGGTT
*
35174429 ATGTATTGTGTAAGTTATTTAAGTTATGTAAGTTATGTA
66 ATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATGTA
* * *
35174468 AGTTATTTAATTTATGTAAGTTAT
1 ATTTATGTAAGTTATGTAAGTTAT
35174492 GTAAGTTATG
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 123 1.00
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (104 bp):
ATTTATGTAAGTTATGTAAGTTATTTAGGCAATGTATTATGTAAATAATGTAAGTTAGGAAGGTT
ATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATGTA
Found at i:35174695 original size:9 final size:9
Alignment explanation
Indices: 35174631--35174761 Score: 66
Period size: 9 Copynumber: 15.4 Consensus size: 9
35174621 TATTATGTTA
*
35174631 TTATATAAG
1 TTATGTAAG
*
35174640 TTATGCAAG
1 TTATGTAAG
*
35174649 TTATATAAG
1 TTATGTAAG
*
35174658 TTATTTAAG
1 TTATGTAAG
**
35174667 TTGGGTAAG
1 TTATGTAAG
35174676 TGT-TGT-A-
1 T-TATGTAAG
35174683 TTATGTAAG
1 TTATGTAAG
35174692 TTATGT-A-
1 TTATGTAAG
35174699 TTATGTAA-
1 TTATGTAAG
35174707 TATATGTAAG
1 T-TATGTAAG
**
35174717 -T-TGTATT
1 TTATGTAAG
*
35174724 TTATGTAAA
1 TTATGTAAG
* *
35174733 TTCTAT-A-
1 TTATGTAAG
*
35174740 TTATGTATG
1 TTATGTAAG
35174749 TTATGTAAG
1 TTATGTAAG
35174758 TTAT
1 TTAT
35174762 TATGCAAGAT
Statistics
Matches: 92, Mismatches: 19, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
6 1 0.01
7 18 0.20
8 8 0.09
9 64 0.70
10 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:35174727 original size:25 final size:25
Alignment explanation
Indices: 35174684--35174731 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35174674 AGTGTTGTAT
*
35174684 TATGTAAGTTATGTATTATGTAATA
1 TATGTAAGTTATATATTATGTAATA
* *
35174709 TATGTAAGTTGTATTTTATGTAA
1 TATGTAAGTTATATATTATGTAA
35174732 ATTCTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (25 bp):
TATGTAAGTTATATATTATGTAATA
Found at i:35176364 original size:191 final size:191
Alignment explanation
Indices: 35176040--35176437 Score: 616
Period size: 191 Copynumber: 2.1 Consensus size: 191
35176030 AAGCAACACA
35176040 GAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAAAAAAATGA
1 GAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAAAAAAATGA
* * *
35176105 ACAGCCATATACGTATTCAACGGAGAAATTAGGGATTTGGAAAGATTTTTACCAGTCAGCCCAGA
66 ACAGCCATATACGGAGTCAACGGAGAAATTAGGGATTTGGAAAGATTTTTACCAATCAGCCCAGA
* * * * *
35176170 CGAGAAGCAACATTCGATCGAGAAGAGGGGAAATCGTCGTTGAAGGGGTGAAAGGTCTATG
131 CGAGAAGCAACATTCAACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTAAAAGGTCTAGG
* * *
35176231 GAATTTAAAGAGAAAGGAAAAACAAAGCGGGCATTAGAGAAAGAAAAAATCGAACAGAAAAATGA
1 GAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAAAAAAATGA
* *
35176296 ACAGCTATATACGGAGTCAACGGAGAAATTAGGGATTTGGAAAGTTTTTTACCAATCAGCCCAGA
66 ACAGCCATATACGGAGTCAACGGAGAAATTAGGGATTTGGAAAGATTTTTACCAATCAGCCCAGA
** * *
35176361 CGAGAAGTGATATTCAACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTAAAATGTCTAGG
131 CGAGAAGCAACATTCAACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTAAAAGGTCTAGG
*
35176422 GATTTGTAAGAGAGAA
1 GAATT-TAA-AGAGAA
35176438 GAAAGATGGA
Statistics
Matches: 187, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
191 178 0.95
192 3 0.02
193 6 0.03
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.18
Consensus pattern (191 bp):
GAATTTAAAGAGAAAGGAAAAACAAAGCGAGCATTAGAGAAAGAAAAAATCAAACAAAAAAATGA
ACAGCCATATACGGAGTCAACGGAGAAATTAGGGATTTGGAAAGATTTTTACCAATCAGCCCAGA
CGAGAAGCAACATTCAACCGAGAAGAGGGGAAATCGTCGTTGAAGAGGTAAAAGGTCTAGG
Found at i:35177093 original size:21 final size:21
Alignment explanation
Indices: 35177069--35177112 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35177059 AACCCCTATC
* *
35177069 CCTTAATCTCCAACC-TCTAAA
1 CCTTAAACTCAAACCAT-TAAA
35177090 CCTTAAACTCAAACCATTAAA
1 CCTTAAACTCAAACCATTAAA
35177111 CC
1 CC
35177113 AAGTACCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTTAAACTCAAACCATTAAA
Found at i:35177827 original size:20 final size:20
Alignment explanation
Indices: 35177798--35177835 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35177788 GCTCAAAACG
*
35177798 AAACGTTACGTTTCGGTTTA
1 AAACGATACGTTTCGGTTTA
*
35177818 AAACGATACGTTTTGGTT
1 AAACGATACGTTTCGGTT
35177836 AAGATTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (20 bp):
AAACGATACGTTTCGGTTTA
Found at i:35178150 original size:113 final size:113
Alignment explanation
Indices: 35177818--35178449 Score: 627
Period size: 113 Copynumber: 5.7 Consensus size: 113
35177808 TTTCGGTTTA
* * * *
35177818 AAACGATACGTTTTGGTTAAGATTTTTTTGCGACGCTTTGTATAATGCGCCGCTAATGATGTACT
1 AAACGATGCGTTTTGGTTAAGA-TATTTTGCGGCGCTTT-TATAATGCGCCGCTAATGATGTGCT
* * * * *
35177883 TTCGCAGCGTTTCACTCT-AGCGCCACTAATTCTAAAATACCTCAAGACC
64 TTAGCGGCGTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * ** * * **
35177932 AAATGATGCGTTTTGGTTAATATTTTTTATGGCGCCTTTCATAATGCGCCGGTAATTCTGTGCTT
1 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCG-CTTTTATAATGCGCCGCTAATGATGTGCTT
* ** * * *
35177997 TAGCGGCATTTGT-CCATAAGCACCATTAATTCTAATATACCTCAAGACC
65 TAGCGGCGTTT-TATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * *
35178046 AAACGCTGCGTTTTGGTAAAGATATTTTACGGCGCTTTTATAATGCGCCGCTAATGATGTGCTTT
1 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTATAATGCGCCGCTAATGATGTGCTTT
35178111 AGCGGCGTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
66 AGCGGCGTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * *
35178159 AAACGATGCGTTTTTGTTAATAT-TTTTGCGGCGCTTTTTATATTGCGCCGCTAATGATGTTCGT
1 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCGC-TTTTATAATGCGCCGCTAATGATGTGCTT
* *
35178223 TAGCGGCGTTTCATTATAAGCGCGACTAATTCTAAAATACCTCAAGACC
65 TAGCGGCGTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * *
35178272 AAATGATGCGTTTTTGTTAATATA-TTTGCGGCGCTTTTTATAAT--GCAGC-----A-----TT
1 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCGC-TTTTATAATGCGCCGCTAATGATGTGCTT
* * * *
35178324 T-GCGGCGTTTT-TCCATAAGCGCTACTAATTGTAATATACCTCAAGACC
65 TAGCGGCGTTTTAT-TATAAGCGCCACTAATTCTAAAATACCTCAAGACC
* * * * *
35178372 AAACGCTGCGTTTTGGTTAAGATATTCTGCGGCGCTTTT-TGCATTGCACCGCTAATTATGTGCT
1 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTAT--AATGCGCCGCTAATGATGTGCT
35178436 TTAGCGGCGTTTTA
64 TTAGCGGCGTTTTA
35178450 CGAAGATCGC
Statistics
Matches: 431, Mismatches: 63, Indels: 47
0.80 0.12 0.09
Matches are distributed among these distances:
99 2 0.00
100 64 0.15
101 13 0.03
103 3 0.01
106 1 0.00
108 1 0.00
111 4 0.01
112 11 0.03
113 243 0.56
114 89 0.21
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (113 bp):
AAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTATAATGCGCCGCTAATGATGTGCTTT
AGCGGCGTTTTATTATAAGCGCCACTAATTCTAAAATACCTCAAGACC
Found at i:35190088 original size:21 final size:20
Alignment explanation
Indices: 35190052--35190092 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
35190042 CACTAAATAG
*
35190052 GTTAATTATAATTAATTTAA
1 GTTAATTAAAATTAATTTAA
35190072 GTTAATTAAAGATTAATTTAA
1 GTTAATTAAA-ATTAATTTAA
35190093 ATAAGGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (20 bp):
GTTAATTAAAATTAATTTAA
Found at i:35195390 original size:2 final size:2
Alignment explanation
Indices: 35195383--35195428 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
35195373 TGAAGTTAAT
35195383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35195425 TA TA
1 TA TA
35195429 CACGTACATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35195561 original size:17 final size:18
Alignment explanation
Indices: 35195528--35195563 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
35195518 TAATGAATAC
*
35195528 ATAAAATAATATTATATA
1 ATAAAAGAATATTATATA
35195546 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
35195563 A
1 A
35195564 AAATTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:35196725 original size:7 final size:7
Alignment explanation
Indices: 35196713--35196765 Score: 61
Period size: 7 Copynumber: 7.0 Consensus size: 7
35196703 TTAAAATGGA
35196713 TTATTTT
1 TTATTTT
35196720 TTATTTT
1 TTATTTT
35196727 TTATTATT
1 TTATT-TT
35196735 ATTATTTT
1 -TTATTTT
35196743 TTATATTT
1 TTAT-TTT
*
35196751 TTGTTTAT
1 TTATTT-T
35196759 TTATTTT
1 TTATTTT
35196766 CGATTTGGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 19 0.47
8 16 0.40
9 5 0.12
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (7 bp):
TTATTTT
Found at i:35196761 original size:16 final size:15
Alignment explanation
Indices: 35196713--35196762 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
35196703 TTAAAATGGA
35196713 TTAT-TTTTTATTTT
1 TTATATTTTTATTTT
*
35196727 TTATTATTATTATTTT
1 TTA-TATTTTTATTTT
*
35196743 TTATATTTTTGTTTAT
1 TTATATTTTTATTT-T
35196759 TTAT
1 TTAT
35196763 TTTCGATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
16 17 0.57
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
TTATATTTTTATTTT
Found at i:35197205 original size:111 final size:111
Alignment explanation
Indices: 35197008--35197228 Score: 370
Period size: 111 Copynumber: 2.0 Consensus size: 111
35196998 TTCCCTACTC
* * * *
35197008 TTGAAGATAAGATTCACCGTCTCCGATCTGCTCCGCTATTGCTTAGGGAGATAAGATCTGTGATT
1 TTGAAGATAAGATTCACCGTCTCCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATT
*
35197073 TCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTG
66 TCCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTG
* * *
35197119 TTGAAGATAAGATTCACCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGACAAGATTTGTAATT
1 TTGAAGATAAGATTCACCGTCTCCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATT
35197184 TCCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCTT
66 TCCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCTT
35197229 AAATCTGCTT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 102 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (111 bp):
TTGAAGATAAGATTCACCGTCTCCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATT
TCCAACCTATTCCACTACTGACCAGGGAGATAGGACTTGTGGCTTG
Found at i:35197902 original size:132 final size:131
Alignment explanation
Indices: 35197665--35197960 Score: 502
Period size: 132 Copynumber: 2.3 Consensus size: 131
35197655 NNNNNNNNNN
35197665 ATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGACTTCAATGTACTCCACTTAACCACAGG
1 ATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGACTTCAATGTACTCCACTTAACCACAGG
35197730 GAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
66 GAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
35197795 A
131 A
* * *
35197796 ATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTTAATGTACTCCACTATAACCATAG
1 ATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGACTTCAATGTACTCCACT-TAACCACAG
*
35197861 GGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATCTT
65 GGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
*
35197926 TA
130 CA
* ***
35197928 ATCTATTTCACTGCTGCCCAGGGAGATAGAATT
1 ATCTATTCCACTGCCAACCAGGGAGATAGAATT
35197961 CAAAATTCTC
Statistics
Matches: 155, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
131 53 0.34
132 102 0.66
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (131 bp):
ATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGACTTCAATGTACTCCACTTAACCACAGG
GAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
A
Found at i:35198171 original size:88 final size:89
Alignment explanation
Indices: 35198006--35198267 Score: 316
Period size: 88 Copynumber: 3.0 Consensus size: 89
35197996 GATAGGACTG
* * * * *
35198006 GTATCTTCGATCTGCTTCGCTGTTAATACAGGAAGGCCAGATCTGCTATCTTTAACCTGCTCCAT
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCAC
*
35198071 TGCAACCGAGGGAGGCAAGGC-TA
66 TGCAACCAAGGGAGGCAAGGCTTA
* * * * * *
35198094 GTATCTTCGATCTGCTTTGCTGTCAATGTAGGAAGGTAAGATCTACTATCTTTATCCCGCTCTAC
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCAC
* *
35198159 TGTAACCAAGGGAGGCAAGGCTTT
66 TGCAACCAAGGGAGGCAAGGCTTA
* * *
35198183 GT-T-TTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTGCTAT-TTTCAATCTGCTCCA
1 GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTT-AACCCGCTCCA
* *
35198245 CTGCAACCGAGGGAGGTAAGGCT
65 CTGCAACCAAGGGAGGCAAGGCT
35198268 GGTGATTTCA
Statistics
Matches: 146, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
86 3 0.02
87 66 0.45
88 74 0.51
89 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (89 bp):
GTATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCAC
TGCAACCAAGGGAGGCAAGGCTTA
Found at i:35198342 original size:22 final size:22
Alignment explanation
Indices: 35198314--35198390 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
35198304 TTGTATGAAA
35198314 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
35198336 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * * **
35198358 CATGAGGGTTTAGTTCGTTAAA
1 CATGAGAGCTTAGTACGTTAGC
35198380 CATGAGAGCTT
1 CATGAGAGCTT
35198391 TTGCATGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:35199532 original size:8 final size:7
Alignment explanation
Indices: 35199474--35199532 Score: 68
Period size: 7 Copynumber: 8.3 Consensus size: 7
35199464 CCTTAGCCTC
35199474 TTCATTT
1 TTCATTT
35199481 TT-ACTTT
1 TTCA-TTT
*
35199488 TTCAGTT
1 TTCATTT
35199495 TTCATTT
1 TTCATTT
35199502 TTCA-TT
1 TTCATTT
35199508 TTCATTTT
1 TTCA-TTT
35199516 TTCATTT
1 TTCATTT
35199523 TTCATATT
1 TTCAT-TT
35199531 TT
1 TT
35199533 TTTCAACTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
6 7 0.16
7 27 0.60
8 11 0.24
ACGTcount: A:0.15, C:0.14, G:0.02, T:0.69
Consensus pattern (7 bp):
TTCATTT
Found at i:35200445 original size:7 final size:7
Alignment explanation
Indices: 35200428--35200460 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
35200418 TCTCCTTTTG
35200428 TTTTTCTT
1 TTTTTC-T
35200436 TTTTTCT
1 TTTTTCT
35200443 TTTTTCT
1 TTTTTCT
35200450 TTTTTCT
1 TTTTTCT
35200457 TTTT
1 TTTT
35200461 ATCATTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:35204870 original size:17 final size:18
Alignment explanation
Indices: 35204837--35204872 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
35204827 TAATGAATAC
*
35204837 ATAAAATAATATTATATA
1 ATAAAAGAATATTATATA
35204855 ATAAAAGAAT-TTATATA
1 ATAAAAGAATATTATATA
35204872 A
1 A
35204873 AAATTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATAAAAGAATATTATATA
Found at i:35211283 original size:23 final size:22
Alignment explanation
Indices: 35211240--35211283 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
35211230 TTTCAAGTCA
35211240 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
35211263 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
35211284 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:35211408 original size:23 final size:23
Alignment explanation
Indices: 35211382--35211480 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
35211372 ATAAGTGCCA
35211382 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
35211405 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
35211428 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35211451 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35211474 CACTGAT
1 CACTGAT
35211481 CAATAACACT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:35211975 original size:30 final size:30
Alignment explanation
Indices: 35211927--35211985 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
35211917 TCCTTGACTC
*
35211927 AAACTTTGGCAAAATTACAATTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
35211957 AAACTTTTGCATATTTACACTTTTGCCCC
1 AAACTTTGGCAAAATTACAATTTTGCCCC
35211986 AAAGCTCGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:35216436 original size:94 final size:93
Alignment explanation
Indices: 35216188--35216440 Score: 262
Period size: 94 Copynumber: 2.7 Consensus size: 93
35216178 CAATCAAGAG
* * *
35216188 AGTTCGCTAGGACATTAAACATAGGGTTACATGTGTAAGACCTTAGTTCAGCTATA-AAATCATG
1 AGTTCGCCAGGACATTAAACATA-GGTTACATGTGTAAAACCTTAGTTCAGCTATAGCAA-CATG
* * *
35216252 TGGAGTCCGTCGGGATAGTAAACACGGGGT
64 TAGAATCCGTCGGGATAGTAAACACAGGGT
* * ** *
35216282 AGTTCGCCAGGACATTAAACATGGGGTTACTTGTGTAACGCCTTA-TCTCAGCTATGGCAACATG
1 AGTTCGCCAGGACATTAAACAT-AGGTTACATGTGTAAAACCTTAGT-TCAGCTATAGCAACATG
* *
35216346 TAGAATCTG-CAGTGATAGTAAACACAGGGT
64 TAGAATCCGTC-GGGATAGTAAACACAGGGT
* * * *
35216376 AG-TCTGCCGGGACATTAAACAATAGGTTACATGTGTAAAACCATAGTTCGGTTATAGCAACATG
1 AGTTC-GCCAGGACATTAAAC-ATAGGTTACATGTGTAAAACCTTAGTTCAGCTATAGCAACATG
35216440 T
64 T
35216441 GAAGTCCATA
Statistics
Matches: 131, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
93 4 0.03
94 122 0.93
95 5 0.04
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (93 bp):
AGTTCGCCAGGACATTAAACATAGGTTACATGTGTAAAACCTTAGTTCAGCTATAGCAACATGTA
GAATCCGTCGGGATAGTAAACACAGGGT
Found at i:35220906 original size:7 final size:7
Alignment explanation
Indices: 35220894--35220918 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35220884 CATTAAACAT
35220894 AACTATC
1 AACTATC
35220901 AACTATC
1 AACTATC
35220908 AACTATC
1 AACTATC
35220915 AACT
1 AACT
35220919 TTTGGCCACA
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):
AACTATC
Found at i:35228260 original size:4 final size:4
Alignment explanation
Indices: 35228251--35228282 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
35228241 CCAAGGTACT
*
35228251 CATA CATA CATA CATA CATA CATA CGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
35228283 TATGAGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:35237171 original size:28 final size:29
Alignment explanation
Indices: 35237116--35237178 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
35237106 TAATTTTTTT
*
35237116 AATTGTTTAGAATTTTTAAAAATTTATAA
1 AATTGTTTAGAATTTTTAAAAATATATAA
* * *
35237145 AATT-TTTAGATTTTTTTAGAATATATAA
1 AATTGTTTAGAATTTTTAAAAATATATAA
35237173 ACATTG
1 A-ATTG
35237179 AGACCTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (29 bp):
AATTGTTTAGAATTTTTAAAAATATATAA
Found at i:35240394 original size:2 final size:2
Alignment explanation
Indices: 35240387--35240449 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
35240377 TATAAGTATG
35240387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35240429 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
35240450 GGTATTTTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35248201 original size:35 final size:34
Alignment explanation
Indices: 35248162--35248286 Score: 119
Period size: 35 Copynumber: 3.6 Consensus size: 34
35248152 ATATCGTCAA
*
35248162 TTTATTCGACTAGCGCTGGGCGCTACTTTCGTCGG
1 TTTATTCGACTAGCGCTGGGCGC-ACATTCGTCGG
* * *
35248197 TTTA-TCTGACTAGTGCTGGGCACACATTCGTTGG
1 TTTATTC-GACTAGCGCTGGGCGCACATTCGTCGG
* *
35248231 TTTATTCGACTAGCGCTAGGCGCGAACA-TCGTTGG
1 TTTATTCGACTAGCGCT-GG-GCGCACATTCGTCGG
* * *
35248266 TTTATCCAACTAGAGCTGGGC
1 TTTATTCGACTAGCGCTGGGC
35248287 TTACTATTGA
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
33 2 0.03
34 26 0.34
35 43 0.57
36 5 0.07
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (34 bp):
TTTATTCGACTAGCGCTGGGCGCACATTCGTCGG
Found at i:35249310 original size:12 final size:12
Alignment explanation
Indices: 35249293--35249322 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35249283 TCAGGCAGTT
35249293 ACACGGCCTAGC
1 ACACGGCCTAGC
*
35249305 ACACGGCCTGGC
1 ACACGGCCTAGC
35249317 ACACGG
1 ACACGG
35249323 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:35256433 original size:17 final size:18
Alignment explanation
Indices: 35256392--35256426 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35256382 CTCAAACATA
35256392 TACATC-AACCAATTCAT
1 TACATCAAACCAATTCAT
*
35256409 TACATCAAACCGATTCAT
1 TACATCAAACCAATTCAT
35256427 ATATCAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.29, G:0.03, T:0.29
Consensus pattern (18 bp):
TACATCAAACCAATTCAT
Found at i:35260063 original size:25 final size:24
Alignment explanation
Indices: 35260035--35260082 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
35260025 ATCCAGGCAA
35260035 TATAACGGGAAGCTCACAAAGAGCT
1 TATAACGGGAAGCTC-CAAAGAGCT
* *
35260060 TATAACGGGTAGCTCCGAAGAGC
1 TATAACGGGAAGCTCCAAAGAGC
35260083 AATTAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (24 bp):
TATAACGGGAAGCTCCAAAGAGCT
Found at i:35268312 original size:22 final size:23
Alignment explanation
Indices: 35268263--35268313 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
35268253 AAAAAATCTA
* *
35268263 CTATTTTTTTGTTGTTTTAATGC
1 CTATTTTCTTGTTGTTTTAATCC
*
35268286 C-ATTTTCTTGTTGTTTT-CTCC
1 CTATTTTCTTGTTGTTTTAATCC
35268307 CTATTTT
1 CTATTTT
35268314 GTTATTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 20 0.83
23 1 0.04
ACGTcount: A:0.10, C:0.16, G:0.10, T:0.65
Consensus pattern (23 bp):
CTATTTTCTTGTTGTTTTAATCC
Found at i:35268355 original size:22 final size:22
Alignment explanation
Indices: 35268308--35268355 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
35268298 GTTTTCTCCC
* * *
35268308 TATTTTGTTATTATGTTGCTAC
1 TATTTTGTCATTATGTTGCAAA
35268330 TATTTTGTCATTATTGTT-CAAA
1 TATTTTGTCATTA-TGTTGCAAA
35268352 TATT
1 TATT
35268356 GTATAACGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.23, C:0.08, G:0.10, T:0.58
Consensus pattern (22 bp):
TATTTTGTCATTATGTTGCAAA
Found at i:35269046 original size:21 final size:21
Alignment explanation
Indices: 35269021--35269061 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35269011 CCAAAACCTC
35269021 AAATCAATTAACACA-AATTTT
1 AAATCAATTAA-ACATAATTTT
35269042 AAATCAATTAAACATAATTT
1 AAATCAATTAAACATAATTT
35269062 GATCATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATCAATTAAACATAATTTT
Found at i:35276629 original size:29 final size:27
Alignment explanation
Indices: 35276565--35276631 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
35276555 GAGTTTCACG
*
35276565 TGTATAATTACATCAAATTAAAGTTTA
1 TGTATAATTACATCAAATTAAAGTTCA
* *
35276592 TGTACATAATTGCACATTACATTAAAGTTCA
1 TGT--ATAATT--ACATCAAATTAAAGTTCA
35276623 TGTATAATT
1 TGTATAATT
35276632 TTGAGATTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.09
29 12 0.36
31 18 0.55
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (27 bp):
TGTATAATTACATCAAATTAAAGTTCA
Found at i:35279409 original size:20 final size:20
Alignment explanation
Indices: 35279384--35279423 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35279374 CGTAAAATGA
*
35279384 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
35279404 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
35279424 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:35279413 original size:34 final size:35
Alignment explanation
Indices: 35279369--35279435 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
35279359 CAGTAAAATA
*
35279369 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
35279403 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
35279436 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:35279439 original size:14 final size:15
Alignment explanation
Indices: 35279363--35279439 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
35279353 GATTGCCAGT
* *
35279363 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
35279377 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
35279391 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
35279411 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
35279426 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
35279440 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:35281200 original size:3 final size:3
Alignment explanation
Indices: 35281192--35281232 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
35281182 ATATAAAAGC
*
35281192 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A
35281233 CGCTAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:35281341 original size:28 final size:28
Alignment explanation
Indices: 35281267--35281349 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
35281257 AAAAGTGTTA
*
35281267 AAAAGGGACTAAATC-AAAGTAAAAGCAAC
1 AAAAGGGACTAAATCGAAA-TAAAA-AAAC
* * *
35281296 AATACGGGGCGAAATCGAAATAAAAAAAC
1 AA-AAGGGACTAAATCGAAATAAAAAAAC
*
35281325 AAAAGGGACTAAATCGAAAGAAAAA
1 AAAAGGGACTAAATCGAAATAAAAA
35281350 TAAAATTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
28 19 0.43
29 7 0.16
30 15 0.34
31 3 0.07
ACGTcount: A:0.59, C:0.12, G:0.19, T:0.10
Consensus pattern (28 bp):
AAAAGGGACTAAATCGAAATAAAAAAAC
Found at i:35283164 original size:129 final size:129
Alignment explanation
Indices: 35282934--35283503 Score: 820
Period size: 129 Copynumber: 4.4 Consensus size: 129
35282924 CGCGACGTCG
* * * * * * * * * * **
35282934 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGTGAGGTAAAACCTGATGCGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAAGA
* * * * *
35282999 TCTACTCAACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCATTGTAATCTCA
66 TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
*
35283063 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTGATAAGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAAGA
* *
35283128 TATTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCATTCCACTGTAATCTCA
66 TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
*
35283192 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGTGAGATAAGACCTGATACA-
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATA-AG
* ** *
35283256 ATCTTCTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTAATCCGTTCCACTATAATCTCA
65 ATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
* * *
35283321 GGGAGATAGGATTACTAACTTC-ATCTGCCCCGCTGTAATCTCAGGGAGATAAGACCTGATACGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAAGA
*
35283385 TCTTCTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTAATCCACTCCACTGTAATCTCA
66 TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
* ** *
35283449 GGGAGATAGGATTACTAACTTCAATCTATTCTGCTGTAATCTCAGGGAGATAAGA
1 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
35283504 TTTGAAATTC
Statistics
Matches: 401, Mismatches: 37, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
128 121 0.30
129 279 0.70
130 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (129 bp):
GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAAGA
TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
Found at i:35283456 original size:257 final size:258
Alignment explanation
Indices: 35282934--35283503 Score: 872
Period size: 257 Copynumber: 2.2 Consensus size: 258
35282924 CGCGACGTCG
* * * * * * * * * *
35282934 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGTGAGGTAAAACCTGATGCGA
1 GGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGTGAGATAAGACCTGATACAA
* * *
35282999 TCTACTCAACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCATTGTAATCTCAG
66 TCTACTCAACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTCAG
* * *
35283064 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTGATAAGAT
131 GGAGATAGGATTACTAACTTCAATCTGCCCCGCTGTAATCTCAGGGAGATAAGACCTGATAAGAT
*
35283129 ATTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCATTCCACTGTAATCTCA
196 ATTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
*
35283192 GGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGTGAGATAAGACCTGATACAA
1 GGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGTGAGATAAGACCTGATACAA
* * * *
35283257 TCTTCTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTAATCCGTTCCACTATAATCTCAG
66 TCTACTCAACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTCAG
*
35283322 GGAGATAGGATTACTAACTTC-ATCTGCCCCGCTGTAATCTCAGGGAGATAAGACCTGATACGAT
131 GGAGATAGGATTACTAACTTCAATCTGCCCCGCTGTAATCTCAGGGAGATAAGACCTGATAAGAT
* *
35283386 CTTCTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTAATCCACTCCACTGTAATCTCA
196 ATTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
* * * *
35283449 GGGAGATAGGATTACTAACTTCAATCTATTCTGCTGTAATCTCAGGGAGATAAGA
1 GGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGTGAGATAAGA
35283504 TTTGAAATTC
Statistics
Matches: 282, Mismatches: 30, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
257 150 0.53
258 132 0.47
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (258 bp):
GGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGTGAGATAAGACCTGATACAA
TCTACTCAACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTCAG
GGAGATAGGATTACTAACTTCAATCTGCCCCGCTGTAATCTCAGGGAGATAAGACCTGATAAGAT
ATTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
Found at i:35283574 original size:87 final size:86
Alignment explanation
Indices: 35283353--35283766 Score: 288
Period size: 87 Copynumber: 4.7 Consensus size: 86
35283343 ATCTGCCCCG
* *** * * *
35283353 CTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGAGATAATATC
1 CTGTAATCTCAAGGAGATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGAT-
* * *
35283418 CTT--TATTTT-AATCCACTCCA
65 -TTGAAATTTTCAGTCTACTCCA
* * * * * * * *
35283438 CTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTATTCTGCTGTAA-TCTCAGGGAGATAA
1 CTGTAATCTCAAGGAGATAAGA--CCTGACGT-GATCTACTCTGCTGTAACT-TCAGAGAGATAA
**
35283502 GATTTGAAATTCTTCAGTCTGTTCCA
62 GATTTGAAATT-TTCAGTCTACTCCA
* *
35283528 CTGTAATCTCAAAGAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAAGGAGATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGAT-
* ** *
35283593 CTT--CATTTT-AACCCACTCCA
65 -TTGAAATTTTCAGTCTACTCCA
* * * * * * * *
35283613 CTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAA-TCTCA-AGGAGATA
1 CTGTAATCTCAAGGAGATAAGA--CCTGACGT-GATCTACTCTGCTGTAACT-TCAGA-GAGATA
* *
35283676 AAATCTGAAACTTTTCAGTCTACTCCA
61 AGATTTGAAA-TTTTCAGTCTACTCCA
* *
35283703 CTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGAT
1 CTGTAATCTCAAGGAGATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGAT
35283767 CCTTTATTTT
Statistics
Matches: 247, Mismatches: 60, Indels: 42
0.71 0.17 0.12
Matches are distributed among these distances:
85 45 0.18
86 5 0.02
87 69 0.28
88 67 0.27
89 8 0.03
90 53 0.21
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (86 bp):
CTGTAATCTCAAGGAGATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGATT
TGAAATTTTCAGTCTACTCCA
Found at i:35283575 original size:175 final size:175
Alignment explanation
Indices: 35283353--35283899 Score: 691
Period size: 175 Copynumber: 3.2 Consensus size: 175
35283343 ATCTGCCCCG
* * * * *
35283353 CTGTAATCTCAGGGAGATAAGACCTGATACGATCTTCTCTACTGTAACTTCAGAGAGATAATATC
1 CTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
* *
35283418 CTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTATTCTGC
66 CTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTACTCCGC
* * * **
35283483 TGTAATCTCAGGGAGATAAGATTTGAAA-TTCTTCAGTCTGTTCCA
131 TGTAATCTCAAGGAGATAAAATCTGAAACTT-TTCAGTCTACTCCA
* * * *
35283528 CTGTAATCTCAAAGAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
* * *
35283593 CTTCATTTTAACCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGC
66 CTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTACTCCGC
35283658 TGTAATCTCAAGGAGATAAAATCTGAAACTTTTCAGTCTACTCCA
131 TGTAATCTCAAGGAGATAAAATCTGAAACTTTTCAGTCTACTCCA
35283703 CTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
* * ** * * *
35283768 CTTTATTTTAAT-CAGCTCCACTGTAA-CTTCAAGGAGATAGGA-TAGTGTCTTCGATCTGCACC
66 CTTTATTTTAATCCA-CTCCACTGTAATC-TCAGGGAGATAGGATTACTAACTTCAATCTACTCC
* * * *
35283830 GCTGTAATCTC-AGAGAGATAAGATCATG--GC--TTCAATCTGCTCCA
129 GCTGTAATCTCAAG-GAGATAAAATC-TGAAACTTTTCAGTCTACTCCA
* *
35283874 CTGTAACCTC-AGGAGATAAGATCTGA
1 CTGTAATCTCAAGGAGATAAGACCTGA
35283900 AATTCTTCGG
Statistics
Matches: 330, Mismatches: 37, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
170 15 0.05
171 21 0.06
173 3 0.01
174 39 0.12
175 250 0.76
176 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (175 bp):
CTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
CTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTACTCCGC
TGTAATCTCAAGGAGATAAAATCTGAAACTTTTCAGTCTACTCCA
Found at i:35283661 original size:44 final size:44
Alignment explanation
Indices: 35283041--35284069 Score: 342
Period size: 44 Copynumber: 23.8 Consensus size: 44
35283031 CCTTTGTTTT
* * * * *
35283041 AATCCGCTCCATTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
* ** **
35283085 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTGATAAGAT-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTCCTAACTTC
* * * * *
35283129 -AT-T-CTCTACTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCC-TAACTTC
*** * * *
35283170 AATCCATTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
* * * *
35283214 AATCTGCTCCGCTGTAATCTCAGTGAGATAAGA--CCTGA-TAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
* * * * * * *
35283255 AATCTTCTCTACTGTAA-CTTCAGAGAGATAATA-TCCTTTATTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCC-TAACTTC
* * * * *
35283299 AATCCGTTCCACTATAATCTCAGGGAGATAGGATTACTAACTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
* * * *
35283343 -ATCTGCCCCGCTGTAATCTCAGGGAGATAAGA--CCTGA-TAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
* * * * * * * *
35283383 GATCTTCTCTACTGTAA-CTTCAGAGAGATAATA-TCCTTTATTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCC-TAACTTC
** * *
35283427 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
** ** ***
35283471 AATCTATTCTGCTGTAATCTCAGGGAGATAAGATTTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAA--CTTC
* * ** * * *
35283517 AGTCTGTTCCACTGTAATCTCAAAGAAATAAGA--CCTGACGT-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
* * ** * * * *
35283558 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGA-TCCTTCATTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCC-TAACTTC
* ** * *
35283602 AACCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
* * *
35283646 AATCTGCTCCGCTGTAATCTCAAGGAGATAA-AAT-CTGAAACTTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCT--AAC--TTC
* * * * *
35283692 AGTCTACTCCACTGTAATCTCAAGGAGATAAGA--CCTGA-TGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
* * ** * * * *
35283733 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCC-TAACTTC
* * * ** **
35283777 AATCAGCTCCACTGTAA-CTTCAAGGAGATAGGA-TAGTGTCTTC
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCCTAACTTC
* * * * * **
35283820 GATCTGCACCGCTGTAATCTCAGAGAGATAAGA-TCATGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
*
35283863 AATCTGCTCCACTGTAACCTCA-GGAGATAAGA-T-CTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCT--AA--CTTC
** * * * *
35283908 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA--CCTGA-TAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
* * ** * * * *
35283949 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCC-TAACTTC
* * ** **
35283993 AATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTC
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCCTAACTTC
* *
35284036 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
35284070 CTCTGGCTTC
Statistics
Matches: 722, Mismatches: 210, Indels: 106
0.70 0.20 0.10
Matches are distributed among these distances:
39 1 0.00
40 11 0.02
41 157 0.22
42 29 0.04
43 123 0.17
44 285 0.39
45 40 0.06
46 75 0.10
47 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCTAACTTC
Found at i:35283835 original size:87 final size:85
Alignment explanation
Indices: 35283137--35283854 Score: 333
Period size: 85 Copynumber: 8.3 Consensus size: 85
35283127 ATATTCTCTA
* * *
35283137 CTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCATTCCACTGTAATCTCAGGGAGATAG
1 CTGTAATC-TCAGAGAGATAAGATCCTTAATTTTAAT-CACTCCACTGTAATCTCAAGGAGATAG
*
35283201 GATTACTAGCTTCAATCTGCTCCG
64 GA-TACT-GCTTCGATCTGCTCCG
* * ** * *
35283225 CTGTAATCTCAGTGAGATAAGA-CC-TGA-TACAATCTTCTCTACTGTAA-CTTC-AGAGAGATA
1 CTGTAATCTCAGAGAGATAAGATCCTTAATTTTAATC-ACTCCACTGTAATC-TCAAG-GAGATA
** * ** ** * * *
35283285 ATATCCTTTATTTTAATCCGTTCCA
63 GGATAC--TGCTTCGATCTGCTCCG
* * * * * * * * * * *
35283310 CTATAATCTCAGGGAGATAGGATTAC-TAA-CTTCATCTGCCCCGCTGTAATCTCAGGGAGATAA
1 CTGTAATCTCAGAGAGATAAGA-TCCTTAATTTTAATC-ACTCCACTGTAATCTCAAGGAGATAG
* * * * **
35283373 GA-CCTGATACGATCTTCTCTA
64 GATACTGCTTCGATCTGCTCCG
* * *
35283394 CTGTAA-CTTCAGAGAGATAATATCCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAG
1 CTGTAATC-TCAGAGAGATAAGATCCTTAATTTTAAT-CACTCCACTGTAATCTCAAGGAGATAG
* * ** *
35283458 GATTACTAACTTCAATCTATTCTG
64 GA-TACT-GCTTCGATCTGCTCCG
* * ** * *
35283482 CTGTAATCTCAGGGAGATAAGAT--TTGAAATTCTTCAGTCTGTTCCACTGTAATCTCAAAGAAA
1 CTGTAATCTCAGAGAGATAAGATCCTT--AATT-TT-AATC-ACTCCACTGTAATCTCAAGGAGA
* * * * *
35283545 TAAGA-CCTGACGT-GATCTACTCTG
61 TAGGATACTG-CTTCGATCTGCTCCG
* * *
35283569 CTGTAA-CTTCAGAGAGATAAGATCCTTCATTTTAACCCACTCCACTGTAATCTCAGGGAGATAG
1 CTGTAATC-TCAGAGAGATAAGATCCTTAATTTTAA-TCACTCCACTGTAATCTCAAGGAGATAG
* *
35283633 GATTACTAACTTCAATCTGCTCCG
64 GA-TACT-GCTTCGATCTGCTCCG
* * *
35283657 CTGTAATCTCA-AGGAGATAAAAT-CTGAAACTTTTCAGTCTACTCCACTGTAATCTCAAGGAGA
1 CTGTAATCTCAGA-GAGATAAGATCCT-TAA-TTTT-AATC-ACTCCACTGTAATCTCAAGGAGA
* * * * * *
35283720 TAAGA-CCTGATGCGATCTACTCTG
61 TAGGATACTGCTTCGATCTGCTCCG
*
35283744 CTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCAGCTCCACTGTAA-CTTCAAGGAGATA
1 CTGTAATC-TCAGAGAGATAAGATCCTTAATTTTAATCA-CTCCACTGTAATC-TCAAGGAGATA
* *
35283807 GGATAGTGTCTTCGATCTGCACCG
63 GGATACTG-CTTCGATCTGCTCCG
35283831 CTGTAATCTCAGAGAGATAAGATC
1 CTGTAATCTCAGAGAGATAAGATC
35283855 ATGGCTTCAA
Statistics
Matches: 466, Mismatches: 118, Indels: 93
0.69 0.17 0.14
Matches are distributed among these distances:
83 3 0.01
84 33 0.07
85 129 0.28
86 19 0.04
87 129 0.28
88 89 0.19
89 13 0.03
90 51 0.11
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (85 bp):
CTGTAATCTCAGAGAGATAAGATCCTTAATTTTAATCACTCCACTGTAATCTCAAGGAGATAGGA
TACTGCTTCGATCTGCTCCG
Found at i:35283849 original size:43 final size:42
Alignment explanation
Indices: 35283785--35283896 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
35283775 TTAATCAGCT
* * * *
35283785 CCACTGTAACTTCAAGGAGATAGGAT-AGTGTCTTCGATCTGCA
1 CCACTGTAACCTC-AGGAGATAAGATCA-TGGCTTCAATCTGCA
* * *
35283828 CCGCTGTAATCTCAGAGAGATAAGATCATGGCTTCAATCTGCT
1 CCACTGTAACCTCAG-GAGATAAGATCATGGCTTCAATCTGCA
35283871 CCACTGTAACCTCAGGAGATAAGATC
1 CCACTGTAACCTCAGGAGATAAGATC
35283897 TGAAATTCTT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 13 0.22
43 44 0.76
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (42 bp):
CCACTGTAACCTCAGGAGATAAGATCATGGCTTCAATCTGCA
Found at i:35283915 original size:216 final size:217
Alignment explanation
Indices: 35283613--35284085 Score: 761
Period size: 216 Copynumber: 2.2 Consensus size: 217
35283603 ACCCACTCCA
* * ** * *
35283613 CTGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAA
1 CTGTAATCTCAGGGAGATAAGATCA-TGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAA
* *
35283678 ATCTGAAACTTTTCAGTCTACTCCACTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCT
65 ATCTGAAACTTTTCAGTCTACTCCACTGTAACCTCAAGGAGATAAGACCTGATACGATCTACTCT
35283743 GCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCAGCTCCACTGTAACTTCAAGGAGATAG
130 GCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCAGCTCCACTGTAACTTCAAGGAGATAG
35283808 GATAGTGTCTTCGATCTGCACCG
195 GATAGTGTCTTCGATCTGCACCG
* *
35283831 CTGTAATCTCAGAGAGATAAGATCATGGCTTCAATCTGCTCCACTGTAACCTC-AGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGATCATGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAAA
* *
35283895 TCTGAAA-TTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCTACTCT
66 TCTGAAACTT-TTCAGTCTACTCCACTGTAACCTCAAGGAGATAAGACCTGATACGATCTACTCT
* *
35283959 GCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
130 GCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCAGCTCCACTGTAACTTCAAGGAGATAG
*
35284024 GATAGTGTCTTCGATCTGCTCCG
195 GATAGTGTCTTCGATCTGCACCG
*
35284047 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTGTAATCTCAGGGAGATAAGATC-ATGGCTTCAATCTG
35284086 ATGTGATCTA
Statistics
Matches: 236, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
215 2 0.01
216 175 0.74
217 37 0.16
218 22 0.09
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
CTGTAATCTCAGGGAGATAAGATCATGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATAAAA
TCTGAAACTTTTCAGTCTACTCCACTGTAACCTCAAGGAGATAAGACCTGATACGATCTACTCTG
CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCAGCTCCACTGTAACTTCAAGGAGATAGG
ATAGTGTCTTCGATCTGCACCG
Found at i:35283916 original size:175 final size:172
Alignment explanation
Indices: 35283313--35283940 Score: 682
Period size: 175 Copynumber: 3.6 Consensus size: 172
35283303 CGTTCCACTA
* * * * *
35283313 TAATCTCAGGGAGATAGGATTACT-AACTTCA-TCTGCCCCGCTGTAATCTCAGGGAGATAAGAC
1 TAATCTCAGAGAGATAAGA-T-CTGAACTTCAGTCTGCTCCACTGTAATCTCAAGGAGATAAGAC
* * *
35283376 CTGA-TACGATCTTCTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTAATCCACTCCACT
64 CTGACTTCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT-CACTCCACT
** *
35283440 GTAATCTCAGGGAGATAGGATTACTAACTTCAATCTATTCTGCTG
128 GTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTG
* * * * *
35283485 TAATCTCAGGGAGATAAGATTTGAAATTCTTCAGTCTGTTCCACTGTAATCTCAAAGAAATAAGA
1 TAATCTCAGAGAGATAAGATCTG-AA--CTTCAGTCTGCTCCACTGTAATCTCAAGGAGATAAGA
* * * *
35283550 CCTGACGT-GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAACCCACTCCAC
63 CCTGACTTCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA-TCACTCCAC
35283614 TGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTG
127 TGTAATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTG
* *
35283660 TAATCTCA-AGGAGATAAAATCTGAAACTTTTCAGTCTACTCCACTGTAATCTCAAGGAGATAAG
1 TAATCTCAGA-GAGATAAGATCTG-AAC--TTCAGTCTGCTCCACTGTAATCTCAAGGAGATAAG
* *
35283724 ACCTGA-TGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCAGCTCCA
62 ACCTGACTTCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCA-CTCCA
* * ** * *
35283788 CTGTAA-CTTCAAGGAGATAGGA-TAGTGTCTTCGATCTGCACCGCTG
126 CTGTAATC-TCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTG
* * * *
35283834 TAATCTCAGAGAGATAAGATCATG-GCTTCAATCTGCTCCACTGTAACCTC-AGGAGATAAGATC
1 TAATCTCAGAGAGATAAGATC-TGAACTTCAGTCTGCTCCACTGTAATCTCAAGGAGATAAGACC
* * * *
35283897 TGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA
65 TG--A--CTTCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
35283941 CCTGATACGA
Statistics
Matches: 389, Mismatches: 47, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
170 15 0.04
171 22 0.06
172 21 0.05
173 2 0.01
174 45 0.12
175 284 0.73
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (172 bp):
TAATCTCAGAGAGATAAGATCTGAACTTCAGTCTGCTCCACTGTAATCTCAAGGAGATAAGACCT
GACTTCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCACTCCACTGTA
ATCTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTG
Found at i:35284202 original size:44 final size:44
Alignment explanation
Indices: 35284113--35284227 Score: 104
Period size: 44 Copynumber: 2.6 Consensus size: 44
35284103 ATCTACTCTG
* * * * ** *
35284113 CTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATTTGTACCTTCAATCTGCCCCA
* *
35284157 CTGTAACCTCAGGGAGATAAGATTTGTACCTTTAATTTGCCCCA
1 CTGTAACCTCAGGGAGATAAGATTTGTACCTTCAATCTGCCCCA
* * * *
35284201 CTGCATCTTCAGGGGGATAAGACTTTG
1 CTGTAACCTCAGGGAGATAAGA-TTTG
35284228 GTTCTTTGAT
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
44 53 0.93
45 4 0.07
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAAGATTTGTACCTTCAATCTGCCCCA
Found at i:35284517 original size:121 final size:121
Alignment explanation
Indices: 35284293--35284517 Score: 346
Period size: 121 Copynumber: 1.9 Consensus size: 121
35284283 TTCTGGAAAG
* *
35284293 TAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATT
1 TAAGATTCACCATTGTGGCTTTAATCTTTTTAACCGCAATGTCGGAGAAACAAGATTCACCAATT
* * **
35284358 TGGCTTTAATCTATTCCACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTT
66 TGGCTTTAATCTACTCCACTGCATAGCTTGGGAAGTAAGATTCGCTGTTGTAGCTT
35284414 TAAGATTCACCGA-TGTGGCTTTAATCTTTTTAACCGCAATGTCGGAGAAACAAGATTCACCAAT
1 TAAGATTCACC-ATTGTGGCTTTAATCTTTTTAACCGCAATGTCGGAGAAACAAGATTCACCAAT
* *
35284478 TTGGCTTTAATCTGCTCCACTGCACTATC-TGGGAAGTAAG
65 TTGGCTTTAATCTACTCCACTGCA-TAGCTTGGGAAGTAAG
35284518 GCTTTGTTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
121 91 0.97
122 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (121 bp):
TAAGATTCACCATTGTGGCTTTAATCTTTTTAACCGCAATGTCGGAGAAACAAGATTCACCAATT
TGGCTTTAATCTACTCCACTGCATAGCTTGGGAAGTAAGATTCGCTGTTGTAGCTT
Found at i:35285805 original size:13 final size:13
Alignment explanation
Indices: 35285787--35285811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35285777 TCTCCATTTT
35285787 TCATTTTTCATTC
1 TCATTTTTCATTC
35285800 TCATTTTTCATT
1 TCATTTTTCATT
35285812 TTTTATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (13 bp):
TCATTTTTCATTC
Found at i:35285839 original size:8 final size:7
Alignment explanation
Indices: 35285781--35285821 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
35285771 TTAGCCTCTC
35285781 CATTTTT
1 CATTTTT
35285788 CATTTTT
1 CATTTTT
*
35285795 CA-TTCT
1 CATTTTT
35285801 CATTTTT
1 CATTTTT
35285808 CATTTTT
1 CATTTTT
*
35285815 TATTTTT
1 CATTTTT
35285822 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
6 5 0.17
7 25 0.83
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:35286736 original size:26 final size:26
Alignment explanation
Indices: 35286707--35286770 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
35286697 TTTTCTTCTT
35286707 TTTCTTTCATTTTTGATTTTGA-TTGA
1 TTTCTTTC-TTTTTGATTTTGACTTGA
* *
35286733 TTTCTCT-TTTTTGCTTTTGACTTTGA
1 TTTCTTTCTTTTTGATTTTGAC-TTGA
35286759 TTT-TTTCTTTTT
1 TTTCTTTCTTTTT
35286771 CTTTTTTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
24 12 0.38
25 2 0.06
26 18 0.56
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.70
Consensus pattern (26 bp):
TTTCTTTCTTTTTGATTTTGACTTGA
Found at i:35286789 original size:13 final size:13
Alignment explanation
Indices: 35286759--35286783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35286749 TTGACTTTGA
35286759 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
35286772 TTTTTTCTTTTT
1 TTTTTTCTTTTT
35286784 TATTTTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:35286806 original size:9 final size:9
Alignment explanation
Indices: 35286792--35286829 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
35286782 TTTATTTTGA
35286792 TTTTGATTT
1 TTTTGATTT
35286801 TTTTGATTT
1 TTTTGATTT
35286810 TTTTGA-TT
1 TTTTGATTT
35286818 TTTTG-TTT
1 TTTTGATTT
35286826 TTTT
1 TTTT
35286830 ATTGAATCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 13 0.46
9 15 0.54
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.82
Consensus pattern (9 bp):
TTTTGATTT
Found at i:35286812 original size:69 final size:70
Alignment explanation
Indices: 35286690--35286819 Score: 167
Period size: 69 Copynumber: 1.9 Consensus size: 70
35286680 CTCCTTTTTC
* *
35286690 TTTTTCTTTTTCTTCTTTTTCTTTCATTTTTGATTTTGATTGATTTCTCTTTTTTGCTTTTGACT
1 TTTTTCTTTTTCTTCTTTTTCTTTCATTTTTGATTTTGATTGATTTATCTTTTTTGATTTTGACT
35286755 TTGAT
66 TTGAT
** **
35286760 TTTTTCTTTTTC-T-TTTTTCTTTTTTATTTTGATTTTGATTTTTTTGAT-TTTTTTGATTTT
1 TTTTTCTTTTTCTTCTTTTTCTTTCAT-TTTTGATTTTGATTGATTT-ATCTTTTTTGATTTT
35286820 TTGTTTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
68 10 0.19
69 29 0.56
70 13 0.25
ACGTcount: A:0.08, C:0.09, G:0.08, T:0.75
Consensus pattern (70 bp):
TTTTTCTTTTTCTTCTTTTTCTTTCATTTTTGATTTTGATTGATTTATCTTTTTTGATTTTGACT
TTGAT
Found at i:35286813 original size:18 final size:16
Alignment explanation
Indices: 35286792--35286829 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 16
35286782 TTTATTTTGA
35286792 TTTTGATTTTTTTGATTT
1 TTTTGA-TTTTTTG-TTT
35286810 TTTTGATTTTTTGTTT
1 TTTTGATTTTTTGTTT
35286826 TTTT
1 TTTT
35286830 ATTGAATCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 7 0.35
18 6 0.30
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.82
Consensus pattern (16 bp):
TTTTGATTTTTTGTTT
Found at i:35298745 original size:3 final size:3
Alignment explanation
Indices: 35298737--35298801 Score: 76
Period size: 3 Copynumber: 21.7 Consensus size: 3
35298727 AATCATTAAA
* * * * * *
35298737 AAT AAT AAT AAT TAT ATT AAC AAT AAT AAT AAT AAT AAT TAT ATT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
35298785 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
35298802 AATTCTTATT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:35298775 original size:27 final size:27
Alignment explanation
Indices: 35298737--35298801 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
35298727 AATCATTAAA
35298737 AATAATAATAATTATATTAACAATAAT
1 AATAATAATAATTATATTAACAATAAT
35298764 AATAATAATAATTATATTAACAATAAT
1 AATAATAATAATTATATTAACAATAAT
35298791 AATAATAATAA
1 AATAATAATAA
35298802 AATTCTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (27 bp):
AATAATAATAATTATATTAACAATAAT
Found at i:35299498 original size:17 final size:17
Alignment explanation
Indices: 35299475--35299510 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
35299465 CATTTGTCAT
35299475 CTTTTTTTTTA-TTTTA
1 CTTTTTTTTTATTTTTA
35299491 CTTTTTTTTTATTTTTA
1 CTTTTTTTTTATTTTTA
35299508 CTT
1 CTT
35299511 ATATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (17 bp):
CTTTTTTTTTATTTTTA
Found at i:35299519 original size:5 final size:5
Alignment explanation
Indices: 35299511--35299563 Score: 76
Period size: 5 Copynumber: 11.2 Consensus size: 5
35299501 ATTTTTACTT
*
35299511 ATATA ATATA ATACA ATATA ATATA ATATA ATATA ATA-A A-ATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
35299558 ATATA A
1 ATATA A
35299564 AACATAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 1 0.02
4 8 0.19
5 34 0.79
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:35299712 original size:22 final size:22
Alignment explanation
Indices: 35299684--35299793 Score: 148
Period size: 22 Copynumber: 5.0 Consensus size: 22
35299674 TTTATTGTTC
*
35299684 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
35299706 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
35299728 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
35299750 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
35299772 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
35299794 GAACTCAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 77 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:35300661 original size:108 final size:107
Alignment explanation
Indices: 35300430--35300722 Score: 462
Period size: 108 Copynumber: 2.7 Consensus size: 107
35300420 GTTAAACGTG
* * *
35300430 AAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACACAAAACATTGCCTTATTT
1 AAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTA-TT
*
35300495 TTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAA
65 TTGAAAA-TTTTTAAAAGGATATTAAGCTATTTGGTCGAACGAA
*
35300539 AAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTT
1 AAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
* *
35300604 TGAAAATTTTTGAAAAGGATATTAAG-TCATTTGGTGGAACGAT
66 TGAAAATTTTT-AAAAGGATATTAAGCT-ATTTGGTCGAACGAA
*
35300647 AAATCGAAACCCAGTACCTTAGGGCACGTTCTTCGAATTTCCAAACGCAAAACATTGCCTTATTT
1 AAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
*
35300712 TGAAAAATTTT
66 TGAAAATTTTT
35300723 CCTTTTTGAA
Statistics
Matches: 172, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
107 6 0.03
108 108 0.63
109 58 0.34
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (107 bp):
AAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
TGAAAATTTTTAAAAGGATATTAAGCTATTTGGTCGAACGAA
Found at i:35301223 original size:31 final size:32
Alignment explanation
Indices: 35301185--35301254 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
35301175 ACATATATAC
*
35301185 GTATATAACTAT-CATAAAATATA-AAAAGTAT
1 GTATATAACTATACA-AAAATATATAAAAATAT
*
35301216 GTATATAAGTATACAAAAATATATAAAAATAT
1 GTATATAACTATACAAAAATATATAAAAATAT
*
35301248 ATATATA
1 GTATATA
35301255 CTCCTATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 19 0.56
32 15 0.44
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (32 bp):
GTATATAACTATACAAAAATATATAAAAATAT
Found at i:35301282 original size:3 final size:3
Alignment explanation
Indices: 35301274--35301320 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
35301264 ATATAAAAGC
*
35301274 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
35301320 A
1 A
35301321 CGCTAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:35301429 original size:28 final size:28
Alignment explanation
Indices: 35301355--35301437 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
35301345 AAAAGTGTTA
*
35301355 AAAAGGGACTAAATC-AAAGTAAAAGCAAC
1 AAAAGGGACTAAATCGAAA-TAAAA-AAAC
* * *
35301384 AATACGGGGCGAAATCGAAATAAAAAAAC
1 AA-AAGGGACTAAATCGAAATAAAAAAAC
*
35301413 AAAAGGGACTAAATCGAAAGAAAAA
1 AAAAGGGACTAAATCGAAATAAAAA
35301438 TAAAATTTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
28 19 0.43
29 7 0.16
30 15 0.34
31 3 0.07
ACGTcount: A:0.59, C:0.12, G:0.19, T:0.10
Consensus pattern (28 bp):
AAAAGGGACTAAATCGAAATAAAAAAAC
Found at i:35303383 original size:14 final size:12
Alignment explanation
Indices: 35303360--35303393 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
35303350 GAAGGTACTG
35303360 TTTTTTTTTTCT
1 TTTTTTTTTTCT
35303372 ATTTTTTCTTTTCT
1 -TTTTTT-TTTTCT
35303386 TTTTTTTT
1 TTTTTTTT
35303394 GTTAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 12 0.60
14 6 0.30
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:35307199 original size:15 final size:15
Alignment explanation
Indices: 35307173--35307211 Score: 69
Period size: 15 Copynumber: 2.5 Consensus size: 15
35307163 GATATAAGCT
35307173 TGATTGAAAAACTTGA
1 TGATT-AAAAACTTGA
35307189 TGATTAAAAACTTGA
1 TGATTAAAAACTTGA
35307204 TGATTAAA
1 TGATTAAA
35307212 TGAACAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (15 bp):
TGATTAAAAACTTGA
Found at i:35313710 original size:31 final size:31
Alignment explanation
Indices: 35313665--35313727 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
35313655 TCTAGACTAA
* *
35313665 TCAGAATTTGATTGAAACAAATAAACAGAGT
1 TCAGAATTTCATTGAAACAAATAAACAAAGT
*
35313696 TCAGAGTTTCATTGAAACAAATAAACAAAGT
1 TCAGAATTTCATTGAAACAAATAAACAAAGT
35313727 T
1 T
35313728 TAACTGAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (31 bp):
TCAGAATTTCATTGAAACAAATAAACAAAGT
Found at i:35314540 original size:15 final size:14
Alignment explanation
Indices: 35314516--35314557 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
35314506 TCTCCTTATG
*
35314516 CTTCTTTTCTTTCTT
1 CTTCTCTTCTTTC-T
35314531 CTTCTCTTCTTTCT
1 CTTCTCTTCTTTCT
35314545 CTTCATCTTCTTT
1 CTTC-TCTTCTTT
35314558 TACCACCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTCTCTTCTTTCT
Found at i:35314541 original size:20 final size:20
Alignment explanation
Indices: 35314454--35314547 Score: 57
Period size: 23 Copynumber: 4.3 Consensus size: 20
35314444 TCCATGTATT
*
35314454 TTTTCTTT-TTCTTCTCATC
1 TTTTCTTTCTTCTTCTCTTC
35314473 TTTCTCTTCATCTTCTTCTCTCTCAAC
1 TTT-TCTT--TCTTCTTCTCT-T---C
* * *
35314500 CTTT-TTTCTCCTTATGCTTC
1 TTTTCTTTCTTCTTCT-CTTC
35314520 TTTTCTTTCTTCTTCTCTTC
1 TTTTCTTTCTTCTTCTCTTC
35314540 TTTCTCTT
1 TTT-TCTT
35314548 CATCTTCTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
19 3 0.05
20 15 0.26
21 13 0.23
22 1 0.02
23 16 0.28
24 3 0.05
25 2 0.04
26 1 0.02
27 3 0.05
ACGTcount: A:0.05, C:0.31, G:0.01, T:0.63
Consensus pattern (20 bp):
TTTTCTTTCTTCTTCTCTTC
Found at i:35314553 original size:20 final size:20
Alignment explanation
Indices: 35314516--35314555 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35314506 TCTCCTTATG
*
35314516 CTTCTTTTCTTTCTTCTTCT
1 CTTCTTTTCTTTCATCTTCT
35314536 CTTC-TTTCTCTTCATCTTCT
1 CTTCTTTTCT-TTCATCTTCT
35314556 TTTACCACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTCTTTTCTTTCATCTTCT
Found at i:35315190 original size:14 final size:15
Alignment explanation
Indices: 35315173--35315234 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 15
35315163 CTTATCCTCC
35315173 TCTTCTT-TTTTTCT
1 TCTTCTTATTTTTCT
*
35315187 TCTTCTTCTCTATTTCT
1 TCTTCTTAT-T-TTTCT
35315204 TC-TCTTATTTTTCT
1 TCTTCTTATTTTTCT
* *
35315218 TTTTC-TCTTTTTCT
1 TCTTCTTATTTTTCT
35315232 TCT
1 TCT
35315235 ACTGTCTAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 23 0.57
15 4 0.10
16 6 0.15
17 7 0.17
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTTCTTATTTTTCT
Found at i:35315204 original size:28 final size:28
Alignment explanation
Indices: 35315173--35315234 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
35315163 CTTATCCTCC
*
35315173 TCTTCT-TTTTTTCTTCTTCTTCTCTATT
1 TCTTCTCTTATTT-TTCTTCTTCTCTATT
* *
35315201 TCTTCTCTTATTTTTCTTTTTCTCTTTT
1 TCTTCTCTTATTTTTCTTCTTCTCTATT
35315229 TCTTCT
1 TCTTCT
35315235 ACTGTCTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (28 bp):
TCTTCTCTTATTTTTCTTCTTCTCTATT
Found at i:35327438 original size:2 final size:2
Alignment explanation
Indices: 35327431--35327467 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
35327421 AAGAAAGGTG
35327431 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35327468 GTAAATCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35330273 original size:1 final size:1
Alignment explanation
Indices: 35330267--35330292 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
35330257 GGCTGTTAGG
35330267 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
35330293 GCACTTTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:35345817 original size:23 final size:22
Alignment explanation
Indices: 35345765--35345817 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
35345755 TCCTTGTCTT
*
35345765 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
35345787 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
35345810 TTTCTTTT
1 TTTCTTTT
35345818 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:35354239 original size:3 final size:3
Alignment explanation
Indices: 35354231--35354266 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
35354221 ACTTTATCCC
35354231 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35354267 CAATCCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35356514 original size:46 final size:46
Alignment explanation
Indices: 35356461--35356548 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
35356451 CTCCTCAAAA
*
35356461 GGTTGGAATTGTCTCCTA-TTAAAGTTTTGTCTTTCGACTTTGCGAG
1 GGTTGGAATTGTCTCC-ACTTAAAGTTTTGTCTTTCAACTTTGCGAG
* * *
35356507 GGTTGGAATTGTCTCCACTTGAGGTTTTGTTTTTCAACTTTG
1 GGTTGGAATTGTCTCCACTTAAAGTTTTGTCTTTCAACTTTG
35356549 TGAAGAACCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.03
46 36 0.97
ACGTcount: A:0.16, C:0.15, G:0.24, T:0.45
Consensus pattern (46 bp):
GGTTGGAATTGTCTCCACTTAAAGTTTTGTCTTTCAACTTTGCGAG
Found at i:35366842 original size:12 final size:12
Alignment explanation
Indices: 35366825--35366864 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
35366815 CAAGTTTTTC
35366825 ATTTTAATATAT
1 ATTTTAATATAT
35366837 ATTTTAATATAT
1 ATTTTAATATAT
*
35366849 GTTTTAA-ATAT
1 ATTTTAATATAT
35366860 -TTTTA
1 ATTTTA
35366865 TATTATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 5 0.19
11 4 0.15
12 18 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
ATTTTAATATAT
Found at i:35369323 original size:17 final size:17
Alignment explanation
Indices: 35369293--35369326 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35369283 AGTTAAATTG
**
35369293 ATTTTTTATGTTTTTAA
1 ATTTTTTAAATTTTTAA
35369310 ATTTTTTAAATTTTTAA
1 ATTTTTTAAATTTTTAA
35369327 TAATTTATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTTTAAATTTTTAA
Found at i:35373874 original size:25 final size:25
Alignment explanation
Indices: 35373827--35373875 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
35373817 TAGGTGTAGG
* * *
35373827 TATTGTTTTATATTTTTGCTTTTTA
1 TATTGATTTATATATTGGCTTTTTA
35373852 TATTGATTTATATATTGG-TTTTTA
1 TATTGATTTATATATTGGCTTTTTA
35373876 GGTATTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.20, C:0.02, G:0.10, T:0.67
Consensus pattern (25 bp):
TATTGATTTATATATTGGCTTTTTA
Found at i:35378542 original size:11 final size:11
Alignment explanation
Indices: 35378526--35378557 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
35378516 ATTGTAACAC
35378526 AAGAAAAAAAG
1 AAGAAAAAAAG
35378537 AAGAAAAAAAG
1 AAGAAAAAAAG
35378548 AAGAAGAAAA
1 AAGAA-AAAA
35378558 CAACGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:35379603 original size:21 final size:22
Alignment explanation
Indices: 35379578--35379644 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
35379568 ATTTTATGTA
35379578 ATTATATTATTATCATAC-ATT
1 ATTATATTATTATCATACTATT
*
35379599 TTTATATTATT-TC--ACTATT
1 ATTATATTATTATCATACTATT
*
35379618 ATTATCATTATTATCATA-TAGT
1 ATTAT-ATTATTATCATACTATT
35379640 ATTAT
1 ATTAT
35379645 TAATTGAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
20 8 0.21
21 12 0.32
22 8 0.21
23 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.01, T:0.55
Consensus pattern (22 bp):
ATTATATTATTATCATACTATT
Found at i:35379620 original size:3 final size:3
Alignment explanation
Indices: 35379614--35379689 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
35379604 ATTATTTCAC
* * * *
35379614 TAT TAT TAT CAT TAT TAT CAT ATAG TAT TAT TAAT TGAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT T-AT TAT TAT TAT
* *
35379662 TAT TGT TAT TAT TATT TCT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT
35379690 ATTCACTATA
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
3 49 0.86
4 8 0.14
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:35386024 original size:44 final size:43
Alignment explanation
Indices: 35385924--35386035 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
35385914 CTTATCTCCT
* * * *
35385924 TGAAGTTGCAGTGGAGCAAG-ATGAAGCTACAAATCTTATACCT
1 TGAAGTTGCAGTGG-GTAGGAATGAAGCTACAAATCCTATACCC
* * * *
35385967 TGAAGTTGCAGTGGGTCGGATTGAAGCTGCAATTCCTATACCCC
1 TGAAGTTGCAGTGGGTAGGAATGAAGCTACAAATCCTATA-CCC
*
35386011 TGAAGTTGTAGTGGGTAGGAATGAA
1 TGAAGTTGCAGTGGGTAGGAATGAA
35386036 AATATAATGG
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.04
43 30 0.54
44 24 0.43
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (43 bp):
TGAAGTTGCAGTGGGTAGGAATGAAGCTACAAATCCTATACCC
Found at i:35386045 original size:137 final size:138
Alignment explanation
Indices: 35385829--35386136 Score: 392
Period size: 137 Copynumber: 2.2 Consensus size: 138
35385819 ATCCGGTCTT
* *** ** *
35385829 CCTGAAGTTGTAGTGAAACGGA-TGAAGCTACAATTCCTATACCTTTGAAGTTACCGTGGGTCAG
1 CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTGAAGTTACAGTGGGTCAG
* *
35385893 AATAAAATTACAATGGTGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACAAA
66 AATAAAATTACAATGGTGAATCTTATCTCCTTGAAGTTACAGTGGAGCAA-ACTAAAGCTACAAA
*
35385957 TCTTATA-C
130 TCCTATACC
* * **
35385965 CTTGAAGTTGCAGTGGGTCGGATTGAAGCTGCAATTCCTATACCCCTGAAGTTGTAGTGGGT-AG
1 CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTGAAGTTACAGTGGGTCA-
*
35386029 GAATGAAAA-TATAATGGTGAATCTTATCTCCTTGAAGTTACAGTGGAGCAAACTAAAGCTACAA
65 GAAT-AAAATTACAATGGTGAATCTTATCTCCTTGAAGTTACAGTGGAGCAAACTAAAGCTACAA
35386093 ATCCTATACC
129 ATCCTATACC
* * *
35386103 CCTGAAGTTGTAGTGGGTCAGATTGAAACTACAA
1 CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAA
35386137 ATGACAAATC
Statistics
Matches: 147, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
136 19 0.13
137 94 0.64
138 34 0.23
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (138 bp):
CCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAATTCCTATACCCCTGAAGTTACAGTGGGTCAG
AATAAAATTACAATGGTGAATCTTATCTCCTTGAAGTTACAGTGGAGCAAACTAAAGCTACAAAT
CCTATACC
Found at i:35386135 original size:44 final size:44
Alignment explanation
Indices: 35385924--35386353 Score: 131
Period size: 44 Copynumber: 9.4 Consensus size: 44
35385914 CTTATCTCCT
* * *
35385924 TGAAGTTGCAGTGGAG-CAAGA-TGAAGCTACAAATCTTATA-CCT
1 TGAAGTTGCAGTGG-GTC-AGATTGAAACTACAAATCCTATACCCC
* * * *
35385967 TGAAGTTGCAGTGGGTCGGATTGAAGCTGCAATTCCTATACCCC
1 TGAAGTTGCAGTGGGTCAGATTGAAACTACAAATCCTATACCCC
* * * * * *
35386011 TGAAGTTGTAGTGGGT-AGGAATGAAAATATAATGGTGAATCTTAT-CTCCT
1 TGAAGTTGCAGTGGGTCA-GATTGAAACTA-CA-----AATCCTATAC-CCC
* * *
35386061 TGAAGTTACAGTGGAG-CAAACT-AAAGCTACAAATCCTATACCCC
1 TGAAGTTGCAGTGG-GTCAGATTGAAA-CTACAAATCCTATACCCC
* *
35386105 TGAAGTTGTAGTGGGTCAGATTGAAACTACAAATGACAAATCT-TATCTCTC
1 TGAAGTTGCAGTGGGTCAGATTGAAACTACAAAT--C----CTATA-C-CCC
* * * *
35386156 TAAAGTTACAGTGGAG-CAAGA-TGAAGCTACAAGTCCTATACCCC
1 TGAAGTTGCAGTGG-GTC-AGATTGAAACTACAAATCCTATACCCC
** *
35386200 TGAAGTTATAGTGGGTC-GAATTGAAACTACAATGGCAAATCTTAT-CTCCC
1 TGAAGTTGCAGTGGGTCAG-ATTGAAACT---A---CAAATCCTATAC-CCC
* *
35386250 TAAAGTTGCAGTAGAG-CAAGA-T-AAAGCTACAAATCCTATACCCC
1 TGAAGTTGCAGT-GGGTC-AGATTGAAA-CTACAAATCCTATACCCC
* * *
35386294 TGAAGTTGCAGTGGAG-CAAGA-T-AAAGCTACAAATTCTATGCCTC
1 TGAAGTTGCAGTGG-GTC-AGATTGAAA-CTACAAATCCTATACCCC
*
35386338 TGAACTTGCAGTGGGT
1 TGAAGTTGCAGTGGGT
35386354 TGGAATAAAA
Statistics
Matches: 292, Mismatches: 50, Indels: 89
0.68 0.12 0.21
Matches are distributed among these distances:
42 4 0.01
43 36 0.12
44 140 0.48
45 9 0.03
46 3 0.01
47 2 0.01
49 12 0.04
50 51 0.17
51 30 0.10
52 5 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (44 bp):
TGAAGTTGCAGTGGGTCAGATTGAAACTACAAATCCTATACCCC
Found at i:35386183 original size:95 final size:93
Alignment explanation
Indices: 35385990--35386307 Score: 417
Period size: 94 Copynumber: 3.4 Consensus size: 93
35385980 GGTCGGATTG
* * * * * **
35385990 AAGCTGCAATTCCTATACCCCTGAAGTTGTAGTGGGT-AGGAATGAAAATATAATGGTGAATCTT
1 AAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCA-GATTGAAACTACAATGGCAAATCTT
*
35386054 ATCTCCTTGAAGTTACAGTGGAGCAA-ACTA
65 ATCTCC-TAAAGTTACAGTGGAGCAAGA-TA
*
35386084 AAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAAATGACAAATCTT
1 AAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTAC-AATGGCAAATCTT
*
35386149 ATCTCTCTAAAGTTACAGTGGAGCAAGATG
65 ATCTC-CTAAAGTTACAGTGGAGCAAGATA
* *
35386179 AAGCTACAAGTCCTATACCCCTGAAGTTATAGTGGGTC-GAATTGAAACTACAATGGCAAATCTT
1 AAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAG-ATTGAAACTACAATGGCAAATCTT
* *
35386243 ATCTCCCTAAAGTTGCAGTAGAGCAAGATA
65 ATCT-CCTAAAGTTACAGTGGAGCAAGATA
*
35386273 AAGCTACAAATCCTATACCCCTGAAGTTGCAGTGG
1 AAGCTACAAATCCTATACCCCTGAAGTTGTAGTGG
35386308 AGCAAGATAA
Statistics
Matches: 199, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
94 114 0.57
95 83 0.42
96 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (93 bp):
AAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAATGGCAAATCTTA
TCTCCTAAAGTTACAGTGGAGCAAGATA
Found at i:35386321 original size:138 final size:138
Alignment explanation
Indices: 35386158--35386409 Score: 326
Period size: 138 Copynumber: 1.8 Consensus size: 138
35386148 TATCTCTCTA
* * * *
35386158 AAGTTACAGTGGAGCAAGATGAAGCTACAAGTCCTATACCCCTGAAGTTATAGTGGG-TCGAATT
1 AAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAACTTACAGTGGGTTCGAA-T
* *** * *
35386222 GAAACTACAATGGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAGATAAAGCTACAAATCCT
65 AAAACTACAACAACAAATCTTATCTCCCTAAAGTTGAAATAGAGCAAGATAAAGCTACAAATCCT
35386287 ATACCCCTG
130 ATACCCCTG
* * * * * *
35386296 AAGTTGCAGTGGAGCAAGATAAAGCTACAAATTCTATGCCTCTGAACTTGCAGTGGGTTGGAATA
1 AAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAACTTACAGTGGGTTCGAATA
* *
35386361 AAACTACAACAACAAATCTTATCTCCTTGAAGTTGAAATAGAGCAAGAT
66 AAACTACAACAACAAATCTTATCTCCCTAAAGTTGAAATAGAGCAAGAT
35386410 GAAACTTTGA
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
138 91 0.96
139 4 0.04
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (138 bp):
AAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAACTTACAGTGGGTTCGAATA
AAACTACAACAACAAATCTTATCTCCCTAAAGTTGAAATAGAGCAAGATAAAGCTACAAATCCTA
TACCCCTG
Found at i:35386369 original size:44 final size:44
Alignment explanation
Indices: 35386255--35386351 Score: 149
Period size: 44 Copynumber: 2.2 Consensus size: 44
35386245 CTCCCTAAAG
* *
35386255 TTGCAGTAGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAG
1 TTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAC
* * *
35386299 TTGCAGTGGAGCAAGATAAAGCTACAAATTCTATGCCTCTGAAC
1 TTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAC
35386343 TTGCAGTGG
1 TTGCAGTGG
35386352 GTTGGAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (44 bp):
TTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAC
Found at i:35387000 original size:31 final size:31
Alignment explanation
Indices: 35386950--35387011 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
35386940 AAGAACAGAG
* *
35386950 AGCAGAGAACAGCAGAAACACAAAAGTAGAAA
1 AGCAGAGAACAGCAAAAACA-AAAAGGAGAAA
*
35386982 AGCA-AGAATAGCAAAAACAAAAAGGAGAAA
1 AGCAGAGAACAGCAAAAACAAAAAGGAGAAA
35387012 GAAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 10 0.37
31 13 0.48
32 4 0.15
ACGTcount: A:0.63, C:0.13, G:0.21, T:0.03
Consensus pattern (31 bp):
AGCAGAGAACAGCAAAAACAAAAAGGAGAAA
Found at i:35396238 original size:2 final size:2
Alignment explanation
Indices: 35396231--35396262 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
35396221 AGTAGCTTAC
*
35396231 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35396263 TAAAATAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:35401541 original size:20 final size:20
Alignment explanation
Indices: 35401516--35401555 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
35401506 ATCTCGAGAA
*
35401516 AACAATGTTTCACATCCAAT
1 AACAATGTGTCACATCCAAT
35401536 AACAATGTGTCACATCCAAT
1 AACAATGTGTCACATCCAAT
35401556 GCATTAGGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (20 bp):
AACAATGTGTCACATCCAAT
Found at i:35402530 original size:18 final size:18
Alignment explanation
Indices: 35402508--35402549 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
35402498 TAATAATAAT
*
35402508 AATAATAACAGTATTAAA
1 AATAATAACAGTAGTAAA
* *
35402526 CATAATAATAGTAGTAAA
1 AATAATAACAGTAGTAAA
35402544 AATAAT
1 AATAAT
35402550 GATAACATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.29
Consensus pattern (18 bp):
AATAATAACAGTAGTAAA
Found at i:35402530 original size:21 final size:21
Alignment explanation
Indices: 35402463--35402570 Score: 78
Period size: 21 Copynumber: 5.3 Consensus size: 21
35402453 AATAAGTAAT
* * * *
35402463 AATAATAATAATAATAATAAT
1 AATAATAATAACAGTATTAAA
* * * *
35402484 AATAATAATAATAATAATAAT
1 AATAATAATAACAGTATTAAA
35402505 AATAATAATAACAGTATTAAA
1 AATAATAATAACAGTATTAAA
* *
35402526 CATAATAAT---AGTAGTAAA
1 AATAATAATAACAGTATTAAA
* *
35402544 AATAATGATAACATTATTAAA
1 AATAATAATAACAGTATTAAA
*
35402565 ATTAAT
1 AATAAT
35402571 TAATTTAATA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
18 15 0.21
21 58 0.79
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (21 bp):
AATAATAATAACAGTATTAAA
Found at i:35402535 original size:3 final size:3
Alignment explanation
Indices: 35402422--35402515 Score: 152
Period size: 3 Copynumber: 30.0 Consensus size: 3
35402412 NNNNNNNNNN
35402422 TAA TAA TAA TAA TAA TAA TAA TAA GTAAA TAAA TAA GTAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -T-AA T-AA TAA -TAA TAA TAA TAA
35402471 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35402516 CAGTATTAAA
Statistics
Matches: 88, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
3 77 0.88
4 9 0.10
5 2 0.02
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:35404148 original size:29 final size:29
Alignment explanation
Indices: 35404115--35404211 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
35404105 GAAAACTTTA
35404115 GTGACTAAATTGTAACTTTTTTTAGTTTT
1 GTGACTAAATTGTAACTTTTTTTAGTTTT
* ** * **** *
35404144 GTGACTAAAATAAAAATATACCATAGTTTA
1 GTGACTAAATTGTAACT-TTTTTTAGTTTT
*
35404174 GTGACTAAATTGTAACTTTTTTTAGTTAT
1 GTGACTAAATTGTAACTTTTTTTAGTTTT
35404203 GTGACTAAA
1 GTGACTAAA
35404212 ATAAAAATAT
Statistics
Matches: 48, Mismatches: 19, Indels: 2
0.70 0.28 0.03
Matches are distributed among these distances:
29 28 0.58
30 20 0.42
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.43
Consensus pattern (29 bp):
GTGACTAAATTGTAACTTTTTTTAGTTTT
Found at i:35404177 original size:59 final size:60
Alignment explanation
Indices: 35404111--35404241 Score: 237
Period size: 59 Copynumber: 2.2 Consensus size: 60
35404101 ATTTGAAAAC
*
35404111 TTTAGTGACTAAATTGTAACTTTTTTTAGTTTTGTGACTAAAATAAAAATATA-CCATAG
1 TTTAGTGACTAAATTGTAACTTTTTTTAGTTATGTGACTAAAATAAAAATATACCCATAG
35404170 TTTAGTGACTAAATTGTAACTTTTTTTAGTTATGTGACTAAAATAAAAATATACCCATAG
1 TTTAGTGACTAAATTGTAACTTTTTTTAGTTATGTGACTAAAATAAAAATATACCCATAG
*
35404230 TTCAGTGACTAA
1 TTTAGTGACTAA
35404242 TGGTGTAATT
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
59 52 0.75
60 17 0.25
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.40
Consensus pattern (60 bp):
TTTAGTGACTAAATTGTAACTTTTTTTAGTTATGTGACTAAAATAAAAATATACCCATAG
Found at i:35405593 original size:109 final size:109
Alignment explanation
Indices: 35405322--35405855 Score: 765
Period size: 109 Copynumber: 4.9 Consensus size: 109
35405312 GACATGGATT
* * * *
35405322 AAAA-TTTAAGAGGATATTTGGCTATTTGGT-TAA-ACGAGAAATCGAAACCCAGCACATTAGGG
1 AAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAAAATCGAAACCCAGCACATTAGGG
* * * * *
35405384 CACATTTCCTCGAATTTCCAAAGGCAAAATATTGTCTTA-TTTC
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTG
*
35405427 AAAATTTTAAAAGGATATTTGGCTATTTGATCGAACAAGAAAAATCGAAACCCAGCACATTAGGG
1 AAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAAAATCGAAACCCAGCACATTAGGG
* *
35405492 CACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTG
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTG
* *
35405536 AAAATTTTAAAAGGATATTTAGCTATTTGGTTGAACAAGAAAAATCGAAACCCAGCACATTAGGG
1 AAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAAAATCGAAACCCAGCACATTAGGG
* *
35405601 CACGTTTTCTCGAATTTCCAAACTCAAAATATTGCCTTACTTCG
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTG
* * *
35405645 -AAATTTAAAAAGGATATTTGGTTATTTGGTCGAACGAGAAAAAATCGAAACCCAGCACATTAGG
1 AAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAG-AAAAATCGAAACCCAGCACATTAGG
* * *
35405709 GCACGTTTTCTCGAATTTCCAAATGTAAAATATCGCCTTACTTTG
65 GCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTG
* * * *
35405754 -AAATTTTAAAAGGATATTTAGCTACTTGGTCGAACGAGAAAGATCGAAACCCAGCACATTAGGG
1 AAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAAAATCGAAACCCAGCACATTAGGG
* *
35405818 CACATTTCCTCGAATTTCCAAACGCAAAATATTGCCTT
66 CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTT
35405856 TATTATTTTT
Statistics
Matches: 386, Mismatches: 38, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
105 4 0.01
106 24 0.06
107 2 0.01
108 152 0.39
109 204 0.53
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (109 bp):
AAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGAAAAATCGAAACCCAGCACATTAGGG
CACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTG
Found at i:35405760 original size:217 final size:217
Alignment explanation
Indices: 35405322--35405855 Score: 815
Period size: 217 Copynumber: 2.5 Consensus size: 217
35405312 GACATGGATT
* * * *
35405322 AAAA-TTTAAGAGGATATTTGGCTATTTGGTT-AA-ACGAGAAATCGAAACCCAGCACATTAGGG
1 AAAATTTTAAAAGGATATTTAGCTATTTGGTTGAACAAGAAAAATCGAAACCCAGCACATTAGGG
* * * *
35405384 CACATTTCCTCGAATTTCCAAAGGCAAAATATTGTCTTATTTCAAAATTTTAAAAGGATATTTGG
66 CACATTTCCTCGAATTTCCAAACGCAAAATATTGCCTTACTTCAAAATTTAAAAAGGATATTTGG
35405449 CTATTTGATCGAACAAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAA
131 CTATTTGATCGAACAAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAA
* *
35405514 CGCAAAACATTGCCTTATTTTG
196 CGCAAAACATCGCCTTACTTTG
35405536 AAAATTTTAAAAGGATATTTAGCTATTTGGTTGAACAAGAAAAATCGAAACCCAGCACATTAGGG
1 AAAATTTTAAAAGGATATTTAGCTATTTGGTTGAACAAGAAAAATCGAAACCCAGCACATTAGGG
* * * *
35405601 CACGTTTTCTCGAATTTCCAAACTCAAAATATTGCCTTACTTCGAAATTTAAAAAGGATATTTGG
66 CACATTTCCTCGAATTTCCAAACGCAAAATATTGCCTTACTTCAAAATTTAAAAAGGATATTTGG
* * *
35405666 TTATTTGGTCGAACGAGAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAA
131 CTATTTGATCGAACAAG-AAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAA
* * *
35405731 ATGTAAAATATCGCCTTACTTTG
195 ACGCAAAACATCGCCTTACTTTG
* * * *
35405754 -AAATTTTAAAAGGATATTTAGCTACTTGGTCGAACGAGAAAGATCGAAACCCAGCACATTAGGG
1 AAAATTTTAAAAGGATATTTAGCTATTTGGTTGAACAAGAAAAATCGAAACCCAGCACATTAGGG
35405818 CACATTTCCTCGAATTTCCAAACGCAAAATATTGCCTT
66 CACATTTCCTCGAATTTCCAAACGCAAAATATTGCCTT
35405856 TATTATTTTT
Statistics
Matches: 289, Mismatches: 27, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
214 4 0.01
215 25 0.09
216 2 0.01
217 193 0.67
218 65 0.22
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (217 bp):
AAAATTTTAAAAGGATATTTAGCTATTTGGTTGAACAAGAAAAATCGAAACCCAGCACATTAGGG
CACATTTCCTCGAATTTCCAAACGCAAAATATTGCCTTACTTCAAAATTTAAAAAGGATATTTGG
CTATTTGATCGAACAAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAA
CGCAAAACATCGCCTTACTTTG
Found at i:35407093 original size:98 final size:98
Alignment explanation
Indices: 35406922--35407118 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
35406912 GTGCGATAAA
*
35406922 ACTTTAAAAGAACATCCACCTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCATGATT
1 ACTTTAAAAGAACATCCACCTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACGATT
* *
35406987 CCTTTAAAATCCTAAACTCGGAATACTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATACTTCCTTT
* * *
35407020 ACTTTAAAAGAACATCCACTTGTCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACCTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACGATT
*
35407085 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATACTTCCTTT
35407118 A
1 A
35407119 TTATTTTTAA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACCTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACGATT
CCTCTAAAATCCCAAACTCGGAATACTTCCTTT
Found at i:35407455 original size:17 final size:19
Alignment explanation
Indices: 35407435--35407479 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
35407425 TTAATGACAT
35407435 AAAAATAATAT-AAAT-AA
1 AAAAATAATATGAAATGAA
35407452 AAAAATAA-ATGAAATGAA
1 AAAAATAATATGAAATGAA
*
35407470 AAAAACAATA
1 AAAAATAATA
35407480 ATCCATGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.08
17 12 0.50
18 9 0.38
19 1 0.04
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (19 bp):
AAAAATAATATGAAATGAA
Found at i:35407937 original size:15 final size:14
Alignment explanation
Indices: 35407909--35407962 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
35407899 ATATATACAT
*
35407909 ATATTAAAAAAATA
1 ATATGAAAAAAATA
35407923 ATATGAAAAAGAATA
1 ATATGAAAAA-AATA
35407938 ATA--AAAAAAACTA
1 ATATGAAAAAAA-TA
35407951 A-ATGTAAAAAAA
1 ATATG-AAAAAAA
35407963 GAAAATGGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 8 0.24
14 9 0.26
15 14 0.41
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (14 bp):
ATATGAAAAAAATA
Found at i:35408178 original size:22 final size:23
Alignment explanation
Indices: 35408132--35408178 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
35408122 CGAATTGGAA
35408132 TTTAAAATAAATTAAAGGCCTAAT
1 TTTAAAATAAATTAAA-GCCTAAT
35408156 TTTAAAA-AAATATAAA-CCTAAT
1 TTTAAAATAAAT-TAAAGCCTAAT
35408178 T
1 T
35408179 GCAAAAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 11 0.50
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (23 bp):
TTTAAAATAAATTAAAGCCTAAT
Found at i:35409536 original size:132 final size:132
Alignment explanation
Indices: 35409363--35410269 Score: 1528
Period size: 132 Copynumber: 6.9 Consensus size: 132
35409353 AGACTTGTAG
* * * *
35409363 CTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAAGGGTTGGTGGCTTTAATTTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * *
35409428 CTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTACA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
35409493 AT
131 AT
*
35409495 CTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
*
35409560 CTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTA---CTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
35409622 AT
131 AT
*
35409624 TTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* *
35409689 CTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
35409754 AT
131 AT
* *
35409756 CTTCAACCTTCTCCGCTGCTGCTCTGGGAGACAAGGCTTGGTGGATTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* * * * *
35409821 CTTGGAAAGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGATTAGAGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
35409886 AT
131 AT
35409888 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
35409953 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC--T-
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
35410015 A-
131 AT
* *
35410016 --T-AACCTTCTCCGCTGCTGCTCAAGGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* *
35410078 CTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
35410143 AT
131 AT
35410145 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
35410210 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTCAGGGAGATAAGA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGA
35410270 CTACTGGTTA
Statistics
Matches: 727, Mismatches: 37, Indels: 21
0.93 0.05 0.03
Matches are distributed among these distances:
125 118 0.16
126 1 0.00
127 1 0.00
128 1 0.00
129 123 0.17
131 1 0.00
132 470 0.65
133 12 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (132 bp):
CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATA
AT
Found at i:35410166 original size:257 final size:259
Alignment explanation
Indices: 35409363--35410269 Score: 1500
Period size: 257 Copynumber: 3.5 Consensus size: 259
35409353 AGACTTGTAG
* * * *
35409363 CTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAAGGGTTGGTGGCTTTAATTTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* *
35409428 CTTGGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTACA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT--A
35409493 ATCTTCAACCTTCTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
129 A--TTCAACCTTCTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
*
35409558 ATCTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTC-C-ACTACTTAGGGAGATAAGATCTAT
192 ATCTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCACTACTGCTTAGGGAGATAAGATCTAT
35409621 AAT
257 AAT
*
35409624 TTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
* *
35409689 CTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC--TA
** *
35409754 ATCTTCAACCTTCTCCGCTGCTGCTCTGGGAGACAAGGCTTGGTGGATTAAATCTGCTTCCCACT
129 A--TTCAACCTTCTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * * * *
35409819 ATCTTGGAAAGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGATTAGAGAGATAAGATCTA
192 ATCTTGGAAAGATAAGATTCGCCATCTTCGATCTGCT-CACTACTGCTTAGGGAGATAAGATCTA
*
35409884 CAAT
256 TAAT
35409888 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
35409953 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-A-
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAAT
*
35410016 T-AACCTTCTCCGCTGCTGCTCAAGGAGACAAGGTTTGGTGGCTTAAATCTGCTTCCCACTATCT
131 TCAACCTTCTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCT
35410080 TGGAAAGATAAGATTCGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTATAAT
196 TGGAAAGATAAGATTCGCCATCTTCGATCTGCTC-ACTACTGCTTAGGGAGATAAGATCTATAAT
35410145 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
35410210 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTCAGGGAGATAAGA
66 CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGA
35410270 CTACTGGTTA
Statistics
Matches: 607, Mismatches: 32, Indels: 17
0.93 0.05 0.03
Matches are distributed among these distances:
256 1 0.00
257 228 0.38
258 13 0.02
261 215 0.35
262 2 0.00
263 2 0.00
264 146 0.24
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (259 bp):
CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAAT
TCAACCTTCTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCT
TGGAAAGATAAGATTCGCCATCTTCGATCTGCTCACTACTGCTTAGGGAGATAAGATCTATAAT
Found at i:35421796 original size:98 final size:98
Alignment explanation
Indices: 35421625--35421821 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
35421615 GTGCGATAAA
35421625 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
* *
35421690 CCTTTAAAATCCCAAACTTGGAATACTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATACTTCCTTT
*
35421723 ACTTTAAAAGAACATCCACTTGTCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
*
35421788 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATACTTCCTTT
35421821 A
1 A
35421822 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
CCTCTAAAATCCCAAACTCGGAATACTTCCTTT
Done.