Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 126 of 345
Found at i:33799346 original size:31 final size:32
Alignment explanation
Indices: 33799310--33799385 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
33799300 ATTAAAAAAA
*
33799310 CTCAAATACTAAATTAAATATTGAAAC-AAAT
1 CTCAAATACTAAATTAAATATCGAAACTAAAT
** * * *
33799341 CTCAAATTTTAATTTGAGTATCGAAACTAAAT
1 CTCAAATACTAAATTAAATATCGAAACTAAAT
33799373 -TCAAATACTAAAT
1 CTCAAATACTAAAT
33799386 AGTATATTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (32 bp):
CTCAAATACTAAATTAAATATCGAAACTAAAT
Found at i:33800962 original size:22 final size:22
Alignment explanation
Indices: 33800937--33800979 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
33800927 TCTCCCTATT
33800937 TTGCTACCATTTTACTATTATG
1 TTGCTACCATTTTACTATTATG
* *
33800959 TTGCTACTATTTTATTATTAT
1 TTGCTACCATTTTACTATTAT
33800980 TGTTTGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (22 bp):
TTGCTACCATTTTACTATTATG
Found at i:33811059 original size:27 final size:27
Alignment explanation
Indices: 33811029--33811082 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
33811019 GGCAGTTTAT
33811029 CTACGACTTTGGTGGCATTGGCCACAA
1 CTACGACTTTGGTGGCATTGGCCACAA
33811056 CTACGACTTTGGTGGCATTGGCCACAA
1 CTACGACTTTGGTGGCATTGGCCACAA
33811083 TTATTTGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (27 bp):
CTACGACTTTGGTGGCATTGGCCACAA
Found at i:33812547 original size:31 final size:30
Alignment explanation
Indices: 33812511--33812575 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
33812501 TAATAGATAG
*
33812511 TAAAATTGTACTTTAACCCTTCTAAAAATGA
1 TAAAATTGTAATTTAA-CCTTCTAAAAATGA
* * * *
33812542 TAAAATTTTAATTTAATCTTTTAAAAATTA
1 TAAAATTGTAATTTAACCTTCTAAAAATGA
33812572 TAAA
1 TAAA
33812576 TATATTAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 15 0.52
31 14 0.48
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (30 bp):
TAAAATTGTAATTTAACCTTCTAAAAATGA
Found at i:33814462 original size:2 final size:2
Alignment explanation
Indices: 33814455--33814485 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33814445 AGGTTGATTT
33814455 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 T
33814486 TACTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33815941 original size:12 final size:13
Alignment explanation
Indices: 33815923--33815959 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
33815913 ACTTAATGAT
33815923 TAATTAAATTATA
1 TAATTAAATTATA
33815936 -AATT-AA-TATA
1 TAATTAAATTATA
33815946 TAATTAAATTATA
1 TAATTAAATTATA
33815959 T
1 T
33815960 TTTAACCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
10 4 0.19
11 6 0.29
12 6 0.29
13 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTAAATTATA
Found at i:33815964 original size:23 final size:23
Alignment explanation
Indices: 33815915--33815958 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
33815905 ATACAATCAC
33815915 TTAATGATTAATTAAATTATAAA
1 TTAATGATTAATTAAATTATAAA
33815938 TTAAT-ATATAATTAAATTATA
1 TTAATGAT-TAATTAAATTATA
33815959 TTTTAACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TTAATGATTAATTAAATTATAAA
Found at i:33816001 original size:29 final size:29
Alignment explanation
Indices: 33815945--33816004 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
33815935 AAATTAATAT
* * *
33815945 ATAATTAAATTATATTTTAACCTTTCAAA
1 ATAATAAAATTATATTTTAACATCTCAAA
*
33815974 ATAATAAAATTATATTTTAATATCTCAAA
1 ATAATAAAATTATATTTTAACATCTCAAA
33816003 AT
1 AT
33816005 TTATAATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.43
Consensus pattern (29 bp):
ATAATAAAATTATATTTTAACATCTCAAA
Found at i:33823906 original size:16 final size:16
Alignment explanation
Indices: 33823887--33823920 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
33823877 ATTTAACTTA
33823887 AAAAATTATAAATA-TT
1 AAAAATTA-AAATAGTT
33823903 AAAAATTAAAATAGTT
1 AAAAATTAAAATAGTT
33823919 AA
1 AA
33823921 TTGAGATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAAATTAAAATAGTT
Found at i:33828994 original size:18 final size:17
Alignment explanation
Indices: 33828973--33829021 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
33828963 CAAAGAAGAG
*
33828973 AAAAAGTACAAAATAAAT
1 AAAAAGTA-AAAACAAAT
*
33828991 AAAAAATAAAAAACAAAT
1 AAAAAGT-AAAAACAAAT
*
33829009 AAATAGTAAAAAC
1 AAAAAGTAAAAAC
33829022 CCACATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.23
18 19 0.73
19 1 0.04
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (17 bp):
AAAAAGTAAAAACAAAT
Found at i:33830787 original size:21 final size:20
Alignment explanation
Indices: 33830758--33830797 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
33830748 TTTCCTTTAA
*
33830758 ACATATTCTTATATTATATT
1 ACATATTCTTATAATATATT
33830778 ACATAATTCTTATAATATAT
1 ACAT-ATTCTTATAATATAT
33830798 CTTTTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
ACATATTCTTATAATATATT
Found at i:33831843 original size:130 final size:131
Alignment explanation
Indices: 33831692--33831938 Score: 397
Period size: 130 Copynumber: 1.9 Consensus size: 131
33831682 TGCGAGATTT
*
33831692 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGATTGCTCAAAA
* * * *
33831757 TAATCGAATATCACTTCAAAATTTCACTTATGTCTT-TTAAAATCCCTTAAACGAAGGTGATGTG
66 TAATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATCCCTTAAACGAAGGTGATGTG
33831821 C
131 C
* * *
33831822 GATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGATTGCTTAAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGATTGCTCAAAA
* *
33831887 TAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTTTAAA
66 TAATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATCCCTTAAA
33831939 ATGAAAGTAA
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
130 93 0.88
131 13 0.12
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (131 bp):
GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGATTGCTCAAAA
TAATCAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATCCCTTAAACGAAGGTGATGTG
C
Found at i:33843879 original size:132 final size:132
Alignment explanation
Indices: 33843666--33844096 Score: 691
Period size: 132 Copynumber: 3.3 Consensus size: 132
33843656 CGAATCCTAC
* * *
33843666 AGATCCTGTTTCCCTGAAGTTGCAATGAAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
1 AGATCCTGTTTCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGT
*
33843731 TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATT
66 TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATT
33843796 TT
131 TT
* * *
33843798 AGATCCTGTTTCCCTGAAGTTGCAGTGAAGCAGATCCAAGACGGTGAATCTTGGCTTCCTGAAGT
1 AGATCCTGTTTCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGT
* * * *
33843863 TGCAGTAAAGCAGATTTAAGCCATCAACCTAGCTCTCTAAAGTTGTAATGGAGTAGGCTGAAATT
66 TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATT
33843928 TT
131 TT
* * * *
33843930 AGATCCTGTTTCCCTAAAGTGGCAGTAAAGCAGATCGAAGACGGCGGATCTTGGCTTCTTGAAGT
1 AGATCCTGTTTCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGT
*
33843995 TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGAGGAGTAGGCTGAAATT
66 TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATT
33844060 TT
131 TT
* * *
33844062 AGATCCTATTTTCCTAAAGTCGCAGTGAAGCAGAT
1 AGATCCTGTTTCCCTAAAGTTGCAGTGAAGCAGAT
33844097 TTAAGCCACC
Statistics
Matches: 274, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 274 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATCCTGTTTCCCTAAAGTTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGT
TGCAGTGAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATT
TT
Found at i:33844491 original size:19 final size:19
Alignment explanation
Indices: 33844443--33844482 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33844433 GCAAAAGTAC
*
33844443 AAAATAAATAAAAAATAAA
1 AAAACAAATAAAAAATAAA
*
33844462 AAAACAAATAAATAATAAA
1 AAAACAAATAAAAAATAAA
33844481 AA
1 AA
33844483 CCCACATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAACAAATAAAAAATAAA
Found at i:33846261 original size:21 final size:20
Alignment explanation
Indices: 33846232--33846271 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
33846222 TTTCCTTTAA
*
33846232 ACATATTCTTATATTATATT
1 ACATATTCTTATAATATATT
33846252 ACATAATTCTTATAATATAT
1 ACAT-ATTCTTATAATATAT
33846272 CTTTTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
ACATATTCTTATAATATATT
Found at i:33846317 original size:14 final size:14
Alignment explanation
Indices: 33846298--33846328 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
33846288 ATGCAAGCGT
33846298 ATATACATTTATCG
1 ATATACATTTATCG
33846312 ATATACATTTATCG
1 ATATACATTTATCG
33846326 ATA
1 ATA
33846329 CCTACCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (14 bp):
ATATACATTTATCG
Found at i:33847332 original size:130 final size:132
Alignment explanation
Indices: 33847178--33847433 Score: 399
Period size: 130 Copynumber: 2.0 Consensus size: 132
33847168 ATGCGAGATT
*
33847178 TGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAA
1 TGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGATTGCTCAAA
* * * *
33847243 ATAATCAAATATCACTTCAAAATTTCACTTATGTC-TTTTAAAATCCCTT-AAACGAAGGTGATG
66 ATAATCAAATATCACTTCAAAATTTCACTAAGGTCATCTAAAAATCCCTTAAAACGAAGGTGATG
33847306 TG
131 TG
* * * *
33847308 TGATATTTGGCAATTTGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGATTGCTTAAA
1 TGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGATTGCTCAAA
* *
33847373 ATAATCAAATATCCCTTCAAAATTTCACTAAGGTCATCTAAAAATCCTTTAAAACGAAGGT
66 ATAATCAAATATCACTTCAAAATTTCACTAAGGTCATCTAAAAATCCCTTAAAACGAAGGT
33847434 AATACTCGGT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
130 92 0.81
131 11 0.10
132 10 0.09
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (132 bp):
TGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGATTGCTCAAA
ATAATCAAATATCACTTCAAAATTTCACTAAGGTCATCTAAAAATCCCTTAAAACGAAGGTGATG
TG
Found at i:33847515 original size:131 final size:130
Alignment explanation
Indices: 33847178--33847520 Score: 370
Period size: 130 Copynumber: 2.6 Consensus size: 130
33847168 ATGCGAGATT
** * *
33847178 TGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAA
1 TGATATTTAACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAA
* * * * * * *
33847243 ATAATCAAATATCACTTCAAAATTTCACTTATGTCTTTTAAAATCCCTTAAACGAAGGTGATGTG
66 ATAATCAAATATCCCTTCAAAATTTCACTAAGGTCTCTAAAAATCCCTTAAACGAAGGTAATCTG
** * * *
33847308 TGATATTTGGCAATTTGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGATTGCTT-AA
1 TGATATTTAACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTG-TTCAA
*
33847372 AATAATCAAATATCCCTTCAAAATTTCACTAAGGTCATCTAAAAATCCTTTAAAACGAAGGTAAT
65 AATAATCAAATATCCCTTCAAAATTTCACTAAGGTC-TCTAAAAATCCCTT-AAACGAAGGTAAT
33847437 ACTCG
128 -CT-G
* * * * * **
33847442 -G-TGTTTAATAATTCG-GGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAA
1 TGATATTTAACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAA
* * *
33847504 ACAATCGAATATTCCTT
66 ATAATCAAATATCCCTT
33847521 TAGGTTTTCA
Statistics
Matches: 180, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
130 92 0.51
131 64 0.36
132 21 0.12
133 2 0.01
134 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (130 bp):
TGATATTTAACAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAA
ATAATCAAATATCCCTTCAAAATTTCACTAAGGTCTCTAAAAATCCCTTAAACGAAGGTAATCTG
Found at i:33849394 original size:2 final size:2
Alignment explanation
Indices: 33849387--33849411 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33849377 ATTAAAATTT
33849387 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 T
33849412 TTCAACGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33854709 original size:18 final size:18
Alignment explanation
Indices: 33854650--33854709 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
33854640 AAAACTTTAC
* * *
33854650 AATAATGATTTAAAAAAA
1 AATAAAGATATAAAAATA
* *
33854668 AATAAA-ATTATCAAAGTA
1 AATAAAGA-TATAAAAATA
*
33854686 AGTAAAGATATAAAAATA
1 AATAAAGATATAAAAATA
33854704 AATAAA
1 AATAAA
33854710 CAAGAATTTA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
17 1 0.03
18 29 0.94
19 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (18 bp):
AATAAAGATATAAAAATA
Found at i:33855866 original size:2 final size:2
Alignment explanation
Indices: 33855859--33855887 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33855849 TTATGGACTT
33855859 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 T
33855888 TGTTATTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33856511 original size:89 final size:88
Alignment explanation
Indices: 33856191--33857081 Score: 898
Period size: 89 Copynumber: 10.2 Consensus size: 88
33856181 CAATTATAGC
* * * * * * * * * *
33856191 TTGATCTGCTCCATTGCAACTTCAAGGAGATAAGATCTGCTATCTTCAGTCTGTTACCTTACTGC
1 TTGATCTGCTCCACTACTACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTAC
* *
33856256 TTAGGGGGTTAAGGTTCACCGTCT
66 TTAGGGGGTTAAGGCTC-GCGTCT
* * *
33856280 TTGATCTGCTCCACTACTGC-TTA-GG-G---AGATCTGTAATCTTTAGCCTGTTACCCTACTAC
1 TTGATCTGCTCCACTACTACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTAC
* * *
33856339 TTAAGGGGTTAAGGCTTGCTTCT
66 TTAGGGGGTTAAGGCTCGCGTCT
* * ** *
33856362 TCGATTTGCTCCACTA-TTGTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTAC
1 TTGATCTGCTCCACTACTACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTAC
*
33856426 TTAAGGGGTTAAGGCTCGTCGTCT
66 TTAGGGGGTTAAGGCTCG-CGTCT
* * * * * *
33856450 TTGATCTGTTCTACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGACTATTACCCTACTAC
1 TTGATCTGCTCCACTACTACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTAC
*
33856515 TTAGGGGGTTAAGGTTCGCCGTCT
66 TTAGGGGGTTAAGGCTCG-CGTCT
* ** * *
33856539 TTAATCTATTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTAC
1 TTGATCTGCTCCACTACTACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTAC
* *
33856604 TTAGGGGGTTAAGGCTTGCTTCT
66 TTAGGGGGTTAAGGCTCGCGTCT
* * * * * *
33856627 TCGATCTACTCCACTACT-GTTTA-GG-GATAAGATCTGTAATCTTTAAG-CTGTTACCCTACTA
1 TTGATCTGCTCCACTACTACTTTAGGGAGACAAGATCTGCAATC-TTCAGCCTGTTACCCTACTA
* * *
33856688 CTTAGGGGGTTAAAGCTTGCTTCT
65 CTTAGGGGGTTAAGGCTCGCGTCT
* * * * *
33856712 TCGATTTTCTCCACTACTA-TTTAGGGAGACAAGATTTACAATCTTCAGCCTGTTACCCTACTAC
1 TTGATCTGCTCCACTACTACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTAC
33856776 TTAGGGGGTTAAGGCTCGCCGTCT
66 TTAGGGGGTTAAGGCTCG-CGTCT
* * * *
33856800 TTGATCTGTTCCACT-GTAACTTCAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTA
1 TTGATCTGCTCCACTACT-ACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTA
* * * *
33856864 CTTTGGGAGTTAAGGCTTGC-TTT
65 CTTAGGGGGTTAAGGCTCGCGTCT
*
33856887 TTCGATCTGCTCCACTACTA-TTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCTTACTA
1 TT-GATCTGCTCCACTACTACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTA
* * **
33856951 CTTAGGGGGTCAAGGTTCGTTTTCT
65 CTTAGGGGGTTAAGGCTCG-CGTCT
* ** * * *
33856976 TCGATCTGCTCCACTA-TTGTTTAGGGAGACAAGATCTACAATTTTCAGCCTGTTACCCTACTAT
1 TTGATCTGCTCCACTACTACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTAC
* * *
33857040 TTAGGAGGTTAAGGCTTGCTTTCT
66 TTAGGGGGTTAAGGCTCGC-GTCT
*
33857064 TCT-ATCTACTCCACTACT
1 T-TGATCTGCTCCACTACT
33857082 GTTTAAGGAT
Statistics
Matches: 671, Mismatches: 107, Indels: 48
0.81 0.13 0.06
Matches are distributed among these distances:
81 1 0.00
82 21 0.03
83 43 0.06
84 1 0.00
85 71 0.11
86 13 0.02
87 157 0.23
88 151 0.23
89 213 0.32
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (88 bp):
TTGATCTGCTCCACTACTACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTAC
TTAGGGGGTTAAGGCTCGCGTCT
Found at i:33856859 original size:350 final size:348
Alignment explanation
Indices: 33856194--33857086 Score: 1199
Period size: 350 Copynumber: 2.6 Consensus size: 348
33856184 TTATAGCTTG
* * * * * * * *
33856194 ATCTGCTCCATTGCAACTTCAAGGAGATAAGATCTGCTATCTTCAGTCTGTTACCTTACTGCTTA
1 ATCTACTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCTTACTACTTA
* * * *
33856259 GGGGGTTAAGGTTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGG--AGATCTGTAATCTTTA
66 GGGGGTTAAGGTTC-GCTTCTTCGATCTGCTCCACTACTGTTTAGGGAAAGATCTGTAATCTTTA
* * *
33856322 GCCTGTTACCCTACTACTTAAGGGGTTAAGGCTTGCTTCTTCGATTTGCTCCACTATTGTTTAGG
130 GCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGATTTACTCCACTACTGTTTAGG
*
33856387 GAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTCGTCGTCTTT
195 GAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTCGCCGTCTTT
*
33856452 GATCTGTTCTACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGACTATTACCCTACTACTT
260 GATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGACTATTACCCTACTACTT
*
33856517 AGGGGGTTAAGG-TTCGCCGTCTTT-A
325 AGGGAGTTAAGGCTT-G-C-TCTTTCA
* *
33856542 ATCTATTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTA
1 ATCTACTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCTTACTACTTA
*
33856607 GGGGGTTAAGGCTT-GCTTCTTCGATCTACTCCACTACTGTTTAGGGATAAGATCTGTAATCTTT
66 GGGGGTTAAGG-TTCGCTTCTTCGATCTGCTCCACTACTGTTTAGGGA-AAGATCTGTAATCTTT
* * *
33856671 AAG-CTGTTACCCTACTACTTAGGGGGTTAAAGCTTGCTTCTTCGATTTTCTCCACTACTATTTA
129 -AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGATTTACTCCACTACTGTTTA
* *
33856735 GGGAGACAAGATTTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCT
193 GGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTCGCCGTCT
** * * *
33856800 TTGATCTGTTCCACTGTAACTTCAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTAC
258 TTGATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGACTATTACCCTACTAC
* * *
33856865 TTTGGGAGTTAAGGCTTGCTTTTTCG
323 TTAGGGAGTTAAGGCTTGCTCTTTCA
* * *
33856891 ATCTGCTCCACTACTA-TTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCTTACTACTTA
1 ATCTACTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCTTACTACTTA
* * * **
33856955 GGGGGTCAAGGTTCGTTTTCTTCGATCTGCTCCACTATTGTTTAGGGAGACAAGATCTACAAT-T
66 GGGGGTTAAGGTTCG-CTTCTTCGATCTGCTCCACTACTGTTTA-GG-GA-AAGATCTGTAATCT
* * * *
33857019 TTCAGCCTGTTACCCTACTATTTAGGAGGTTAAGGCTTGCTTTCTTCTATCTACTCCACTACTGT
127 TT-AGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGC-TTCTTCGATTTACTCCACTACTGT
33857084 TTA
190 TTA
33857087 AGGATAAGAT
Statistics
Matches: 479, Mismatches: 53, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
347 29 0.06
348 128 0.27
349 40 0.08
350 212 0.44
351 47 0.10
352 23 0.05
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (348 bp):
ATCTACTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCTTACTACTTA
GGGGGTTAAGGTTCGCTTCTTCGATCTGCTCCACTACTGTTTAGGGAAAGATCTGTAATCTTTAG
CCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGATTTACTCCACTACTGTTTAGGG
AGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTCGCCGTCTTTG
ATCTGTTCCACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGACTATTACCCTACTACTTA
GGGAGTTAAGGCTTGCTCTTTCA
Found at i:33856918 original size:176 final size:175
Alignment explanation
Indices: 33856216--33857086 Score: 937
Period size: 176 Copynumber: 5.0 Consensus size: 175
33856206 GCAACTTCAA
* * * * * * * *
33856216 GGAGATAAGATCTGCTATCTTCAGTCTGTTACCTTACTGCTTAGGGGGTTAAGGTTCACCGTCTT
1 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTT
* *
33856281 TGATCTGCTCCACTACTGCTT-A-GG-G---AGATCTGTAATCTTT-AGCCTGTTACCCTACTAC
66 TGATCTGCTCCACTA-TACTTCAGGGAGACAAGATCTGCAAT-TTTCAGCCTGTTACCCTACTAC
* * * * *
33856339 TTAAGGG-GTTAAGGCTTGCTTCTTCGATTTGCTCCACTATTGTTTAG
129 TT-AGGGAGTTAAGGCTTGCTTTTTCGATCTACTCCACTACTATTTAG
* *
33856386 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTCGTCGTCTT
1 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTT
* * * * * *
33856451 TGATCTGTTCTACTACAACTTCAGGGAGACAAGATCTGCAATCTTCAGACTATTACCCTACTACT
66 TGATCTGCTCCACTA-TACTTCAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACT
* * * * * *
33856516 TAGGGGGTTAAGG-TTCGCCGTCTTT-AATCTATTCCACTGCAACTTTAG
130 TAGGGAGTTAAGGCTT-G-C-TTTTTCGATCTACTCCACTACTA-TTTAG
* * *
33856564 GGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG-CTTCTT
1 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTT
* * * * * * *
33856628 CGATCTACTCCACTACT-GTTTA-GG-GATAAGATCTGTAATCTTTAAG-CTGTTACCCTACTAC
66 TGATCTGCTCCACTA-TACTTCAGGGAGACAAGATCTGCAAT-TTTCAGCCTGTTACCCTACTAC
* * * * *
33856689 TTAGGGGGTTAAAGCTTGCTTCTTCGATTTTCTCCACTACTATTTAG
129 TTAGGGAGTTAAGGCTTGCTTTTTCGATCTACTCCACTACTATTTAG
*
33856736 GGAGACAAGATTTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTT
1 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTT
* *
33856801 TGATCTGTTCCACTGTAACTTCAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACT
66 TGATCTGCTCCACTAT-ACTTCAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACT
* *
33856866 TTGGGAGTTAAGGCTTGCTTTTTCGATCTGCTCCACTACTATTTAG
130 TAGGGAGTTAAGGCTTGCTTTTTCGATCTACTCCACTACTATTTAG
* * * * ***
33856912 GGAGACAAGATCTGCAATCTTCAGCCTGTTACCTTACTACTTAGGGGGTCAAGGTTCGTTTTCTT
1 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTT
* ** * * *
33856977 CGATCTGCTCCACTATTGTTTAGGGAGACAAGATCTACAATTTTCAGCCTGTTACCCTACTATTT
66 TGATCTGCTCCACTATACTTCAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACTT
* *
33857042 A-GGAGGTTAAGGCTTGCTTTCTTCTATCTACTCCACTACTGTTTA
131 AGGGA-GTTAAGGCTTGCTTT-TTCGATCTACTCCACTACTATTTA
33857087 AGGATAAGAT
Statistics
Matches: 586, Mismatches: 92, Indels: 40
0.82 0.13 0.06
Matches are distributed among these distances:
170 72 0.12
171 1 0.00
172 66 0.11
173 29 0.05
174 47 0.08
175 82 0.14
176 199 0.34
177 27 0.05
178 63 0.11
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (175 bp):
GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTT
TGATCTGCTCCACTATACTTCAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACTT
AGGGAGTTAAGGCTTGCTTTTTCGATCTACTCCACTACTATTTAG
Found at i:33857108 original size:261 final size:260
Alignment explanation
Indices: 33856216--33857081 Score: 979
Period size: 261 Copynumber: 3.3 Consensus size: 260
33856206 GCAACTTCAA
* * * * * * *
33856216 GGAGATAAGATCTGCTATCTTCAGTCTGTTACCTTACTGCTTAGGGGGTTAAGG-TTCACCGTCT
1 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTT-GCCGTCT
* ** *
33856280 TTGATCTGCTCCACTACTGCTTA-GG-G---AGATCTGTAATCTTT-AGCCTGTTACCCTACTAC
65 TTAATCTATTCCACTACT--TTAGGGAGACAAGATCTGCAAT-TTTCAGCCTGTTACCCTACTAC
* * *
33856339 TTAAGGGGTTAAGGCTTGCTTCTTCGATTTGCTCCACTATTGTTTAGGGAGACAAGATCTACAAT
127 TT-AGGGGTTAAGGCTTGCTTCTTCGATCTGCTCCACTACTGTTTAGGGAGACAAGATCTGCAAT
* * * * * * *
33856404 CTTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTCGTCGTCTTTGATCTGTTCTACTACA-
191 CTTCAGCCTGTTACCCTACTACTTAGGGGGTAAAGGTTCGTCTTCTTCGATCTGCTCCACTA-AT
*
33856468 ACTTCAG
255 A-TTTAG
* * *
33856475 GGAGACAAGATCTGCAATCTTCAGACTATTACCCTACTACTTAGGGGGTTAAGG-TTCGCCGTCT
1 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTT-GCCGTCT
*
33856539 TTAATCTATTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTAC
65 TTAATCTATTCCACT---ACTTTAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTAC
* * *
33856604 TTAGGGGGTTAAGGCTTGCTTCTTCGATCTACTCCACTACTGTTTA-GG-GATAAGATCTGTAAT
127 TTA-GGGGTTAAGGCTTGCTTCTTCGATCTGCTCCACTACTGTTTAGGGAGACAAGATCTGCAAT
* * * * *
33856667 CTTTAAG-CTGTTACCCTACTACTTAGGGGGTTAAAGCTT-G-CTTCTTCGATTTTCTCCACTAC
191 C-TTCAGCCTGTTACCCTACTACTTAGGGGG-TAAAGGTTCGTCTTCTTCGATCTGCTCCACTAA
33856729 TATTTAG
254 TATTTAG
* *
33856736 GGAGACAAGATTTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCGCCGTCTT
1 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCCGTCTT
* * *
33856801 TGATCTGTTCCACTGTAACTTCAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACT
66 TAATCTATTCCAC--T-ACTTTAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACT
* * *
33856866 TTGGGAGTTAAGGCTTGCTTTTTCGATCTGCTCCACTACTATTTAGGGAGACAAGATCTGCAATC
128 TAGGG-GTTAAGGCTTGCTTCTTCGATCTGCTCCACTACTGTTTAGGGAGACAAGATCTGCAATC
* * * * *
33856931 TTCAGCCTGTTACCTTACTACTTAGGGGGTCAAGGTTCGTTTTCTTCGATCTGCTCCACTATTGT
192 TTCAGCCTGTTACCCTACTACTTAGGGGGTAAAGGTTCGTCTTCTTCGATCTGCTCCACTAATAT
33856996 TTAG
257 TTAG
* * * **
33857000 GGAGACAAGATCTACAATTTTCAGCCTGTTACCCTACTATTTAGGAGGTTAAGGCTTGCTTTCTT
1 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCCGTCTT
*
33857065 CT-ATCTACTCCACTACT
66 -TAATCTATTCCACTACT
33857082 GTTTAAGGAT
Statistics
Matches: 520, Mismatches: 64, Indels: 44
0.83 0.10 0.07
Matches are distributed among these distances:
259 69 0.13
260 6 0.01
261 162 0.31
262 34 0.07
263 74 0.14
264 105 0.20
265 70 0.13
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (260 bp):
GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCCGTCTT
TAATCTATTCCACTACTTTAGGGAGACAAGATCTGCAATTTTCAGCCTGTTACCCTACTACTTAG
GGGTTAAGGCTTGCTTCTTCGATCTGCTCCACTACTGTTTAGGGAGACAAGATCTGCAATCTTCA
GCCTGTTACCCTACTACTTAGGGGGTAAAGGTTCGTCTTCTTCGATCTGCTCCACTAATATTTAG
Found at i:33857242 original size:22 final size:24
Alignment explanation
Indices: 33857217--33857261 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
33857207 AACTAGATAT
33857217 GATGCTTATG-TC-AAAT-AATTAG
1 GATGC-TATGATCGAAATGAATTAG
33857239 GATGCTATGATCGAAATGAATTA
1 GATGCTATGATCGAAATGAATTA
33857262 AATGCTCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
23 4 0.20
24 5 0.25
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (24 bp):
GATGCTATGATCGAAATGAATTAG
Found at i:33857343 original size:64 final size:64
Alignment explanation
Indices: 33857158--33857343 Score: 318
Period size: 64 Copynumber: 2.9 Consensus size: 64
33857148 ATGCCTATGT
* * * *
33857158 TTATGCCAAATGATTAGGATGCTATGATCAAAATGAATTAAATGCTCCTAACTAGATATGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGC
33857222 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGC
* *
33857286 TTATGTTAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATG
1 TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATG
33857344 CGTTATGAAT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 116 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (64 bp):
TTATGTCAAATAATTAGGATGCTATGATCGAAATGAATTAAATGCTCCTAACTAGATGTGATGC
Found at i:33857606 original size:4 final size:4
Alignment explanation
Indices: 33857597--33857623 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33857587 AGGGGAATAA
33857597 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
33857624 ATTATTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:33866204 original size:17 final size:17
Alignment explanation
Indices: 33866169--33866207 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
33866159 ATATATGTTC
*
33866169 TATTGTTGGAATTGAAT
1 TATTGTTGGAAATGAAT
33866186 TATTGTTGGAAAT-ATAT
1 TATTGTTGGAAATGA-AT
33866203 TATTG
1 TATTG
33866208 AATTTAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (17 bp):
TATTGTTGGAAATGAAT
Found at i:33866419 original size:21 final size:21
Alignment explanation
Indices: 33866393--33866475 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 21
33866383 CGGGTGGATT
*
33866393 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
33866414 AGCTCTCATGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
* * * * *
33866435 AACCCTTTTGAGGTCCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
33866456 AGCTCTTATGAGCTTCTGTT
1 AGCTCTTATGAGCTTCTGTT
33866476 GGCGTGTTCG
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.40
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:33868076 original size:120 final size:120
Alignment explanation
Indices: 33867863--33868105 Score: 441
Period size: 120 Copynumber: 2.0 Consensus size: 120
33867853 TGCATATAAG
* *
33867863 TTAGTTATACATATGACTATATTGAACACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTAAGGTGT
*
33867928 CTAAAGGCATATTGGTTGTATGTGAATATATTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
* *
33867983 TTAGTTATACATATGAATATATTGAATACATGAATACACATGTTATAAGTTGTCATCTAAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTAAGGTGT
33868048 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
33868103 TTA
1 TTA
33868106 TTTTGGATGT
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (120 bp):
TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTAAGGTGT
CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
Found at i:33869221 original size:120 final size:120
Alignment explanation
Indices: 33869008--33869249 Score: 466
Period size: 120 Copynumber: 2.0 Consensus size: 120
33868998 TGCATATAAG
*
33869008 TTAGTTATACATATGAATATATTGAACACATGAATATACATGTTATAAGCTGTCATCTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
33869073 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
*
33869128 TTAGTTATACATATGAATATATTGAATACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
33869193 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
33869248 TT
1 TT
33869250 GTTTTGGATG
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (120 bp):
TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
Found at i:33869229 original size:60 final size:60
Alignment explanation
Indices: 33869044--33869231 Score: 165
Period size: 60 Copynumber: 3.1 Consensus size: 60
33869034 CACATGAATA
33869044 TACATGTTATAAGCTGTCATCTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAATATAC
1 TACATGTTATAAGCTGTCATCTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAATATAC
* * * * ** * ** * *
33869104 TACATGTT-TAAAGAT-TGATTTTACTTAGT-TATA--CATA-TGAATATAT-TGAATACATGAA
1 TACATGTTAT-AAGCTGTCATCTGAGGT-GTCTAAAGGCATATTGGTTGTATGTGAAT--AT-AC
33869162 TACACATGTTATAAGCTGTCATCTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAATATAC
1 T--ACATGTTATAAGCTGTCATCTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAATATAC
33869224 TACATGTT
1 TACATGTT
33869232 TAAAGATTGA
Statistics
Matches: 92, Mismatches: 22, Indels: 28
0.65 0.15 0.20
Matches are distributed among these distances:
55 5 0.05
56 6 0.07
57 6 0.07
58 2 0.02
59 10 0.11
60 34 0.37
61 10 0.11
62 2 0.02
63 6 0.07
64 6 0.07
65 5 0.05
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (60 bp):
TACATGTTATAAGCTGTCATCTGAGGTGTCTAAAGGCATATTGGTTGTATGTGAATATAC
Found at i:33870366 original size:120 final size:120
Alignment explanation
Indices: 33870153--33870394 Score: 457
Period size: 120 Copynumber: 2.0 Consensus size: 120
33870143 TGCATATAAG
*
33870153 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTAAGGTGT
33870218 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
* *
33870273 TTAGTTATACATATGAATATATTGAATACATGAATACACATGTTATAAGTTGTCATCTAAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTAAGGTGT
33870338 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
33870393 TT
1 TT
33870395 GTTTTGGATG
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (120 bp):
TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTAAGGTGT
CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
Found at i:33871511 original size:120 final size:120
Alignment explanation
Indices: 33871298--33871539 Score: 475
Period size: 120 Copynumber: 2.0 Consensus size: 120
33871288 TGCATATAAG
33871298 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
33871363 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
*
33871418 TTAGTTATACATATGAATATATTGAATACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
1 TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
33871483 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
66 CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
33871538 TT
1 TT
33871540 GTTTTGGATG
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (120 bp):
TTAGTTATACATATGAATATATTGAACACATGAATACACATGTTATAAGCTGTCATCTGAGGTGT
CTAAAGGCATATTGGTTGTATGTGAATATACTACATGTTTAAAGATTGATTTTAC
Found at i:33879779 original size:3 final size:3
Alignment explanation
Indices: 33879765--33879794 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
33879755 GGTTTGTCAC
*
33879765 CAT CAC CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
33879795 TTAATCATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:33885638 original size:3 final size:3
Alignment explanation
Indices: 33885630--33885655 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33885620 AGATATTTCG
33885630 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
33885656 TGGCCTTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:33891863 original size:14 final size:14
Alignment explanation
Indices: 33891844--33891872 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33891834 ATATTTATCC
33891844 TGATAAATATTATA
1 TGATAAATATTATA
33891858 TGATAAATATTATA
1 TGATAAATATTATA
33891872 T
1 T
33891873 TAATTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TGATAAATATTATA
Found at i:33891999 original size:22 final size:20
Alignment explanation
Indices: 33891974--33892013 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33891964 TAAATTCAAA
33891974 AGAAAGTTGTAAAGATTATTCC
1 AGAAA-TTGTAAA-ATTATTCC
*
33891996 AGAAATTTTAAAATTATT
1 AGAAATTGTAAAATTATT
33892014 ATTTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (20 bp):
AGAAATTGTAAAATTATTCC
Found at i:33895177 original size:46 final size:44
Alignment explanation
Indices: 33895117--33895241 Score: 160
Period size: 46 Copynumber: 2.8 Consensus size: 44
33895107 ATTGAGACGA
* * * *
33895117 GTGCTAGTGTAAGACATGTCTGGGACATGCTTCGGCTTCGAGAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAG
33895161 GTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAG
1 GT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAG
* *
33895207 GTGTCAGTGTAAGACCATGTCTAGGACATGGCATC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
33895242 AACACAGATA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
44 13 0.18
45 13 0.18
46 45 0.63
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAG
Found at i:33897663 original size:49 final size:50
Alignment explanation
Indices: 33897533--33897673 Score: 187
Period size: 49 Copynumber: 2.8 Consensus size: 50
33897523 TCTATTGTGA
*
33897533 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCG-AAACTGT
* * * * *
33897584 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCG-GACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAACTG-T
*
33897633 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
33897674 AGATAGCTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
48 4 0.05
49 35 0.45
50 4 0.05
51 34 0.44
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (50 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAACTGT
Found at i:33900022 original size:40 final size:40
Alignment explanation
Indices: 33899906--33900122 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
33899896 AACCCAAGTA
* *
33899906 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
33899945 CCTTCGGGATTTAG-CAGGATATAGCT-ACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
33899984 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33900024 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
33900064 CCTTCGGGACTTAGCTCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33900104 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33900123 TTATCATCCG
Statistics
Matches: 166, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
39 51 0.31
40 115 0.69
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33909172 original size:46 final size:46
Alignment explanation
Indices: 33908997--33909217 Score: 186
Period size: 46 Copynumber: 4.8 Consensus size: 46
33908987 TCACTTGTTT
* * *
33908997 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGA
* * * * * *
33909043 GAGCCAGTGTAAGACCATGTCTGGGATATAGCATTGGCATTGGGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* * * *
33909091 GTGCTAGTGTAAGACTTGTTTGGGACATGCTTCGGCCTCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-A
*
33909138 -AGCTAGTGTAAGACATGTCTGGGACATTCATCGG-CTACGAGA-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
*
33909182 -TG-TCAGTGTAAGACCATGTCT-GGACATGGCATCGGC
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
33909218 ACCTGACCCT
Statistics
Matches: 140, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 17 0.12
45 16 0.11
46 59 0.42
47 25 0.18
48 22 0.16
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:33911566 original size:19 final size:18
Alignment explanation
Indices: 33911544--33911586 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
33911534 ACAAATTAAA
*
33911544 AAAATTCAAAATAATTTTT
1 AAAATTCAAAAT-ATTTAT
**
33911563 AAAATTTTAAATATTTAT
1 AAAATTCAAAATATTTAT
33911581 AAAATT
1 AAAATT
33911587 TATATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:33911583 original size:18 final size:19
Alignment explanation
Indices: 33911552--33911587 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33911542 AAAAAATTCA
*
33911552 AAATAATTTTTAAAATTTT
1 AAATAATTTATAAAATTTT
33911571 AAAT-ATTTATAAAATTT
1 AAATAATTTATAAAATTT
33911588 ATATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATAATTTATAAAATTTT
Found at i:33911631 original size:18 final size:18
Alignment explanation
Indices: 33911570--33911632 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 18
33911560 TTTAAAATTT
* *
33911570 TAAATATT-TATAAAATT
1 TAAATATTATAAAAAATC
* *
33911587 TATATTTTA-AAAAAATC
1 TAAATATTATAAAAAATC
*
33911604 ATAAA-GTTATAAAAAATC
1 -TAAATATTATAAAAAATC
33911622 TAAATATTATA
1 TAAATATTATA
33911633 TAAAGTTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
17 19 0.54
18 16 0.46
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAATATTATAAAAAATC
Found at i:33913433 original size:53 final size:53
Alignment explanation
Indices: 33913334--33913435 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 53
33913324 TGACTTTTTT
* * * * *
33913334 TTTCAATTTGGTACATGAGTTTGGCTTCAATGGTCACTTTGGTACCTGAATTA
1 TTTCAATTTGATACATGAGATTAGCTTCAATGGTCAATTTGATACCTGAATTA
* *
33913387 TTTCAATTTGATACTTGAGATTAGCTTCACA-GTTCAATTTGATACCTGA
1 TTTCAATTTGATACATGAGATTAGCTTCA-ATGGTCAATTTGATACCTGA
33913436 GTCTTTTTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 40 0.98
54 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (53 bp):
TTTCAATTTGATACATGAGATTAGCTTCAATGGTCAATTTGATACCTGAATTA
Found at i:33917583 original size:24 final size:24
Alignment explanation
Indices: 33917546--33917594 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
33917536 ATAAGCTTAC
* *
33917546 CGATTTACAGCTCGTAAGAGCATA
1 CGATTCACAACTCGTAAGAGCATA
*
33917570 CGATTCACAACTCGTATGAGCATA
1 CGATTCACAACTCGTAAGAGCATA
33917594 C
1 C
33917595 ATGTACATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (24 bp):
CGATTCACAACTCGTAAGAGCATA
Found at i:33925637 original size:26 final size:26
Alignment explanation
Indices: 33925581--33925642 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
33925571 TTTTAGTCTA
*
33925581 GTAAAATTTTGACGATTTTACTCCCG
1 GTAAAATTTTAACGATTTTACTCCCG
* * *
33925607 ATAAAATTTTAACGATTTTGC-CATCG
1 GTAAAATTTTAACGATTTTACTC-CCG
33925633 GTAAAATTTT
1 GTAAAATTTT
33925643 TAGAAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (26 bp):
GTAAAATTTTAACGATTTTACTCCCG
Found at i:33929157 original size:37 final size:37
Alignment explanation
Indices: 33929104--33929225 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
33929094 TTATTACGAA
*
33929104 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
33929141 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
33929178 GTCTTACCCGGTCATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
33929215 GTCTCACCCGG
1 GTCTTACCCGG
33929226 AACATTTTCC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:33929333 original size:49 final size:49
Alignment explanation
Indices: 33929280--33929634 Score: 554
Period size: 49 Copynumber: 7.1 Consensus size: 49
33929270 TTCACATTAG
*
33929280 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
33929329 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
33929378 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
33929427 CACATATACATACACTTTCACACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CAC--AT--ATACA---T---ACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
33929486 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
*
33929535 CACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
* *
33929584 CACATAT--ATACACTTTCACATTCATCACATTGGCCA-TACGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTA-GGCCTTAT
33929631 CACA
1 CACA
33929635 CATATATGTA
Statistics
Matches: 292, Mismatches: 3, Indels: 24
0.92 0.01 0.08
Matches are distributed among these distances:
46 2 0.01
47 40 0.14
49 193 0.66
51 2 0.01
52 1 0.00
53 5 0.02
55 5 0.02
56 1 0.00
57 2 0.01
59 41 0.14
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (49 bp):
CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
Found at i:33929430 original size:31 final size:31
Alignment explanation
Indices: 33929395--33929490 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 31
33929385 ACATACACTT
33929395 TCACATTCACCACATCGGCCATTAGGCCTTA
1 TCACATTCACCACATCGGCCATTAGGCCTTA
* * * **
33929426 TCACA-T-A-TACATAC--ACTTTCACACACTT-
1 TCACATTCACCACAT-CGGCCATT-AGGC-CTTA
33929454 TCACATTCACCACATCGGCCATTAGGCCTTA
1 TCACATTCACCACATCGGCCATTAGGCCTTA
33929485 TCACAT
1 TCACAT
33929491 ATACATACAC
Statistics
Matches: 46, Mismatches: 10, Indels: 18
0.62 0.14 0.24
Matches are distributed among these distances:
27 3 0.07
28 11 0.24
29 6 0.13
30 6 0.13
31 17 0.37
32 3 0.07
ACGTcount: A:0.29, C:0.34, G:0.08, T:0.28
Consensus pattern (31 bp):
TCACATTCACCACATCGGCCATTAGGCCTTA
Found at i:33929462 original size:108 final size:106
Alignment explanation
Indices: 33929280--33929634 Score: 523
Period size: 108 Copynumber: 3.5 Consensus size: 106
33929270 TTCACATTAG
*
33929280 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC--AT--ATACA--
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
33929339 -T-ACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
66 TTCACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
33929378 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
33929443 TTCACACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
66 TT--CACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
33929486 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
33929551 TTCACA--TT--CA-T---CACATCGGCCATTAGGCCTTAT
66 TTCACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
* *
33929584 CACATAT--ATACACTTTCACATTCATCACATTGGCCA-TACGGCCTTATCACA
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTA-GGCCTTATCACA
33929635 CATATATGTA
Statistics
Matches: 243, Mismatches: 3, Indels: 24
0.90 0.01 0.09
Matches are distributed among these distances:
95 2 0.01
96 39 0.16
98 80 0.33
100 2 0.01
101 1 0.00
102 7 0.03
104 2 0.01
105 1 0.00
106 4 0.02
108 105 0.43
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (106 bp):
CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACT
TTCACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
Found at i:33929484 original size:157 final size:155
Alignment explanation
Indices: 33929291--33929603 Score: 599
Period size: 157 Copynumber: 2.0 Consensus size: 155
33929281 ACATATATAT
33929291 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCAC
1 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCAC
33929356 CACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
66 CACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
33929421 CCTTATCACATATACATACACTTTCAC
131 CCTTATCACATAT--ATACACTTTCAC
33929448 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCAC
1 ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCAC
*
33929513 CACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGG
66 CACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
33929578 CCTTATCACATATATACACTTTCAC
131 CCTTATCACATATATACACTTTCAC
33929603 A
1 A
33929604 TTCATCACAT
Statistics
Matches: 155, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
155 13 0.08
157 142 0.92
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (155 bp):
ACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCAC
CACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGG
CCTTATCACATATATACACTTTCAC
Found at i:33931588 original size:49 final size:49
Alignment explanation
Indices: 33931526--33931698 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 49
33931516 TGTTGTGTAT
* * * *
33931526 CAGTGTAATACCTGTCCGAGACATGGCATCGACATCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
* * * *
33931575 CAGTGTAAGACCTGTCTGGGACACGGCATC-AGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGA-CATCGATAGATGAAAGC
* * * * **
33931624 CAGTGTAAGACATGTCTGGGACATGGCATCGACTTTG-TTG-TGTTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
33931671 CAGTGTAAGACCATGTCT-GGAGCATGGC
1 CAGTGTAAGACC-TGTCTGGGA-CATGGC
33931699 GTTGGCATCT
Statistics
Matches: 102, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
47 18 0.18
48 13 0.13
49 70 0.69
50 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
Found at i:33938151 original size:13 final size:13
Alignment explanation
Indices: 33938133--33938169 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
33938123 AGTAATTGAA
33938133 CACGGGCGTGTGC
1 CACGGGCGTGTGC
33938146 CACGGGCGTGTGC
1 CACGGGCGTGTGC
33938159 CACGGGCGTGT
1 CACGGGCGTGT
33938170 CCCTGTCGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.08, C:0.30, G:0.46, T:0.16
Consensus pattern (13 bp):
CACGGGCGTGTGC
Found at i:33939658 original size:40 final size:40
Alignment explanation
Indices: 33939609--33939816 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
33939599 TCTTCGGAAT
* *
33939609 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
33939648 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
33939688 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
33939728 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
33939768 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
33939808 TTAGCCCGG
1 TTAGCCCGG
33939817 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 5 0.03
40 136 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:33947754 original size:40 final size:40
Alignment explanation
Indices: 33947705--33947912 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
33947695 TCTTCGGAAT
* *
33947705 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
33947744 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * *
33947784 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
33947824 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
33947864 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
33947904 TTAGCCCGG
1 TTAGCCCGG
33947913 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 5 0.03
40 136 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:33953730 original size:55 final size:55
Alignment explanation
Indices: 33953663--33953775 Score: 145
Period size: 55 Copynumber: 2.1 Consensus size: 55
33953653 CGAGCCTGCC
* *
33953663 AAAACAACACGGGCGTGCGACACACCCGTGTGGAAGAACCGTGGGCGAACCTGTT
1 AAAACAACACGGGCGTGCGACACACCCGTATGGAACAACCGTGGGCGAACCTGTT
* ** ** * *
33953718 AAAACAGCACGGGCGTTTGACATGCCCGTATGGAACACCCGTGGTCGAACCTGTT
1 AAAACAACACGGGCGTGCGACACACCCGTATGGAACAACCGTGGGCGAACCTGTT
33953773 AAA
1 AAA
33953776 TTAACACAGA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.16
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCGACACACCCGTATGGAACAACCGTGGGCGAACCTGTT
Found at i:33954273 original size:25 final size:26
Alignment explanation
Indices: 33954236--33954294 Score: 102
Period size: 25 Copynumber: 2.3 Consensus size: 26
33954226 ATCAAACAAG
33954236 TTATCATCTTTCTCATGTTTAAAATC
1 TTATCATCTTTCTCATGTTTAAAATC
33954262 TTAT-ATCTTTCTCATGTTTAAAATC
1 TTATCATCTTTCTCATGTTTAAAATC
33954287 TTACTCAT
1 TTA-TCAT
33954295 TAAATGATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 24 0.77
26 5 0.16
27 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (26 bp):
TTATCATCTTTCTCATGTTTAAAATC
Found at i:33958981 original size:18 final size:18
Alignment explanation
Indices: 33958958--33958993 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33958948 TGCAATAAGC
33958958 ATTGTTAAATTTATGTTT
1 ATTGTTAAATTTATGTTT
33958976 ATTGTTAAATTTATGTTT
1 ATTGTTAAATTTATGTTT
33958994 CTAATGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (18 bp):
ATTGTTAAATTTATGTTT
Found at i:33959144 original size:28 final size:28
Alignment explanation
Indices: 33959110--33959174 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
33959100 TCAGTGTACG
* *
33959110 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
33959138 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
33959166 AAATATTGA
1 AAATATTGA
33959175 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:33959293 original size:39 final size:39
Alignment explanation
Indices: 33959247--33959545 Score: 417
Period size: 39 Copynumber: 7.7 Consensus size: 39
33959237 GACTTTATAA
*
33959247 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
33959286 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* **
33959325 TGGTGTTATATCTGGGCTAAGTCTTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
33959364 TGGTGTTATATCCGGGCTAAGTCCC-AAGGCATTCGTG-
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
33959401 TGGTGTTATATCCGGGCTGAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
33959440 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCCTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
33959479 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGCTTTGCGT--
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATT-CGTGC
*
33959518 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
33959546 CATGCTTTGT
Statistics
Matches: 237, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
37 23 0.10
38 24 0.10
39 165 0.70
40 23 0.10
41 2 0.01
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:33959527 original size:154 final size:155
Alignment explanation
Indices: 33959247--33959544 Score: 440
Period size: 154 Copynumber: 1.9 Consensus size: 155
33959237 GACTTTATAA
* * * *
33959247 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTGTTATATCCGGGCTAAGTCCTG
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCG
* ** *
33959312 AAGGCATTCATGCTGGTGTTATATCTGGGCTAAGTCTTGAAGGCATTCGTGCTGGTGTTATATCC
66 AAGGCATTCATGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGT-CTGGTATTATATCC
33959377 GGGC-T-AAGTCCCAAGGCATTCGTG
130 GGGCTTAAAGTCCCAAGGCATTCGTG
*
33959401 TGGTGTTATATCCGGGCTGAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCG
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCG
* * *
33959466 AAGGCATTCCTGCTGGTGTTATATCCGGGCTAAAGTCCCGCAGGCTTTGCGT-TGGTATTATATC
66 AAGGCATTCATGCTGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATT-CGTCTGGTATTATATC
33959530 CGGGCTTAAAGTCCC
129 CGGGCTTAAAGTCCC
33959545 GCATGCTTTG
Statistics
Matches: 128, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
154 105 0.82
155 13 0.10
156 10 0.08
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (155 bp):
TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCG
AAGGCATTCATGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTCTGGTATTATATCCG
GGCTTAAAGTCCCAAGGCATTCGTG
Found at i:33959559 original size:115 final size:115
Alignment explanation
Indices: 33959247--33959545 Score: 404
Period size: 115 Copynumber: 2.6 Consensus size: 115
33959237 GACTTTATAA
* * *
33959247 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTGTTATATCCGGGCTAAGTCCTG
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGC-TTTGCGTTGGTGTTATATCCGGGCTAAGTCCCG
* * ** *
33959312 AAGGCATTCATGCTGGTGTTATATCTGGGCTAAGTCTTGAAGGCATTCGTGC
65 AAGGCATTC-TGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCCTGC
* * *
33959364 TGGTGTTATATCCGGGCTAAGTCCC-AAGGCATT-CGTGTGGTGTTATATCCGGGCTGAGCCCCG
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCTTTGCGT-TGGTGTTATATCCGGGCTAAGTCCCG
33959427 AAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCCTGC
65 AAGGCATTC-TGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCCTGC
* *
33959479 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGCTTTGCGTTGGTATTATATCCGGGCTTAAAGTCC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCTTTGCGTTGGTGTTATATCCGGGC-T-AAGTCC
33959544 CG
63 CG
33959546 CATGCTTTGT
Statistics
Matches: 159, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
114 2 0.01
115 88 0.55
116 12 0.08
117 47 0.30
118 4 0.03
119 6 0.04
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (115 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCTTTGCGTTGGTGTTATATCCGGGCTAAGTCCCGA
AGGCATTCTGCTGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCCTGC
Found at i:33965709 original size:28 final size:28
Alignment explanation
Indices: 33965675--33965739 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
33965665 TCAGTGTACG
* *
33965675 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
33965703 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
33965731 AAATATTGA
1 AAATATTGA
33965740 ATGATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:33965856 original size:39 final size:39
Alignment explanation
Indices: 33965812--33966070 Score: 400
Period size: 39 Copynumber: 6.7 Consensus size: 39
33965802 GACTTTATAA
*
33965812 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
33965851 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
33965890 TGGTGTTATATCCGGGCTAAGT-CCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
33965928 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
33965967 TGGTATTATATCCGGGCTAAG-CCCGAAGGCATT-GTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
33966004 TGGTGTTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
33966043 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
33966071 CATGCTTTGT
Statistics
Matches: 206, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
37 21 0.10
38 53 0.26
39 122 0.59
40 10 0.05
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:33965940 original size:77 final size:77
Alignment explanation
Indices: 33965812--33966060 Score: 394
Period size: 77 Copynumber: 3.2 Consensus size: 77
33965802 GACTTTATAA
* * *
33965812 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTGTTATATCCGGGCTAAGTCCTG
1 TGGTATTATATCCGGGCTAAGT-CCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCG
*
33965877 AAGGCATTCATGC
65 AAGGCATTCGTGC
*
33965890 TGGTGTTATATCCGGGCTAAGTCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
1 TGGTATTATATCCGGGCTAAGTCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
33965955 AGGCATTCGTGC
66 AGGCATTCGTGC
*
33965967 TGGTATTATATCCGGGCTAAGCCCGAAGGCATT-GTGCTGGTGTTATATCCGGGCTAAAGTCCCG
1 TGGTATTATATCCGGGCTAAGTCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCT-AAGTCCCG
* *
33966031 TAGGC-TTTGTGC
65 AAGGCATTCGTGC
33966043 TGGTATTATATCCGGGCT
1 TGGTATTATATCCGGGCT
33966061 TAAAGTCCCG
Statistics
Matches: 163, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
76 46 0.28
77 95 0.58
78 22 0.13
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (77 bp):
TGGTATTATATCCGGGCTAAGTCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
AGGCATTCGTGC
Found at i:33970737 original size:16 final size:16
Alignment explanation
Indices: 33970716--33970752 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
33970706 GAGTAACAGT
33970716 ATCTATAGTTTTCAAA
1 ATCTATAGTTTTCAAA
33970732 ATCTATAGTTTTCAAA
1 ATCTATAGTTTTCAAA
*
33970748 GTCTA
1 ATCTA
33970753 AGGTATACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (16 bp):
ATCTATAGTTTTCAAA
Found at i:33974347 original size:28 final size:28
Alignment explanation
Indices: 33974300--33974396 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
33974290 ATTTAAACCC
*
33974300 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
33974327 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
33974355 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
33974383 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
33974397 TGATCTACGC
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 9 0.14
28 56 0.86
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:33975047 original size:27 final size:27
Alignment explanation
Indices: 33975017--33975184 Score: 146
Period size: 27 Copynumber: 6.2 Consensus size: 27
33975007 GGGCAAAATG
**
33975017 GTAATTTTACCCCACAAGGGTATTTTA
1 GTAATTTTACCAAACAAGGGTATTTTA
** *
33975044 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCAAACAAGGGTATTTTA
* * *
33975071 GTAATTTT-TCAAACCATGGGTATTTTG
1 GTAATTTTACCAAA-CAAGGGTATTTTA
*
33975098 GTAATTTTA-TAAACAAAGGGTATTTTA
1 GTAATTTTACCAAAC-AAGGGTATTTTA
* *
33975125 GTAATTTTA-CAAACCAGGGGTATTTTG
1 GTAATTTTACCAAA-CAAGGGTATTTTA
* * *
33975152 GTGATTTTA-TAAACCAAGGGTATTTTG
1 GTAATTTTACCAAA-CAAGGGTATTTTA
33975179 GTAATT
1 GTAATT
33975185 CTGTAAATTG
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
26 3 0.03
27 116 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCAAACAAGGGTATTTTA
Found at i:33975092 original size:54 final size:54
Alignment explanation
Indices: 33975034--33975184 Score: 187
Period size: 54 Copynumber: 2.8 Consensus size: 54
33975024 TACCCCACAA
* ** * * *
33975034 GGGTATTTTAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTTGGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
*
33975088 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* * * *
33975142 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATT
33975185 CTGTAAATTG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 2 0.02
54 84 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:33975150 original size:81 final size:81
Alignment explanation
Indices: 33975032--33975184 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 81
33975022 TTTACCCCAC
** *
33975032 AAGGGTATTTTAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTTAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
33975096 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* *
33975113 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTTAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
33975177 TGGTAATT
65 TGGTAATT
33975185 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 2 0.03
81 62 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTTAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:33975191 original size:27 final size:27
Alignment explanation
Indices: 33975061--33975184 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
33975051 TACCCTACAG
* *
33975061 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
33975088 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
33975115 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
33975142 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
33975169 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
33975185 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:33975200 original size:54 final size:54
Alignment explanation
Indices: 33975061--33975184 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
33975051 TACCCTACAG
* *
33975061 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
33975115 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
33975169 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
33975185 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:33975210 original size:27 final size:27
Alignment explanation
Indices: 33975179--33975273 Score: 129
Period size: 27 Copynumber: 3.5 Consensus size: 27
33975169 GGGTATTTTG
*
33975179 GTAATTCTGTAAATT-GAGGGTAAAACA
1 GTAATTATGTAAATTAG-GGGTAAAACA
* * *
33975206 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATTAGGGGTAAAACA
33975233 GTAATTATGTAAATTAGGGGTAAAACA
1 GTAATTATGTAAATTAGGGGTAAAACA
*
33975260 GTAATTCTGTAAAT
1 GTAATTATGTAAAT
33975274 CGGGGGTACT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTATGTAAATTAGGGGTAAAACA
Found at i:33975211 original size:81 final size:81
Alignment explanation
Indices: 33975058--33975211 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
33975048 TTTTACCCTA
* * ***
33975058 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
* *
33975123 TAGTAATTTTACAAAC
66 CAATAATTTTACAAAC
* * * ***
33975139 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
33975203 ACAATAATT
65 ACAATAATT
33975212 ATGTAAATCA
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAATAATTTTACAAAC
Found at i:33975227 original size:54 final size:54
Alignment explanation
Indices: 33975169--33975292 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
33975159 TATAAACCAA
* *
33975169 GGGTATTTTGGTAATTCTGTAAATT-GAGGGTAAAACAATAATTATGTAAATCAG
1 GGGTAATTTGGTAATTATGTAAATTAG-GGGTAAAACAATAATTATGTAAATCAG
*** * * *
33975223 GGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACAGTAATTCTGTAAATCGG
1 GGGTAATTTGGTAATTATGTAAATTAGGGGTAAAACAATAATTATGTAAATCAG
*
33975277 GGGTACTTTGGTAATT
1 GGGTAATTTGGTAATT
33975293 TTACAAGTCG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.33
Consensus pattern (54 bp):
GGGTAATTTGGTAATTATGTAAATTAGGGGTAAAACAATAATTATGTAAATCAG
Found at i:33975308 original size:27 final size:27
Alignment explanation
Indices: 33975278--33975344 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
33975268 GTAAATCGGG
* *
33975278 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAAATTTACAAATCGAA
*
33975305 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAAATTTACAAATCGAA
*
33975332 GGTATTTCAGTAA
1 GGTATTTCGGTAA
33975345 TTGGTAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAAATTTACAAATCGAA
Found at i:33977568 original size:37 final size:37
Alignment explanation
Indices: 33977520--33977649 Score: 181
Period size: 37 Copynumber: 3.5 Consensus size: 37
33977510 CGAAACATGG
* **
33977520 CAAACGCTCATAAGAGCTAATCCAACCA-ATAACGTGC
1 CAAATGCTCATAAGAGCTAATCCAACCATA-AACACGC
*
33977557 CAAATGCTCATAAGATCTAATCCAACCATAAACACGC
1 CAAATGCTCATAAGAGCTAATCCAACCATAAACACGC
* *
33977594 TAAATGCTCATAAGAGCTAATCCAACCGTAAACACGC
1 CAAATGCTCATAAGAGCTAATCCAACCATAAACACGC
*
33977631 CAAATGCTTATAAGAGCTA
1 CAAATGCTCATAAGAGCTA
33977650 TACATTCGCC
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
37 82 0.99
38 1 0.01
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.19
Consensus pattern (37 bp):
CAAATGCTCATAAGAGCTAATCCAACCATAAACACGC
Found at i:33977738 original size:2 final size:2
Alignment explanation
Indices: 33977731--33977766 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
33977721 GCATACTTGG
33977731 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
33977767 GCACATCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33980316 original size:50 final size:50
Alignment explanation
Indices: 33980241--33980338 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 50
33980231 TGTTATGCAT
* *
33980241 AATTTATAAATTGAGTTTAAGAAGGGTAAGTTTATGTTTGAGTTAATATG
1 AATTTATAAATTAAGTTTAAGAAGGGTAAGTTTATGTTTAAGTTAATATG
33980291 AATTTATAAATTAAGTTTAAGAAGGGTAAGTTTATGTTTAAGTTAATA
1 AATTTATAAATTAAGTTTAAGAAGGGTAAGTTTATGTTTAAGTTAATA
33980339 CGAACTTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (50 bp):
AATTTATAAATTAAGTTTAAGAAGGGTAAGTTTATGTTTAAGTTAATATG
Found at i:33982363 original size:5 final size:5
Alignment explanation
Indices: 33982353--33982377 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33982343 GGTTTTTATA
33982353 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
33982378 TCAGGAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:33985051 original size:39 final size:39
Alignment explanation
Indices: 33984920--33985110 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
33984910 GGATATAACG
* ** **
33984920 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
33984960 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
33985000 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
33985038 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
33985078 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
33985111 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:33985055 original size:78 final size:80
Alignment explanation
Indices: 33984960--33985110 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
33984950 GGTTATAGCG
* * * *
33984960 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
33985022 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
33985038 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
33985103 AGCCCGGA
66 AGCCCGGA
33985111 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:33993089 original size:40 final size:39
Alignment explanation
Indices: 33992929--33993091 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
33992919 TGTGTATGAA
*
33992929 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
33992968 TGTGCGAGTTGTGATGTCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
33993007 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
33993046 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
33993086 TGTGCG
1 TGTGCG
33993092 GGTTACCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:33993107 original size:40 final size:40
Alignment explanation
Indices: 33992946--33993127 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 40
33992936 ATTGTGATAT
* *** **
33992946 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** *
33992985 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
33993024 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
33993063 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
33993103 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33993128 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 80 0.64
40 45 0.36
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:33996200 original size:39 final size:39
Alignment explanation
Indices: 33996069--33996259 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
33996059 GGATATAACG
* ** **
33996069 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
33996109 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
33996149 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
33996187 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
33996227 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
33996260 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:33996204 original size:78 final size:80
Alignment explanation
Indices: 33996109--33996259 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
33996099 GGTTATAGCG
* * * *
33996109 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
33996171 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
33996187 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
33996252 AGCCCGGA
66 AGCCCGGA
33996260 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:33999003 original size:27 final size:25
Alignment explanation
Indices: 33998967--33999031 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
33998957 ATGAGAGTAC
*
33998967 ATAATCAGGAAGCACCCTCTCGAGCCAT
1 ATAA-CAGGAAGC-CCATCT-GAGCCAT
* *
33998995 ATAACAGGAAGCTCATGTGAGCCAT
1 ATAACAGGAAGCCCATCTGAGCCAT
*
33999020 GTAACAGGAAGC
1 ATAACAGGAAGC
33999032 TTATCAGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 18 0.55
26 3 0.09
27 8 0.24
28 4 0.12
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (25 bp):
ATAACAGGAAGCCCATCTGAGCCAT
Found at i:34002023 original size:2 final size:2
Alignment explanation
Indices: 34002016--34002043 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34002006 TACTTTTGTT
34002016 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
34002044 AAGATTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34002689 original size:16 final size:15
Alignment explanation
Indices: 34002668--34002716 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
34002658 TTGAACTTTA
34002668 TATTTTATATATTATT
1 TATTTTATAT-TTATT
*
34002684 TATTTTTATTTTTATT
1 TA-TTTTATATTTATT
*
34002700 TATCTTATGATTTATT
1 TATTTTAT-ATTTATT
34002716 T
1 T
34002717 CAAATTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 5 0.18
16 16 0.57
17 7 0.25
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
TATTTTATATTTATT
Found at i:34004237 original size:46 final size:46
Alignment explanation
Indices: 34004171--34004304 Score: 171
Period size: 46 Copynumber: 2.9 Consensus size: 46
34004161 TATATTCTTA
* * **
34004171 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAC-AT
* * *
34004218 -GCTGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATAACGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAACAT
* *
34004263 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCACATA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA
34004305 CCACCCAATG
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
45 1 0.01
46 74 0.99
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAACAT
Found at i:34007773 original size:40 final size:40
Alignment explanation
Indices: 34007676--34007897 Score: 137
Period size: 40 Copynumber: 5.6 Consensus size: 40
34007666 GAATCACGTA
* *
34007676 CCTTCGGGAT-TTAA-CCGGATATAGTGACTCGCTCGATTG
1 CCTTCGGG-TCTTAACCCGGATATAGTGACTCACACGATTG
* * * * * *
34007715 TCTTCGGGACCTAGCCCGGTTATAGTGATTCACACGATTG
1 CCTTCGGGTCTTAACCCGGATATAGTGACTCACACGATTG
* * * ** * **
34007755 CCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAAGG
1 CCTTCGGGTCTTAACCCGGATATAGTGACTCACACGATTG
* * * *
34007795 CCTTCGGGTCTTAGCCCGGATATA-TCAACTCGCACGAATG
1 CCTTCGGGTCTTAACCCGGATATAGT-GACTCACACGATTG
* * * * **
34007835 CCTTCGGGTCTTAGCCCGGATGTAATTACT-AGCATAATTG
1 CCTTCGGGTCTTAACCCGGATATAGTGACTCA-CACGATTG
* *
34007875 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAACCCGGATAT
34007898 CATTCCAATG
Statistics
Matches: 142, Mismatches: 36, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
39 10 0.07
40 131 0.92
41 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAGTGACTCACACGATTG
Found at i:34007878 original size:80 final size:80
Alignment explanation
Indices: 34007716--34007897 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
34007706 GCTCGATTGT
* * * * * * * **
34007716 CTTCGGGACCTAGCCCGGTTATAGT-GATTCACACGATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CTTCGGGACTTAGCCCGGATATA-TCAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAA
*
34007780 TAACTTGCACAAAGGC
65 TAACTAGCACAAAGGC
* *
34007796 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAAT
1 CTTCGGGACTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAAT
* * **
34007861 TACTAGCATAATTGC
66 AACTAGCACAAAGGC
34007876 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
34007898 CATTCCAATG
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
79 1 0.01
80 83 0.99
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAAT
AACTAGCACAAAGGC
Found at i:34015079 original size:39 final size:39
Alignment explanation
Indices: 34015032--34015214 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
34015022 AATGTTCGAG
34015032 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
34015071 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
34015110 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
34015149 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
34015189 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
34015215 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:34022511 original size:39 final size:39
Alignment explanation
Indices: 34022464--34022646 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
34022454 AATGTTCGAG
34022464 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
34022503 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
34022542 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
34022581 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
34022621 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
34022647 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:34024877 original size:27 final size:26
Alignment explanation
Indices: 34024842--34024953 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
34024832 AGCATGGCTG
* *
34024842 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
34024868 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
34024896 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
34024923 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
34024950 CCAG
1 CCAG
34024954 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:34024934 original size:54 final size:54
Alignment explanation
Indices: 34024842--34024953 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
34024832 AGCATGGCTG
* *
34024842 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
34024896 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
34024950 CCAG
1 CCAG
34024954 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:34026384 original size:24 final size:24
Alignment explanation
Indices: 34026357--34026403 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
34026347 CTAGATTTCC
**
34026357 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34026381 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
34026404 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:34032682 original size:27 final size:27
Alignment explanation
Indices: 34032651--34032755 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
34032641 CTGCCAGAAT
* *
34032651 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
*
34032678 AGATAATCGTGGCAGAGCCACCAGA-AT
1 AGATAAT-GTGGCAGAGCCACCAGATAC
* *
34032705 AGAAATATGTGGTAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
34032732 AGATAATTGTGGCATAGCCACCAG
1 AGATAA-TGTGGCAGAGCCACCAG
34032756 GACGCTTCCT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 1 0.02
27 47 0.72
28 17 0.26
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:34032735 original size:54 final size:54
Alignment explanation
Indices: 34032644--34032755 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
34032634 AGCATGGCTG
* *
34032644 CCAGAATAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAATAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
** * *
34032698 CCAGAATAGAAATATGTGGTAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAATAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
34032752 CCAG
1 CCAG
34032756 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAATAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:34034688 original size:47 final size:47
Alignment explanation
Indices: 34034614--34034747 Score: 137
Period size: 47 Copynumber: 2.9 Consensus size: 47
34034604 AACATAGGGT
* * * *
34034614 ATAATGCCAATGCCATGTCCCAAACATGTCTTACACTAGCTCTCGT-
1 ATAATGCCGATGCCATGTCCTAGACATGTCTTACACTAGCTCTCATA
* * * *
34034660 CTCAATGCCGATGCCATGTGCTAGACATGGTCTAACACTGGCTCTCATA
1 AT-AATGCCGATGCCATGTCCTAGACAT-GTCTTACACTAGCTCTCATA
** *
34034709 ATGTTGCTGATG-CATGTCCTAGACATGTCTTACACTAGC
1 ATAATGCCGATGCCATGTCCTAGACATGTCTTACACTAGC
34034748 ACACAAATAA
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
46 12 0.17
47 34 0.49
48 23 0.33
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
ATAATGCCGATGCCATGTCCTAGACATGTCTTACACTAGCTCTCATA
Found at i:34040896 original size:13 final size:13
Alignment explanation
Indices: 34040878--34040903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34040868 CTCGGCAGGA
34040878 ACACGCCCGTGTG
1 ACACGCCCGTGTG
34040891 ACACGCCCGTGTG
1 ACACGCCCGTGTG
34040904 CGATTTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:34045316 original size:44 final size:45
Alignment explanation
Indices: 34045253--34045342 Score: 173
Period size: 44 Copynumber: 2.0 Consensus size: 45
34045243 TGTACCTGAG
34045253 TAGAACCACACAAACCGTCAATC-TTTTTATTTAAGAGTTCTACT
1 TAGAACCACACAAACCGTCAATCTTTTTTATTTAAGAGTTCTACT
34045297 TAGAACCACACAAACCGTCAATCTTTTTTATTTAAGAGTTCTACT
1 TAGAACCACACAAACCGTCAATCTTTTTTATTTAAGAGTTCTACT
34045342 T
1 T
34045343 GGTTAGATAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 23 0.51
45 22 0.49
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (45 bp):
TAGAACCACACAAACCGTCAATCTTTTTTATTTAAGAGTTCTACT
Found at i:34047939 original size:14 final size:14
Alignment explanation
Indices: 34047920--34047951 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
34047910 TTTGCTGAGT
34047920 CTCACAAACTCACG
1 CTCACAAACTCACG
34047934 CTCACAAACTCACG
1 CTCACAAACTCACG
34047948 CTCA
1 CTCA
34047952 TACTCTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.44, G:0.06, T:0.16
Consensus pattern (14 bp):
CTCACAAACTCACG
Found at i:34049707 original size:46 final size:45
Alignment explanation
Indices: 34049655--34049870 Score: 188
Period size: 46 Copynumber: 4.7 Consensus size: 45
34049645 ATTAACACAT
* *
34049655 CTGATGCCATGTCCTAAACATGGTCTTACACTGAC-ACATCTCGTA-G
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTCG-AGG
*
34049701 CTGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGG
1 CTGATGCATGTCCCAGACATGTCTTACACTGAC-TACATCTCGAGG
* * * * *
34049747 CTGATGTATGTCCCAGACATGTCTTATACT-AGCTGTCATCTCAATG
1 CTGATGCATGTCCCAGACATGTCTTACACTGA-CT-ACATCTCGAGG
* * * * *
34049793 CTGATCCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGG
1 CTGAT-GCATGTCCCAGACAT-GTCTTACACTGACT-ACAT-CTCGAGG
*
34049841 CCGATGCATGTCCCAGACATGTCTTACACT
1 CTGATGCATGTCCCAGACATGTCTTACACT
34049871 AGCACACAAA
Statistics
Matches: 141, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 67 0.48
47 27 0.19
48 20 0.14
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (45 bp):
CTGATGCATGTCCCAGACATGTCTTACACTGACTACATCTCGAGG
Found at i:34072338 original size:21 final size:22
Alignment explanation
Indices: 34072314--34072370 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 22
34072304 TATATAATTT
34072314 TTTGGAAAATTATTTAATAT-G
1 TTTGGAAAATTATTTAATATGG
*
34072335 TTTGTGTAAA-TATTT-ATATGG
1 TTTG-GAAAATTATTTAATATGG
*
34072356 TTT--AAAATGATTTAA
1 TTTGGAAAATTATTTAA
34072371 ACCTATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
18 3 0.10
19 4 0.14
20 5 0.17
21 13 0.45
22 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (22 bp):
TTTGGAAAATTATTTAATATGG
Found at i:34074103 original size:161 final size:162
Alignment explanation
Indices: 34073836--34074161 Score: 564
Period size: 161 Copynumber: 2.0 Consensus size: 162
34073826 TGATATTGGT
34073836 GGTATTGCCATTAAAGACGAAACCTCAAACTGCAGCGATAATAGCAAGAATGGTGGTTTTCCCTG
1 GGTATTGCCATTAAAGACGAAACCTCAAACTGCAGCGATAATAGCAAGAATGGTGGTTTTCCCTG
* * *
34073901 GAAAGATAAACATCCAAATAATGCCACATTTGTAGATCAGGCTACTGTTGGTTCTTTGACTTTCA
66 GAAAGATAAACATACAAATAATGCCACATTTGTACATCAGGCTACCGTTGGTTCTTTGACTTTCA
34073966 ATGTTATTGATGCTTCATGTTTGAAATCATCA
131 ATGTTATTGATGCTTCATGTTTGAAATCATCA
* * *
34073998 GGTATTGCCATTAAAGAC-AATCCTCAAACTGCAGCGATAGTAGTAAGAATGGTGGTTTTCCCTG
1 GGTATTGCCATTAAAGACGAAACCTCAAACTGCAGCGATAATAGCAAGAATGGTGGTTTTCCCTG
** *
34074062 GAAAGATAAACATACAAATAATGTTACCTTTGTACATCAGGCTACCGTTGGTTCTTTGACTTTCA
66 GAAAGATAAACATACAAATAATGCCACATTTGTACATCAGGCTACCGTTGGTTCTTTGACTTTCA
34074127 ATGTTATTGATGCTTCATGTTTGAAATCATCA
131 ATGTTATTGATGCTTCATGTTTGAAATCATCA
34074159 GGT
1 GGT
34074162 GAATCATCAA
Statistics
Matches: 155, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
161 137 0.88
162 18 0.12
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (162 bp):
GGTATTGCCATTAAAGACGAAACCTCAAACTGCAGCGATAATAGCAAGAATGGTGGTTTTCCCTG
GAAAGATAAACATACAAATAATGCCACATTTGTACATCAGGCTACCGTTGGTTCTTTGACTTTCA
ATGTTATTGATGCTTCATGTTTGAAATCATCA
Found at i:34076219 original size:17 final size:18
Alignment explanation
Indices: 34076188--34076222 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34076178 TGTTCTTTAT
34076188 TGCTTATGGCGCCAAAAG
1 TGCTTATGGCGCCAAAAG
*
34076206 TGCTT-TGGCTCCAAAAG
1 TGCTTATGGCGCCAAAAG
34076223 CACTTTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (18 bp):
TGCTTATGGCGCCAAAAG
Found at i:34079158 original size:11 final size:11
Alignment explanation
Indices: 34079142--34079168 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34079132 GTAAGGTTTC
34079142 TTTTCACACGA
1 TTTTCACACGA
34079153 TTTTCACACGA
1 TTTTCACACGA
34079164 TTTTC
1 TTTTC
34079169 GTTGGTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.44
Consensus pattern (11 bp):
TTTTCACACGA
Found at i:34080316 original size:22 final size:22
Alignment explanation
Indices: 34080272--34080316 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34080262 AAACCACAAG
* **
34080272 GAAAAATAAAAGCATTAGTAAA
1 GAAAAATAAAAGCAATAAAAAA
*
34080294 GAAAAATAAAAGTAATAAAAAA
1 GAAAAATAAAAGCAATAAAAAA
34080316 G
1 G
34080317 TTAAAATTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.69, C:0.02, G:0.13, T:0.16
Consensus pattern (22 bp):
GAAAAATAAAAGCAATAAAAAA
Found at i:34081573 original size:29 final size:30
Alignment explanation
Indices: 34081540--34081609 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
34081530 TTATGACGAT
*
34081540 AAATGAAATCTAACTGGTAACCCATGAGA-
1 AAATGAAATCTAACTGGAAACCCATGAGAG
* * *
34081569 AAATGAAATTTGACTGGAAACCTATGAGAG
1 AAATGAAATCTAACTGGAAACCCATGAGAG
34081599 AAAT-AAA-CTAA
1 AAATGAAATCTAA
34081610 AAGAATGGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 2 0.06
29 28 0.82
30 4 0.12
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AAATGAAATCTAACTGGAAACCCATGAGAG
Found at i:34082693 original size:53 final size:54
Alignment explanation
Indices: 34082601--34082767 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 54
34082591 TGGTCATGGC
* * * *
34082601 AAGAAGACTATATATTGTAAGACCTAGTCTGGGATTATGGCATCATATGGGGAT
1 AAGAAGACCATATAGTGTAAGACCTAGTTTGGGATTATGGCATCATATGGGGAA
* ** *
34082655 GA-AAGACCATATAGTGTAAGACCTAGTTTGGGGCTATGGCATCATATAGGGAA
1 AAGAAGACCATATAGTGTAAGACCTAGTTTGGGATTATGGCATCATATGGGGAA
* * *
34082708 AAGAAGACCACATAGTGTAAGACCTAGTTTGGGATTATGGCGTCATGTGGGG-A
1 AAGAAGACCATATAGTGTAAGACCTAGTTTGGGATTATGGCATCATATGGGGAA
34082761 AAGAAGA
1 AAGAAGA
34082768 TAAATGACAA
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
53 53 0.55
54 44 0.45
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (54 bp):
AAGAAGACCATATAGTGTAAGACCTAGTTTGGGATTATGGCATCATATGGGGAA
Found at i:34085321 original size:20 final size:18
Alignment explanation
Indices: 34085274--34085322 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
34085264 CAATATAAAC
34085274 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
34085291 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
34085311 ATTAAATTAATA
1 ATTAAATTAATA
34085323 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:34088078 original size:28 final size:28
Alignment explanation
Indices: 34088009--34088109 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
34087999 GACAAGATTG
* * * *
34088009 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
34088039 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34088067 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
34088096 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34088110 GATCACTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34096035 original size:28 final size:28
Alignment explanation
Indices: 34095966--34096066 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
34095956 GACAAGATTG
* * * *
34095966 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
34095996 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34096024 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
34096053 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34096067 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34104799 original size:40 final size:39
Alignment explanation
Indices: 34104634--34104817 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
34104624 AAATTGAATG
* * *
34104634 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
34104674 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
34104714 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
34104754 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
34104793 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
34104818 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:34104842 original size:80 final size:81
Alignment explanation
Indices: 34104674--34104862 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
34104664 GCTGGAAATT
* * * *
34104674 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
34104739 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
34104755 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
34104818 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
34104834 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
34104863 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:34112920 original size:40 final size:39
Alignment explanation
Indices: 34112755--34112938 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
34112745 AAATTGAATG
* * *
34112755 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
34112795 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
34112835 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
34112875 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
34112914 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
34112939 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Done.