Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 22 of 145
Found at i:8466400 original size:178 final size:177
Alignment explanation
Indices: 8465864--8466755 Score: 832
Period size: 178 Copynumber: 5.0 Consensus size: 177
8465854 GTATGGGCAA
* * * * * *
8465864 ACAAGATCTGTTCTCTTTTATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCGAT
1 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGAT
* * * * *
8465929 CTACTTCGCCACCAGTATGAGAAGACAAGATCTGGTATCTTTGATCTACTTCA-CGCCAGTACAT
66 CTACTTCGCCA-CAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGT--AT
* * ***
8465993 -G-AAGACAAGATCTGCTT-T-TTTCGATCTACTTCGCCACCAGTATGGGAAG
128 GGCAAGACAAGATCTG-TTATCTTT-GATCTACTTC-ACGCCAGTACATGAAG
* * *
8466042 ACAAGATCTGGTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTTCGAT
1 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGAT
* * ** * *
8466107 CTACTTCGCCACCAGTATGGGAAGACAAAATCTG-TTATTTTTTATCTACTTCA-CGCCGGTACA
66 CTACTTCGCCA-CAGTATGGGAAGACAAGATCTGCTT-TCTTCGATCTACTTCACCACCAGT--A
* * ***
8466170 T-G-AAGACAAGATCTACTT-T-TTTCGATCTACTTCGC-CATCAGTATGGGAAG
127 TGGCAAGACAAGATCT-GTTATCTTT-GATCTACTTCACGC--CAGTACATGAAG
*
8466220 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTTCGAT
1 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGAT
8466285 CTACTTCGCCATCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGG
66 CTACTTCGCCA-CAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGG
*
8466350 CAAGACAAGATATGTTATCTTTGATCTACTTCACGCCAGTACATGAAG
130 CAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAG
* * ** * *
8466398 ACAAGATCTGCTTTCTTCGATCTACTT--CGCCACCAGCATGGCAAGACAAGATCTGTTATCTTT
1 ACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTA-CAT-G-AAGACAAGATCTGTTTTCTTC
* *** ** * * * *
8466461 GATCTACTTCACGC-CAGTACATGAAGACGCGGTCCGCTTCCTTCGATCTACTTCGCCACCAGTA
63 GATCTACTTCGC-CACAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTA
8466525 TGGCAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAG
127 TGGCAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAG
** * * * * * *
8466576 ACGCGGTCCGCT-TCCTTCGATCTACTTCGCCACCAGT--ATGGCAAGACAAGATCTGTTATCTT
1 ACAAGATCTGCTAT-CTTTGATCTACTTC-ACGCCAGTACAT-G-AAGACAAGATCTGTTTTCTT
* * *** ** * * * *
8466638 TGATCTACTTCACGC-CAGTACATGAAGACGCGGTCCGCTTCCTTCGATCTACTTCGCCACCAGT
62 CGATCTACTTCGC-CACAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGT
8466702 ATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAG
126 ATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAG
8466754 AC
1 AC
8466756 GCGGTCCGCT
Statistics
Matches: 639, Mismatches: 56, Indels: 38
0.87 0.08 0.05
Matches are distributed among these distances:
176 7 0.01
177 8 0.01
178 556 0.87
179 59 0.09
180 5 0.01
181 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (177 bp):
ACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGAT
CTACTTCGCCACAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGC
AAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAG
Found at i:8466422 original size:312 final size:311
Alignment explanation
Indices: 8465904--8466650 Score: 1014
Period size: 312 Copynumber: 2.4 Consensus size: 311
8465894 GCCAATACAT
* * * * * * *
8465904 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGA-GAAGACAAGATCTGGTATC
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTA-CATGAAGACAAGATCTGCTTTC
* * *** * *
8465968 TTTGATCTACTTCACGC-CAGTACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCGCCACCA
64 TTCGATCTACTTCGC-CACAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCA
* * * *
8466032 GTATGGGAAGACAAGATCTGGTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGT
128 GTATGGCAAGACAAGATATGGTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
* * * *
8466097 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAAATCTGTTATTTTTTATCTACTTCACG
193 TTTCTTCGATCTACTTCGCCACCAGCATGGCAAGACAAAATCTGTTATCTTTGATCTACTTCACG
* * ** *
8466162 CCGGTACATGAAGACAAGATCTACTTTTTTCGATCTACTTCGCCATCAGTATGG
258 CCAGTACATGAAGACAAGATCCACTTCCTTCGATCTACTTCGCCACCAGTATGG
* *
8466216 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
8466281 CGATCTACTTCGCCATCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGT
66 CGATCTACTTCGCCA-CAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGT
* *
8466346 ATGGCAAGACAAGATATGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
130 ATGGCAAGACAAGATATGGTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
*
8466411 TCTTCGATCTACTTCGCCACCAGCATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
195 TCTTCGATCTACTTCGCCACCAGCATGGCAAGACAAAATCTGTTATCTTTGATCTACTTCACGCC
** * *
8466476 AGTACATGAAGACGCGGTCCGCTTCCTTCGATCTACTTCGCCACCAGTATGG
260 AGTACATGAAGACAAGATCCACTTCCTTCGATCTACTTCGCCACCAGTATGG
* * ** * * *
8466528 CAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACGCGGTCCGCTTCCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
8466593 CGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTG-TTATCTTTGATCTACTTCAC
66 CGATCTACTTCGCCA-CAGTATGGGAAGACAAGATCTGCTT-TCTTCGATCTACTTCAC
8466651 GCCAGTACAT
Statistics
Matches: 384, Mismatches: 47, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
310 2 0.01
311 38 0.10
312 344 0.90
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (311 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTA
TGGCAAGACAAGATATGGTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT
CTTCGATCTACTTCGCCACCAGCATGGCAAGACAAAATCTGTTATCTTTGATCTACTTCACGCCA
GTACATGAAGACAAGATCCACTTCCTTCGATCTACTTCGCCACCAGTATGG
Found at i:8466471 original size:89 final size:89
Alignment explanation
Indices: 8466318--8466807 Score: 890
Period size: 89 Copynumber: 5.5 Consensus size: 89
8466308 GACAAGATCT
* * *
8466318 GCTTTCTTCGATCTACTTCACCACCAGTATGGCAAGACAAGATATGTTATCTTTGATCTACTTCA
1 GCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCA
** * *
8466383 CGCCAGTACATGAAGACAAGATCT
66 CGCCAGTACATGAAGACGCGGTCC
* *
8466407 GCTTTCTTCGATCTACTTCGCCACCAGCATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCA
1 GCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCA
8466472 CGCCAGTACATGAAGACGCGGTCC
66 CGCCAGTACATGAAGACGCGGTCC
8466496 GCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCA
1 GCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCA
8466561 CGCCAGTACATGAAGACGCGGTCC
66 CGCCAGTACATGAAGACGCGGTCC
8466585 GCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCA
1 GCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCA
8466650 CGCCAGTACATGAAGACGCGGTCC
66 CGCCAGTACATGAAGACGCGGTCC
8466674 GCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCA
1 GCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCA
8466739 CGCCAGTACATGAAGACGCGGTCC
66 CGCCAGTACATGAAGACGCGGTCC
*
8466763 GCTTCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
1 GCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCT
8466808 ACTGCTACTC
Statistics
Matches: 391, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 391 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (89 bp):
GCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCA
CGCCAGTACATGAAGACGCGGTCC
Found at i:8466597 original size:401 final size:401
Alignment explanation
Indices: 8465904--8466739 Score: 1280
Period size: 401 Copynumber: 2.1 Consensus size: 401
8465894 GCCAATACAT
* *
8465904 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGAGAAGACAAGATCTGGTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGAGAAGACAAGATATGGTATCT
* *
8465969 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGC
* ** *
8466034 ATGGGAAGACAAGATCTGGTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTT
131 ATGGCAAGACAAGATCTGGTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCTT
* * * *
8466099 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAAATCTGTTATTTTTTATCTACTTCACGCC
196 CCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAAATCTGTTATCTTTGATCTACTTCACGCC
* * ** * *
8466164 GGTACATGAAGACAAGATCTACTTTTTTCGATCTACTTCGCCATCAGTATGGGAAGACAAGATCT
261 AGTACATGAAGACAAGATCCACTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCT
** * *
8466229 GCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTTCGATCTACTTCGC
326 GCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCTTCCTTCGATCTACTTCGC
*
8466294 CATCAGTATGG
391 CACCAGTATGG
*
8466305 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATG-GCAAGACAAGATATGTTATC
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGAG-AAGACAAGATATGGTATC
8466369 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAG
65 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAG
* * ** *
8466434 CATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACGCGGTCCGCT
130 CATGGCAAGACAAGATCTGGTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCT
*
8466499 TCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
195 TCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAAATCTGTTATCTTTGATCTACTTCACGC
** * *
8466564 CAGTACATGAAGACGCGGTCCGCTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATC
260 CAGTACATGAAGACAAGATCCACTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATC
* ** *
8466629 TGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACGCGGTCCGCTTCCTTCGATCTACTTCG
325 TGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCTTCCTTCGATCTACTTCG
8466694 CCACCAGTATGG
390 CCACCAGTATGG
* *
8466706 CAAGACAAGATCTG-TTATCTTTGATCTACTTCAC
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCAC
8466740 GCCAGTACAT
Statistics
Matches: 393, Mismatches: 40, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
400 3 0.01
401 390 0.99
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (401 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGAGAAGACAAGATATGGTATCT
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGC
ATGGCAAGACAAGATCTGGTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCTT
CCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAAATCTGTTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCCACTTCCTTCGATCTACTTCGCCACCAGTATGGCAAGACAAGATCT
GCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGCTTCCTTCGATCTACTTCGC
CACCAGTATGG
Found at i:8468101 original size:21 final size:21
Alignment explanation
Indices: 8468077--8468125 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
8468067 TTAGCCTCTC
*
8468077 CATTTTTACTTTTTCAT-TTTT
1 CATTTTT-CATTTTCATCTTTT
8468098 CATTTTTCATTTTCATCTTTT
1 CATTTTTCATTTTCATCTTTT
8468119 CATTTTT
1 CATTTTT
8468126 TCACATCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTCATTTTCATCTTTT
Found at i:8468128 original size:8 final size:7
Alignment explanation
Indices: 8468077--8468125 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
8468067 TTAGCCTCTC
8468077 CATTTTT
1 CATTTTT
8468084 -ACTTTTT
1 CA-TTTTT
8468091 CATTTTT
1 CATTTTT
8468098 CATTTTT
1 CATTTTT
8468105 CA-TTTT
1 CATTTTT
8468111 CATCTTTT
1 CAT-TTTT
8468119 CATTTTT
1 CATTTTT
8468126 TCACATCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 23 0.61
8 8 0.21
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:8469097 original size:18 final size:17
Alignment explanation
Indices: 8469074--8469112 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8469064 TGGTTTGACA
8469074 GAAAAAATCCAAAAGAAT
1 GAAAAAA-CCAAAAGAAT
**
8469092 GAAAAAACGTAAAGAAT
1 GAAAAAACCAAAAGAAT
8469109 GAAA
1 GAAA
8469113 GAACATTCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.67, C:0.08, G:0.15, T:0.10
Consensus pattern (17 bp):
GAAAAAACCAAAAGAAT
Found at i:8476184 original size:32 final size:32
Alignment explanation
Indices: 8476148--8476232 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
8476138 TAACACAGAT
* * *
8476148 CGTGTGGCCCACATGGCCATACCTATCTTGCC
1 CGTGTGACCCACACGACCATACCTATCTTGCC
* *
8476180 CGTGTGACTCATACGACCATACCTATCTTGCC
1 CGTGTGACCCACACGACCATACCTATCTTGCC
* *
8476212 CGTGTAATCACACACGACCAT
1 CGTGTGA-CCCACACGACCAT
8476233 GTGGTGTACA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 33 0.75
33 11 0.25
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (32 bp):
CGTGTGACCCACACGACCATACCTATCTTGCC
Found at i:8480527 original size:24 final size:23
Alignment explanation
Indices: 8480500--8480546 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8480490 TTTTTCCCAT
* *
8480500 TGATTTTTATTTTATTTTATTTTA
1 TGATTTCT-TTTTAATTTATTTTA
*
8480524 TGATTTCTTTTTAATTTGTTTTA
1 TGATTTCTTTTTAATTTATTTTA
8480547 ATTTTAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.72
Consensus pattern (23 bp):
TGATTTCTTTTTAATTTATTTTA
Found at i:8480540 original size:29 final size:29
Alignment explanation
Indices: 8480503--8480571 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
8480493 TTCCCATTGA
*
8480503 TTTTT-ATTTTATTTTATTTT-ATGATTTC
1 TTTTTAATTTTATTTAATTTTAAT-ATTTC
* *
8480531 TTTTTAATTTGT-TTTAATTTTAATTTTTG
1 TTTTTAATTT-TATTTAATTTTAATATTTC
8480560 TTTTTAATTTTA
1 TTTTTAATTTTA
8480572 AATCATCTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 6 0.18
29 25 0.74
30 3 0.09
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (29 bp):
TTTTTAATTTTATTTAATTTTAATATTTC
Found at i:8497489 original size:45 final size:44
Alignment explanation
Indices: 8497379--8498324 Score: 293
Period size: 44 Copynumber: 21.8 Consensus size: 44
8497369 TCGCATCTAG
* * * *
8497379 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAG-TAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGA-CAAA
*
8497423 TTTTATC-CTCCTGAAGTTGCAGT-GAGGCAGATTGAAGATGACAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATT-AAGATGACAAA
* *
8497468 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAA-AGTCGA-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGA-T-GACAAA
* * * * *** *
8497512 TCCTATCTCCCTGAAGTTGCATTGGAGCGGATTAAAACCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGACAAA
* * * *
8497556 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--GCAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-ATGACAAA
* * *
8497595 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA-AAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-ATGA-CAAA
* * * *
8497640 TTTTATC-CTCCTGAAGTTGCA-TTGAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAGATGACAAA
* *
8497685 TCTTATATCCCTGAAGTTGCAGTGGAGCAGATTAA-A-GCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGAC-A-AA
* * * **** *
8497729 TCCTATCTCCCTGAAGTTGCATTGGAGCAGATTAAAACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGACAAA
* * * * * *
8497773 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGACAAA
************* *
8497813 TCTTATCTCCCTGAAGTTGCAGT-G-G--NNNNNNNNNNNNNAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGACAAA
* *
8497853 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAGATGACAAA
*
8497898 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-A-GCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGAC-A-AA
* * * * ** * **
8497942 TCCTATTTCCCTGAAGTTTCATTGGAGTGGATTAAAATCTCAGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGACA-AA
* * * * *
8497987 -CTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CG-T-ATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGA-CAAA
* * * ***
8498026 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAG-TAAGCTGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGA-CAAA
** * * * * **
8498070 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGACGGCGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAGATGACAAA
* * ** * * * * * * *
8498114 TTTTACCTCCCTGTGGTTACATTGGAGTACATCAAAGATTG-TAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAGA-TGACAAA
* ** * *
8498159 TCTTATTTCCCTGAAGTTGCAGTGGAATAGACT-AG-TGAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATG--ACAAA
* * * *
8498203 TCTTATC-CTCCTGAAGTGGCAAT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAGATGACAAA
* *
8498248 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCGAC-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGA-TGACAAA
* * * * *
8498292 TCCTATCTCCCTAAAGTTACAGTGAAGAAGATT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
8498325 GAAGCACTAA
Statistics
Matches: 664, Mismatches: 173, Indels: 130
0.69 0.18 0.13
Matches are distributed among these distances:
39 25 0.04
40 74 0.11
41 11 0.02
42 11 0.02
43 51 0.08
44 282 0.42
45 186 0.28
46 22 0.03
47 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGACAAA
Found at i:8497745 original size:217 final size:217
Alignment explanation
Indices: 8497365--8498066 Score: 1063
Period size: 213 Copynumber: 3.3 Consensus size: 217
8497355 GTGAAGATAA
* *
8497365 CAGATCGCATCTAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTTTTATC
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGTTTTATC
* * *
8497430 CTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGACAAATCTTATCTCCTTGAAGTTGCAGTGGAG
66 CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
*
8497495 CAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCGGATTAAAACCTCAGATCTT
131 CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCGGATTAAAACCTCAGATCTT
8497560 ATCTCTCTGAAGTTGCAGAGAG
196 ATCTCTCTGAAGTTGCAGAGAG
8497582 CAGAT-GCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTTTTAT
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAAGCAAGTTTTAT
* *
8497646 CCTCCTGAAGTTGCATTGAGGCAGACTGAAGATGGCAAATCTTATATCCCTGAAGTTGCAGTGGA
65 CCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
* *
8497711 GCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCAGATTAAAACCTTAGATCT
130 GCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCGGATTAAAACCTCAGATCT
8497776 TATCTCTCTGAAGTTGCAGAGAG
195 TATCTCTCTGAAGTTGCAGAGAG
* ************* *
8497799 CAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGT-G-G--NNNNNNNNNNNNNAGTCTTATC
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGTTTTATC
8497860 CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
66 CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
8497925 CAGATTAAAGCCGATAATCCTATTTCCCTGAAGTTTCATTGGAGTGGATTAAAATCTCAGAACTT
131 CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCGGATTAAAACCTCAGATCTT
8497990 ATCTCTCTGAAGTTGCAGAGAG
196 ATCTCTCTGAAGTTGCAGAGAG
* * *
8498012 CAGATCGTATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGC
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGC
8498067 TGGTCTTATC
Statistics
Matches: 430, Mismatches: 49, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
213 185 0.43
214 1 0.00
215 1 0.00
216 44 0.10
217 169 0.39
218 30 0.07
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.28
Consensus pattern (217 bp):
CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCAAGTTTTATC
CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
CAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCATTGGAGCGGATTAAAACCTCAGATCTT
ATCTCTCTGAAGTTGCAGAGAG
Found at i:8501610 original size:20 final size:20
Alignment explanation
Indices: 8501565--8501613 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
8501555 GAAAATATAA
8501565 AAATTC-AAAAATATTTAAC
1 AAATTCAAAAAATATTTAAC
* *
8501584 AAA-TCAAAAAATATTTTAG
1 AAATTCAAAAAATATTTAAC
8501603 AAATTCAAAAA
1 AAATTCAAAAA
8501614 GTAAAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 2 0.08
19 17 0.65
20 7 0.27
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATTCAAAAAATATTTAAC
Found at i:8501687 original size:19 final size:21
Alignment explanation
Indices: 8501648--8501689 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8501638 ATGATTTTAA
*
8501648 TTTTATATTTTTCTAAGTTTT
1 TTTTATAGTTTTCTAAGTTTT
8501669 TTTTATAGTTTTC-AA-TTTT
1 TTTTATAGTTTTCTAAGTTTT
8501688 TT
1 TT
8501690 GTAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 12 0.60
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTATAGTTTTCTAAGTTTT
Found at i:8501733 original size:15 final size:17
Alignment explanation
Indices: 8501713--8501746 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
8501703 ATTTTAAATA
8501713 TATTTTTAA-A-ATTTT
1 TATTTTTAACATATTTT
8501728 TATTTTTAACATATTTT
1 TATTTTTAACATATTTT
8501745 TA
1 TA
8501747 AAATGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTTAACATATTTT
Found at i:8502305 original size:15 final size:14
Alignment explanation
Indices: 8502268--8502309 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
8502258 CTAATTTTGA
8502268 GTTAATTATGATTAAT
1 GTTAATTA--ATTAAT
8502284 GTTAATTAATTAAT
1 GTTAATTAATTAAT
8502298 GTTTAATTAATT
1 G-TTAATTAATT
8502310 CATTAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.28
15 10 0.40
16 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
GTTAATTAATTAAT
Found at i:8502309 original size:19 final size:18
Alignment explanation
Indices: 8502285--8502325 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
8502275 ATGATTAATG
*
8502285 TTAATTAATTAATGTTTAA
1 TTAATTAATTAAAG-TTAA
*
8502304 TTAATTCATTAAAGTTAA
1 TTAATTAATTAAAGTTAA
8502322 TTAA
1 TTAA
8502326 GGTTTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (18 bp):
TTAATTAATTAAAGTTAA
Found at i:8508602 original size:25 final size:25
Alignment explanation
Indices: 8508571--8508639 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
8508561 CTCTCGAGCC
8508571 ATATAACGGGAAGCTCATAT-GAGCT
1 ATATAACGGGAAGCTCATATAG-GCT
* * * *
8508596 ATGTAACGGGAAACTTATCTAGGCT
1 ATATAACGGGAAGCTCATATAGGCT
*
8508621 TTATAACGGGAAGCTCATA
1 ATATAACGGGAAGCTCATA
8508640 AGAGTCATAT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (25 bp):
ATATAACGGGAAGCTCATATAGGCT
Found at i:8508807 original size:25 final size:27
Alignment explanation
Indices: 8508745--8508808 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 27
8508735 AGCAAGCCTT
8508745 ATCGGGAAGCTCACAAAGAGCCAATTA
1 ATCGGGAAGCTCACAAAGAGCCAATTA
8508772 A-CGGGAAGCTCA-AGAAGAGCC-A-TA
1 ATCGGGAAGCTCACA-AAGAGCCAATTA
8508796 ATCGGGAAGCTCA
1 ATCGGGAAGCTCA
8508809 TAAGAGCAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 3 0.09
25 13 0.37
26 18 0.51
27 1 0.03
ACGTcount: A:0.39, C:0.22, G:0.27, T:0.12
Consensus pattern (27 bp):
ATCGGGAAGCTCACAAAGAGCCAATTA
Found at i:8509676 original size:31 final size:31
Alignment explanation
Indices: 8509638--8509697 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
8509628 AAGAAAGTAC
*
8509638 GATGTGATGGTAAATATAGAATAGACAGTTT
1 GATGTGATGGTAAATACAGAATAGACAGTTT
*
8509669 GATGTGATGGTAAATACATAATAGACAGT
1 GATGTGATGGTAAATACAGAATAGACAGT
8509698 GCACCGGGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (31 bp):
GATGTGATGGTAAATACAGAATAGACAGTTT
Found at i:8513348 original size:18 final size:18
Alignment explanation
Indices: 8513325--8513377 Score: 90
Period size: 18 Copynumber: 2.9 Consensus size: 18
8513315 ATATAAGATG
8513325 TCTTGATGATTTGGTATC
1 TCTTGATGATTTGGTATC
8513343 TCTTGATGATTTGGTATC
1 TCTTGATGATTTGGTATC
8513361 T-TATGATGATTTGGTAT
1 TCT-TGATGATTTGGTAT
8513378 TTTGATTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 1 0.03
18 33 0.97
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.51
Consensus pattern (18 bp):
TCTTGATGATTTGGTATC
Found at i:8515005 original size:9 final size:9
Alignment explanation
Indices: 8514991--8515158 Score: 71
Period size: 10 Copynumber: 18.0 Consensus size: 9
8514981 CATGTGACAA
8514991 AAAAATTAT
1 AAAAATTAT
8515000 AAAAA-TA-
1 AAAAATTAT
* *
8515007 AAAACTAAT
1 AAAAATTAT
*
8515016 AAAACTTAT
1 AAAAATTAT
*
8515025 AAAACTTATT
1 AAAAATTA-T
*
8515035 AAAATTTAAT
1 AAAAATT-AT
8515045 AAAAATTA-
1 AAAAATTAT
*
8515053 AAAATTTAAT
1 AAAAATT-AT
*
8515063 AAAAA-AAT
1 AAAAATTAT
8515071 ACAAATATT-T
1 A-AAA-ATTAT
*
8515081 AAAATTTATT
1 AAAAATTA-T
*
8515091 AAAAATTAGAA
1 AAAAATT--AT
8515102 AAAAATTAT
1 AAAAATTAT
8515111 -AAAATCGTA-
1 AAAAAT--TAT
8515120 AAAAATATAT
1 AAAAAT-TAT
*
8515130 AAAATTTAAT
1 AAAAATT-AT
*
8515140 AAAAATCAT
1 AAAAATTAT
8515149 AAAAAATTAT
1 -AAAAATTAT
8515159 CAAATGCATA
Statistics
Matches: 122, Mismatches: 18, Indels: 37
0.69 0.10 0.21
Matches are distributed among these distances:
7 4 0.03
8 19 0.16
9 35 0.29
10 55 0.45
11 8 0.07
12 1 0.01
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:8515037 original size:10 final size:9
Alignment explanation
Indices: 8515007--8515066 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
8514997 TATAAAAATA
*
8515007 AAAACTAAT
1 AAAACTTAT
8515016 AAAACTTAT
1 AAAACTTAT
8515025 AAAACTTATT
1 AAAACTTA-T
*
8515035 AAAATTTAAT
1 AAAACTT-AT
*
8515045 AAAAATTA-
1 AAAACTTAT
*
8515053 AAAATTTAAT
1 AAAACTT-AT
8515063 AAAA
1 AAAA
8515067 AAATACAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
8 6 0.14
9 18 0.42
10 18 0.42
11 1 0.02
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAACTTAT
Found at i:8515058 original size:18 final size:19
Alignment explanation
Indices: 8515003--8515152 Score: 98
Period size: 19 Copynumber: 7.8 Consensus size: 19
8514993 AAATTATAAA
* *
8515003 AATAAAAACTAATAAAACTT
1 AATAAAAA-TTATAAAATTT
*
8515023 -ATAAAACTTATTAAAATTT
1 AATAAAAATTA-TAAAATTT
8515042 AATAAAAATTA-AAAATTT
1 AATAAAAATTATAAAATTT
*
8515060 AATAAAAA-AATACAAATATT
1 AATAAAAATTATA-AAAT-TT
* *
8515080 --TAAAATTTATTAAAAATT
1 AATAAAAATTA-TAAAATTT
* *
8515098 AGAAAAAAATTATAAAATCGT
1 A-ATAAAAATTATAAAAT-TT
8515119 -A-AAAAATATATAAAATTT
1 AATAAAAAT-TATAAAATTT
*
8515137 AATAAAAATCATAAAA
1 AATAAAAATTATAAAA
8515153 AATTATCAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 29
0.70 0.10 0.20
Matches are distributed among these distances:
17 1 0.01
18 32 0.31
19 37 0.36
20 24 0.24
21 8 0.08
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (19 bp):
AATAAAAATTATAAAATTT
Found at i:8515080 original size:21 final size:18
Alignment explanation
Indices: 8515035--8515082 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 18
8515025 AAAACTTATT
*
8515035 AAAATTTAATAAAAATTA
1 AAAATTTAATAAAAAATA
8515053 AAAATTTAATAAAAAAATA
1 AAAATTTAAT-AAAAAATA
8515072 CAAATATTTAA
1 -AAA-ATTTAA
8515083 AATTTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.38
19 7 0.27
20 3 0.12
21 6 0.23
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATTTAATAAAAAATA
Found at i:8515114 original size:19 final size:19
Alignment explanation
Indices: 8515088--8515135 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
8515078 TTTAAAATTT
8515088 ATTA-AAAATTAGAAAAAA
1 ATTATAAAATTAGAAAAAA
* *
8515106 ATTATAAAA-TCGTAAAAA
1 ATTATAAAATTAGAAAAAA
8515124 ATATATAAAATT
1 AT-TATAAAATT
8515136 TAATAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 13 0.52
19 11 0.44
20 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
ATTATAAAATTAGAAAAAA
Found at i:8515133 original size:49 final size:49
Alignment explanation
Indices: 8515073--8515172 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 49
8515063 AAAAAAATAC
* * * *
8515073 AAATATTTAAAATTTATTAAAAATTAGAAAAAAATTATAAAAT-CGTAAA
1 AAATATATAAAATTTAATAAAAATCA-AAAAAAATTATAAAATGCATAAA
* *
8515122 AAATATATAAAATTTAATAAAAATCATAAAAAATTATCAAATGCATAAA
1 AAATATATAAAATTTAATAAAAATCAAAAAAAATTATAAAATGCATAAA
8515171 AA
1 AA
8515173 GACCTTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
48 14 0.32
49 30 0.68
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (49 bp):
AAATATATAAAATTTAATAAAAATCAAAAAAAATTATAAAATGCATAAA
Found at i:8518005 original size:42 final size:42
Alignment explanation
Indices: 8517897--8518006 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
8517887 GTCAAGTAGC
* * *
8517897 ACACGGCCTGACACATGGGTTTGTGAAGCTATTTCGAGAGTT
1 ACACGGCCTGACACATCGGTGTGTGAAGCTATTACGAGAGTT
* * ** *
8517939 ACACGACCTGACACA-CGGGCGTGTGGGGTTATTACGAGAGTT
1 ACACGGCCTGACACATC-GGTGTGTGAAGCTATTACGAGAGTT
*
8517981 ACATGGCCTGACACATCGGTGTGTGA
1 ACACGGCCTGACACATCGGTGTGTGA
8518007 CACGATCGTG
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 53 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.25
Consensus pattern (42 bp):
ACACGGCCTGACACATCGGTGTGTGAAGCTATTACGAGAGTT
Found at i:8528277 original size:49 final size:49
Alignment explanation
Indices: 8528218--8528377 Score: 144
Period size: 49 Copynumber: 3.2 Consensus size: 49
8528208 CACAAAAACA
8528218 CTTATTTCCAGACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAAT
1 CTTATTTCCAGACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAAT
* ** * * * * * **
8528267 CTTATTTCCAGGCGGTG-TACTGGAACAGATTGAAGCTACAACGGTGAAT
1 CTTATTTCCAGACATTGCAACT-CAAAAGATTGAGGCCACAACGGCAAAT
* * *
8528316 CTCATCTTCCCCA-ACATTGCAACTCAAAAGATTGAGGCCACAATGTCAAAT
1 CTTAT-TT--CCAGACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAAT
*
8528367 ATTATTTCCAG
1 CTTATTTCCAG
8528378 GTGGTACAGT
Statistics
Matches: 80, Mismatches: 25, Indels: 12
0.68 0.21 0.10
Matches are distributed among these distances:
48 6 0.08
49 39 0.49
50 4 0.05
51 25 0.31
52 6 0.08
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (49 bp):
CTTATTTCCAGACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAAT
Found at i:8528416 original size:100 final size:100
Alignment explanation
Indices: 8528229--8528417 Score: 288
Period size: 100 Copynumber: 1.9 Consensus size: 100
8528219 TTATTTCCAG
* **
8528229 ACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAATCTTATTTCCAGGCGGTGTACTGGAACA
1 ACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAATATTATTTCCAGGCGGTACACTGGAACA
*
8528294 GATTGAAGCTACAACGGTGAATCTCATCTTCCCCA
66 GATTGAAGCTACAACGGCGAATCTCATCTTCCCCA
* * * *
8528329 ACATTGCAACTCAAAAGATTGAGGCCACAATGTCAAATATTATTTCCAGGTGGTACAGTGGAACA
1 ACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAATATTATTTCCAGGCGGTACACTGGAACA
* *
8528394 GATTGAAGCTACGATGGCGAATCT
66 GATTGAAGCTACAACGGCGAATCT
8528418 AGTTTCCCCG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (100 bp):
ACATTGCAACTCAAAAGATTGAGGCCACAACGGCAAATATTATTTCCAGGCGGTACACTGGAACA
GATTGAAGCTACAACGGCGAATCTCATCTTCCCCA
Found at i:8536469 original size:12 final size:12
Alignment explanation
Indices: 8536458--8536501 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
8536448 AGTACAATAG
*
8536458 TAATAATGATAG
1 TAATAATGATAA
8536470 TAAATAATG-TAA
1 T-AATAATGATAA
*
8536482 TAATAATAATAA
1 TAATAATGATAA
8536494 TAATAATG
1 TAATAATG
8536502 GTATAATGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 6 0.22
12 14 0.52
13 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (12 bp):
TAATAATGATAA
Found at i:8538336 original size:44 final size:43
Alignment explanation
Indices: 8538226--8538482 Score: 183
Period size: 44 Copynumber: 6.0 Consensus size: 43
8538216 NNNNNNNNCT
* *
8538226 TTAATCTGCTCCTCTGTAACTTCAGG-GAGATAAGACTTGCCATC
1 TTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTG-C-TC
* * *
8538270 TTCAGTCTGCCCCGCTGCAACTTCAGGAG-GATAAGACTTGCTTAC
1 TT-AATCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGC-T-C
* * *
8538315 TTAGTCTGCTCCACTGCAACTTCAGG-GAGATAAGACTAGATGC
1 TTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCT-C
* * * * *
8538358 --GATCTGCT-CTCTGCAACTTCA-GAGAGATAAGATTTGAGGTT
1 TTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGACTT--GCTC
* * * * *
8538399 TTAATCCGCTCCAATGCAACTTCAAG-GAGATAGGATTATCGGCT-
1 TTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGACT-T--GCTC
8538443 TTAATCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGC
1 TTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGC
8538483 CATCTTCGAT
Statistics
Matches: 170, Mismatches: 30, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
39 1 0.01
40 22 0.13
41 8 0.05
42 2 0.01
43 10 0.06
44 87 0.51
45 39 0.23
46 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
TTAATCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTC
Found at i:8556652 original size:20 final size:20
Alignment explanation
Indices: 8556627--8556687 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
8556617 TATTGCTGCA
8556627 CCACCATGCTGCTGTCCCTT
1 CCACCATGCTGCTGTCCCTT
*
8556647 CCACCATGCTGTTGTCCCTT
1 CCACCATGCTGCTGTCCCTT
* *
8556667 CCACCAGGCTGCTCTCCCTT
1 CCACCATGCTGCTGTCCCTT
8556687 C
1 C
8556688 AATGAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.10, C:0.46, G:0.15, T:0.30
Consensus pattern (20 bp):
CCACCATGCTGCTGTCCCTT
Found at i:8556771 original size:13 final size:13
Alignment explanation
Indices: 8556753--8556777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8556743 GTATCCACCG
8556753 AAAGAGAGAAAGA
1 AAAGAGAGAAAGA
8556766 AAAGAGAGAAAG
1 AAAGAGAGAAAG
8556778 GAGAAGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AAAGAGAGAAAGA
Found at i:8557102 original size:7 final size:7
Alignment explanation
Indices: 8557087--8557118 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
8557077 GATTTTTTTG
*
8557087 TTATTAA
1 TTATAAA
8557094 TTATAAA
1 TTATAAA
8557101 TTATAAA
1 TTATAAA
8557108 TTATAAA
1 TTATAAA
8557115 TTAT
1 TTAT
8557119 TTATGTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TTATAAA
Found at i:8557549 original size:18 final size:19
Alignment explanation
Indices: 8557526--8557565 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
8557516 TATTTGATTT
*
8557526 TTTATTTATTTA-AAAATG
1 TTTATTGATTTATAAAATG
8557544 TTTATTGATTTATTAAAATG
1 TTTATTGATTTA-TAAAATG
8557564 TT
1 TT
8557566 GATTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTATTGATTTATAAAATG
Found at i:8557575 original size:21 final size:22
Alignment explanation
Indices: 8557529--8557571 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
8557519 TTGATTTTTT
* *
8557529 ATTTATTTAAAAATGTTTATTG
1 ATTTATTTAAAAATGTTGATTA
8557551 ATTTA-TT-AAAATGTTGATTA
1 ATTTATTTAAAAATGTTGATTA
8557571 A
1 A
8557572 ATTTGTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
21 2 0.11
22 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATTTAAAAATGTTGATTA
Found at i:8579240 original size:6 final size:6
Alignment explanation
Indices: 8579217--8579258 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
8579207 GCATCATGCA
* * *
8579217 CCAGAG CCAGAA CCAGAG CCAGAG CCGGAG CCGGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
8579259 GCAGGGACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.31, C:0.33, G:0.36, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:8579488 original size:33 final size:33
Alignment explanation
Indices: 8579406--8579497 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
8579396 CATCCTAGCT
** * *
8579406 CGTATCCACCTCAGCACTCCGCTTCTTCCGGCT
1 CGTATCCACCTCAATACTCCGCTCCTTCCGGCC
* *
8579439 TGTATCCACCTCAATACTCTGCTCCTTCCGGCC
1 CGTATCCACCTCAATACTCCGCTCCTTCCGGCC
*
8579472 CGTATCCACCGT-AATACTCCACTCCT
1 CGTATCCACC-TCAATACTCCGCTCCT
8579498 CTCGGCTCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 48 0.98
34 1 0.02
ACGTcount: A:0.16, C:0.43, G:0.12, T:0.28
Consensus pattern (33 bp):
CGTATCCACCTCAATACTCCGCTCCTTCCGGCC
Found at i:8582993 original size:27 final size:27
Alignment explanation
Indices: 8582949--8583011 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
8582939 GCCCCACCAT
* *
8582949 TCGCGCCTCTGAGTTAGGCACAACTAG
1 TCGCGCCTCTCAGATAGGCACAACTAG
* *
8582976 TCGCGCCTGTCAGATAGGCTCAACTAG
1 TCGCGCCTCTCAGATAGGCACAACTAG
8583003 TCGCGCCTC
1 TCGCGCCTC
8583012 GTATCTATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.33, G:0.25, T:0.22
Consensus pattern (27 bp):
TCGCGCCTCTCAGATAGGCACAACTAG
Found at i:8583676 original size:22 final size:21
Alignment explanation
Indices: 8583651--8583698 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
8583641 TTTTATAATC
*
8583651 TTTTAATAA-TTTTTAGAAATAA
1 TTTTAATAACTTCTTAG-AAT-A
8583673 TTTT-ATAACTTCTTAGAATA
1 TTTTAATAACTTCTTAGAATA
8583693 TTTTAA
1 TTTTAA
8583699 ATTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 5 0.22
21 8 0.35
22 10 0.43
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (21 bp):
TTTTAATAACTTCTTAGAATA
Found at i:8588104 original size:16 final size:17
Alignment explanation
Indices: 8588071--8588104 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8588061 GTAAGGAAAG
8588071 AGGGATGTGAGAGAGTT
1 AGGGATGTGAGAGAGTT
*
8588088 AGGGATG-GAGAGGGTT
1 AGGGATGTGAGAGAGTT
8588104 A
1 A
8588105 TTTCCGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.50, T:0.21
Consensus pattern (17 bp):
AGGGATGTGAGAGAGTT
Found at i:8590584 original size:20 final size:20
Alignment explanation
Indices: 8590561--8590598 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8590551 TTTAAAAGGG
8590561 TGAGGCATACAATAAATACA
1 TGAGGCATACAATAAATACA
**
8590581 TGAGGCATTGAATAAATA
1 TGAGGCATACAATAAATA
8590599 AAGGGGAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (20 bp):
TGAGGCATACAATAAATACA
Found at i:8600430 original size:24 final size:24
Alignment explanation
Indices: 8600393--8600439 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8600383 TATATATACC
8600393 AATTCAATCAATA-TAAATTCAATA
1 AATTCAATCAATATTAAA-TCAATA
8600417 AATTC-ATCACATATTAAATCAAT
1 AATTCAATCA-ATATTAAATCAAT
8600440 TCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATTAAATCAATA
Found at i:8600820 original size:18 final size:19
Alignment explanation
Indices: 8600794--8600829 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8600784 TAAACTAGAT
*
8600794 TTAACTCTCT-AATTTCAC
1 TTAAATCTCTAAATTTCAC
8600812 TTAAATCTCTAAATTTCA
1 TTAAATCTCTAAATTTCA
8600830 AAATTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAATCTCTAAATTTCAC
Found at i:8601146 original size:25 final size:24
Alignment explanation
Indices: 8601114--8601161 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
8601104 TTTCTCCTTC
** *
8601114 TTTCTTTCTTTTTTTTTCTTTTTG
1 TTTCTTTCACTTTGTTTCTTTTTG
8601138 TTTCGTTTCACTTTGTTTCTTTTT
1 TTTC-TTTCACTTTGTTTCTTTTT
8601162 CTATTTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (24 bp):
TTTCTTTCACTTTGTTTCTTTTTG
Found at i:8605751 original size:26 final size:25
Alignment explanation
Indices: 8605722--8605817 Score: 97
Period size: 25 Copynumber: 3.8 Consensus size: 25
8605712 TTCATATTCA
8605722 GGAATGCTCATACGAGCACATA-AACG
1 GGAA-GCTCATACGAGC-CATATAACG
* *
8605748 GGAAGCTCATTCGAGCCATATAATG
1 GGAAGCTCATACGAGCCATATAACG
** *
8605773 GGAAGCTCATGTGAGCCATGTAACG
1 GGAAGCTCATACGAGCCATATAACG
*
8605798 GGAAGCTTATGA-GAGCCATA
1 GGAAGCTCAT-ACGAGCCATA
8605818 ATCAGGAAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 4 0.07
25 51 0.86
26 4 0.07
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
GGAAGCTCATACGAGCCATATAACG
Found at i:8606094 original size:24 final size:25
Alignment explanation
Indices: 8606038--8606085 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
8606028 GGGAAGCTTG
*
8606038 TGAGAGCTAAATATCAGGATGCTCA
1 TGAGAGCTAAATAACAGGATGCTCA
8606063 TGAGAGCT-AATAACAGGATGCTC
1 TGAGAGCTAAATAACAGGATGCTC
8606086 TTTCGAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (25 bp):
TGAGAGCTAAATAACAGGATGCTCA
Found at i:8613606 original size:25 final size:25
Alignment explanation
Indices: 8613565--8613711 Score: 108
Period size: 25 Copynumber: 5.9 Consensus size: 25
8613555 ATTCTTATAC
*
8613565 GAGCACATA-AACAGGAAGCTCAT-T
1 GAGC-CATATAACGGGAAGCTCATGT
*
8613589 CGAGCTATATAACGGGAAGCTCATGT
1 -GAGCCATATAACGGGAAGCTCATGT
* *
8613615 GAGCCATGTAACGGGAAGCTCATGA
1 GAGCCATATAACGGGAAGCTCATGT
* ** * *
8613640 GAGCCATA-ATCGGGAAATTAAAGT
1 GAGCCATATAACGGGAAGCTCATGT
* *
8613664 GAGCCA-ATATCGGGAAGCTCCA-GA
1 GAGCCATATAACGGGAAGCT-CATGT
8613688 GAGCCA-ATTAATCGGGAAGCTCAT
1 GAGCCATA-TAA-CGGGAAGCTCAT
8613712 AAAAGAGCCT
Statistics
Matches: 98, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
23 1 0.01
24 36 0.37
25 51 0.52
26 10 0.10
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGT
Found at i:8616297 original size:9 final size:9
Alignment explanation
Indices: 8616279--8616335 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
8616269 ATTAGTATAT
*
8616279 CATAAAATA
1 CATAACATA
8616288 CATAACATA
1 CATAACATA
*
8616297 CATAATATA
1 CATAACATA
8616306 TCAT-ACAATA
1 -CATAAC-ATA
8616316 CATAACATA
1 CATAACATA
*
8616325 CATAATATA
1 CATAACATA
8616334 CA
1 CA
8616336 CACTAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 33 0.80
10 8 0.20
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (9 bp):
CATAACATA
Found at i:8616309 original size:28 final size:28
Alignment explanation
Indices: 8616274--8616333 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
8616264 TCCATATTAG
8616274 TATATCATAAAATACATAACATACATAA
1 TATATCATAAAATACATAACATACATAA
*
8616302 TATATCATACAATACATAACATACATAA
1 TATATCATAAAATACATAACATACATAA
8616330 TATA
1 TATA
8616334 CACACTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (28 bp):
TATATCATAAAATACATAACATACATAA
Found at i:8616325 original size:14 final size:14
Alignment explanation
Indices: 8616279--8616326 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
8616269 ATTAGTATAT
*
8616279 CATAAAATACATAA
1 CATACAATACATAA
8616293 CATAC-ATA-ATATA
1 CATACAATACATA-A
8616306 TCATACAATACATAA
1 -CATACAATACATAA
8616321 CATACA
1 CATACA
8616327 TAATATACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 3 0.10
13 4 0.14
14 15 0.52
15 4 0.14
16 3 0.10
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (14 bp):
CATACAATACATAA
Found at i:8616343 original size:28 final size:28
Alignment explanation
Indices: 8616274--8616343 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
8616264 TCCATATTAG
* *
8616274 TATATCATAAAATACATAACATACATAA
1 TATATCACACAATACATAACATACATAA
*
8616302 TATATCATACAATACATAACATACATAA
1 TATATCACACAATACATAACATACATAA
8616330 TATA-CACACTAATA
1 TATATCACAC-AATA
8616344 TATCATAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 4 0.10
28 35 0.90
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (28 bp):
TATATCACACAATACATAACATACATAA
Found at i:8616346 original size:68 final size:67
Alignment explanation
Indices: 8616247--8616377 Score: 174
Period size: 68 Copynumber: 1.9 Consensus size: 67
8616237 AGGGTCTGAC
* * * * *
8616247 ACATACCATACATAATATCCATATTAGTATATCATAAAATACATAACATACA-TAATATATCATA
1 ACATAACATACATAATATACACACTAATATATCATAAAAT--ATAACATACACTAATATATCATA
8616311 CAAT
64 CAAT
* *
8616315 ACATAACATACATAATATACACACTAATATATCATAACATATAACATACACTAATGTATCATA
1 ACATAACATACATAATATACACACTAATATATCATAAAATATAACATACACTAATATATCATA
8616378 TCATTTTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
66 10 0.18
67 11 0.20
68 34 0.62
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (67 bp):
ACATAACATACATAATATACACACTAATATATCATAAAATATAACATACACTAATATATCATACA
AT
Found at i:8625454 original size:19 final size:18
Alignment explanation
Indices: 8625430--8625484 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 18
8625420 CAATTTTTTA
8625430 TTTATTATCGTTATTATTT
1 TTTATT-TCGTTATTATTT
8625449 TTTATTCTCGTTA-T-TTT
1 TTTATT-TCGTTATTATTT
*
8625466 ATTATTTC-TTATTATTT
1 TTTATTTCGTTATTATTT
8625483 TT
1 TT
8625485 GATATTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.10
16 3 0.10
17 12 0.39
18 1 0.03
19 12 0.39
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (18 bp):
TTTATTTCGTTATTATTT
Found at i:8625616 original size:38 final size:39
Alignment explanation
Indices: 8625558--8625631 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
8625548 AATTACATCA
*
8625558 TTTATTTATTATTATCATGAT-ATGATTATTAATATTAAT
1 TTTATTTATTATAATCATGATGATGATTA-TAATATTAAT
* *
8625597 TTTA-TTATTATAATGATGATGATTATTATAATATT
1 TTTATTTATTATAATCATGATGATGATTATAATATT
8625632 CTTTCATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 21 0.68
39 10 0.32
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (39 bp):
TTTATTTATTATAATCATGATGATGATTATAATATTAAT
Found at i:8625621 original size:18 final size:17
Alignment explanation
Indices: 8625565--8625628 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
8625555 TCATTTATTT
*
8625565 ATTATTATCATGATATG
1 ATTATTATAATGATATG
* * * *
8625582 ATTATTAATATTAATTTT
1 ATTATT-ATAATGATATG
8625600 ATTATTATAATGATGATG
1 ATTATTATAATGAT-ATG
8625618 ATTATTATAAT
1 ATTATTATAAT
8625629 ATTCTTTCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (17 bp):
ATTATTATAATGATATG
Found at i:8628247 original size:15 final size:15
Alignment explanation
Indices: 8628229--8628258 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8628219 ATAAAGATTA
8628229 TAATAATAATAAAAG
1 TAATAATAATAAAAG
8628244 TAATAATAATAAAAG
1 TAATAATAATAAAAG
8628259 AAAGAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
TAATAATAATAAAAG
Found at i:8628266 original size:15 final size:15
Alignment explanation
Indices: 8628233--8628267 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8628223 AGATTATAAT
* *
8628233 AATAATAAAAGTAAT
1 AATAATAAAAGAAAG
8628248 AATAATAAAAGAAAG
1 AATAATAAAAGAAAG
8628263 AATAA
1 AATAA
8628268 AGAAAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
AATAATAAAAGAAAG
Found at i:8628266 original size:18 final size:18
Alignment explanation
Indices: 8628228--8628267 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8628218 TATAAAGATT
*
8628228 ATAATAATAATAAAAGTA
1 ATAATAATAAAAAAAGTA
8628246 ATAATAATAAAAGAAAG-A
1 ATAATAATAAAA-AAAGTA
8628264 ATAA
1 ATAA
8628268 AGAAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
ATAATAATAAAAAAAGTA
Found at i:8636764 original size:7 final size:7
Alignment explanation
Indices: 8636747--8636779 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
8636737 AAATTTAATA
8636747 TACATAAT
1 TACA-AAT
8636755 TACAAAT
1 TACAAAT
8636762 TACAAAT
1 TACAAAT
8636769 TACAAAT
1 TACAAAT
8636776 TACA
1 TACA
8636780 GATATAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (7 bp):
TACAAAT
Found at i:8639140 original size:13 final size:13
Alignment explanation
Indices: 8639124--8639152 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8639114 GATGATTGAA
8639124 ATTAATGAATGGG
1 ATTAATGAATGGG
8639137 ATTAATGAATGGG
1 ATTAATGAATGGG
8639150 ATT
1 ATT
8639153 GTTATGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (13 bp):
ATTAATGAATGGG
Found at i:8640981 original size:46 final size:46
Alignment explanation
Indices: 8640925--8641079 Score: 211
Period size: 46 Copynumber: 3.4 Consensus size: 46
8640915 TTACTTATTT
* * * * *
8640925 GGGTTAAACCTACACGAATCGGATAATACTACCTGGTCACCCGTTA
1 GGGTTGAACCTACACAAATCAGATAATACTGCCTGGTCACCTGTTA
* * *
8640971 GGGTTGAACCTACACAAATCAGATAATAGTGTCTGATCACCTGTTA
1 GGGTTGAACCTACACAAATCAGATAATACTGCCTGGTCACCTGTTA
* *
8641017 GGGTTGAACCTACACAAATCATATAATACTGCCTAGTCACCTGTTA
1 GGGTTGAACCTACACAAATCAGATAATACTGCCTGGTCACCTGTTA
*
8641063 GGGCTGAACCTACACAA
1 GGGTTGAACCTACACAA
8641080 CAAATAGTCT
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 95 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (46 bp):
GGGTTGAACCTACACAAATCAGATAATACTGCCTGGTCACCTGTTA
Found at i:8643739 original size:23 final size:23
Alignment explanation
Indices: 8643713--8643757 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8643703 TTTCTTACTG
* *
8643713 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGAGATATTACAA
8643736 TAGTAATTTTCGAGATATTACA
1 TAGTAATTTTCGAGATATTACA
8643758 TGTGTGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCGAGATATTACAA
Found at i:8643936 original size:26 final size:26
Alignment explanation
Indices: 8643906--8643958 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8643896 AATTGTAAAT
*
8643906 ATTAAGATATT-TTAAATTAAACTTTA
1 ATTAAGATATTAGT-AATTAAACTTTA
**
8643932 ATTAATCTATTAGTAATTAAACTTTA
1 ATTAAGATATTAGTAATTAAACTTTA
8643958 A
1 A
8643959 ACATGATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
ATTAAGATATTAGTAATTAAACTTTA
Found at i:8646494 original size:300 final size:300
Alignment explanation
Indices: 8645952--8646555 Score: 1199
Period size: 300 Copynumber: 2.0 Consensus size: 300
8645942 TCTAAATTGA
8645952 TTCTCAAAGAAAGACTTTTGCCAAGTTACCAAATGAATGATTAGGATTTAATTGCTATTAAAGCA
1 TTCTCAAAGAAAGACTTTTGCCAAGTTACCAAATGAATGATTAGGATTTAATTGCTATTAAAGCA
8646017 ACCAATTGAGCTCTATAAATTGGAACTTCAATTGAGATTAATGTAAATATTTTTTGGCTAGGGAA
66 ACCAATTGAGCTCTATAAATTGGAACTTCAATTGAGATTAATGTAAATATTTTTTGGCTAGGGAA
8646082 AATCTGGTTTTCATGAACCTATCACATTGCACATCCGCCAAAGATAAAGGTGATAAACTGATTGT
131 AATCTGGTTTTCATGAACCTATCACATTGCACATCCGCCAAAGATAAAGGTGATAAACTGATTGT
8646147 TAACATAAAATTGGAAGTGACCAACAATATGTCAGCCTTTATAATGATCATTTCCTACAACATTA
196 TAACATAAAATTGGAAGTGACCAACAATATGTCAGCCTTTATAATGATCATTTCCTACAACATTA
8646212 GAGTAGAACAATTTCTAATTCTACCTTCGTTACATTACTT
261 GAGTAGAACAATTTCTAATTCTACCTTCGTTACATTACTT
8646252 TTCTCAAAGAAAGACTTTTGCCAAGTTACCAAATGAATGATTAGGATTTAATTGCTATTAAAGCA
1 TTCTCAAAGAAAGACTTTTGCCAAGTTACCAAATGAATGATTAGGATTTAATTGCTATTAAAGCA
8646317 ACCAATTGAGCTCTATAAATTGGAACTTCAATTGAGATTAATGTAAATATTTTTTGGCTAGGGAA
66 ACCAATTGAGCTCTATAAATTGGAACTTCAATTGAGATTAATGTAAATATTTTTTGGCTAGGGAA
8646382 AATCTGGTTTTCATGAACCTATCACATTGCACATCCGCCAAAGATAAAGGTGATAAACTGATTGT
131 AATCTGGTTTTCATGAACCTATCACATTGCACATCCGCCAAAGATAAAGGTGATAAACTGATTGT
*
8646447 TAACATAAAATTGGAAGTGACCAACAATATGTCAGCCTTTATAATGATCATTTCCTACAAGATTA
196 TAACATAAAATTGGAAGTGACCAACAATATGTCAGCCTTTATAATGATCATTTCCTACAACATTA
8646512 GAGTAGAACAATTTCTAATTCTACCTTCGTTACATTACTT
261 GAGTAGAACAATTTCTAATTCTACCTTCGTTACATTACTT
8646552 TTCT
1 TTCT
8646556 GGAACATGAA
Statistics
Matches: 303, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 303 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (300 bp):
TTCTCAAAGAAAGACTTTTGCCAAGTTACCAAATGAATGATTAGGATTTAATTGCTATTAAAGCA
ACCAATTGAGCTCTATAAATTGGAACTTCAATTGAGATTAATGTAAATATTTTTTGGCTAGGGAA
AATCTGGTTTTCATGAACCTATCACATTGCACATCCGCCAAAGATAAAGGTGATAAACTGATTGT
TAACATAAAATTGGAAGTGACCAACAATATGTCAGCCTTTATAATGATCATTTCCTACAACATTA
GAGTAGAACAATTTCTAATTCTACCTTCGTTACATTACTT
Found at i:8646901 original size:18 final size:18
Alignment explanation
Indices: 8646878--8646919 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
8646868 TCTTCTTGGC
8646878 AGTGGATCTTTCAGATGA
1 AGTGGATCTTTCAGATGA
8646896 AGTGGATCTTTCAGATGA
1 AGTGGATCTTTCAGATGA
8646914 AGTGGA
1 AGTGGA
8646920 GTTCACAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.31
Consensus pattern (18 bp):
AGTGGATCTTTCAGATGA
Found at i:8655564 original size:31 final size:31
Alignment explanation
Indices: 8655526--8655616 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
8655516 ACATTCTTGA
*
8655526 GGTTATTTCAGATTCTTGATCACCAAAACTT
1 GGTTATTTCAGATTCTTGATCATCAAAACTT
*
8655557 -GTGTATTT--TATTCTTGATCATCAAAACTT
1 GGT-TATTTCAGATTCTTGATCATCAAAACTT
*
8655586 GGTTCTTTCAGATTCTTGATCATCAAAACTT
1 GGTTATTTCAGATTCTTGATCATCAAAACTT
8655617 TTGTTGTGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
29 23 0.44
30 4 0.08
31 25 0.48
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (31 bp):
GGTTATTTCAGATTCTTGATCATCAAAACTT
Found at i:8655570 original size:29 final size:29
Alignment explanation
Indices: 8655537--8655616 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 29
8655527 GTTATTTCAG
*
8655537 ATTCTTGATCACCAAAACTTGTGTAT-TTT-
1 ATTCTTGATCATCAAAACTTG-GT-TCTTTA
8655566 ATTCTTGATCATCAAAACTTGGTTCTTTCA
1 ATTCTTGATCATCAAAACTTGGTTCTTT-A
8655596 GATTCTTGATCATCAAAACTT
1 -ATTCTTGATCATCAAAACTT
8655617 TTGTTGTGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 1 0.02
28 5 0.11
29 20 0.43
31 20 0.43
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (29 bp):
ATTCTTGATCATCAAAACTTGGTTCTTTA
Found at i:8662304 original size:22 final size:24
Alignment explanation
Indices: 8662270--8662314 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
8662260 ATAAAATTTT
*
8662270 AAAAATTAAAAAGGTTA-TAAAAC
1 AAAAATTAAAAAGATTATTAAAAC
*
8662293 AAAAA-TAGAAAGATTATTAAAA
1 AAAAATTAAAAAGATTATTAAAA
8662315 TACAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (24 bp):
AAAAATTAAAAAGATTATTAAAAC
Found at i:8663814 original size:19 final size:17
Alignment explanation
Indices: 8663790--8663824 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
8663780 GAACATGTTA
8663790 TATATAAAGAAGAGAAAAT
1 TATATAAA-AAGA-AAAAT
8663809 TATATAAAAAGAAAAA
1 TATATAAAAAGAAAAA
8663825 GAGATAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (17 bp):
TATATAAAAAGAAAAAT
Found at i:8665958 original size:19 final size:20
Alignment explanation
Indices: 8665934--8665975 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
8665924 AAGTAACTTA
8665934 TATATTAATTAAA-AATTAC
1 TATATTAATTAAATAATTAC
* *
8665953 TATATTTATTAAATATTTAC
1 TATATTAATTAAATAATTAC
8665973 TAT
1 TAT
8665976 TTTATTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATTAATTAAATAATTAC
Found at i:8666212 original size:39 final size:39
Alignment explanation
Indices: 8666169--8666272 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 39
8666159 TTCTTTATGA
8666169 TATTACAATTCTATTTCATTCAACCAAATACAACAATAT
1 TATTACAATTCTATTTCATTCAACCAAATACAACAATAT
* *
8666208 TATTACAATTCTATTCCATTCTATTCAACTAAATACAATAATAT
1 TATTACAATTCTA-T---TTC-ATTCAACCAAATACAACAATAT
* * *
8666252 TACTACAACTCTATTCCATTC
1 TATTACAATTCTATTTCATTC
8666273 TATTCAACCA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
39 17 0.31
40 3 0.05
43 4 0.07
44 31 0.56
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.38
Consensus pattern (39 bp):
TATTACAATTCTATTTCATTCAACCAAATACAACAATAT
Found at i:8666251 original size:44 final size:44
Alignment explanation
Indices: 8666186--8666284 Score: 162
Period size: 44 Copynumber: 2.2 Consensus size: 44
8666176 ATTCTATTTC
* *
8666186 ATTCAACCAAATACAACAATATTATTACAATTCTATTCCATTCT
1 ATTCAACCAAATACAACAATATTACTACAACTCTATTCCATTCT
* *
8666230 ATTCAACTAAATACAATAATATTACTACAACTCTATTCCATTCT
1 ATTCAACCAAATACAACAATATTACTACAACTCTATTCCATTCT
8666274 ATTCAACCAAA
1 ATTCAACCAAA
8666285 CAATTAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.34
Consensus pattern (44 bp):
ATTCAACCAAATACAACAATATTACTACAACTCTATTCCATTCT
Found at i:8668052 original size:26 final size:26
Alignment explanation
Indices: 8668016--8668073 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
8668006 CATTTTTATA
8668016 ATATATATATACACGCATATACATAT
1 ATATATATATACACGCATATACATAT
* * * *
8668042 ATATATATATATACTCATATTCTTAT
1 ATATATATATACACGCATATACATAT
8668068 ATATAT
1 ATATAT
8668074 GTTTTTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (26 bp):
ATATATATATACACGCATATACATAT
Found at i:8685626 original size:26 final size:25
Alignment explanation
Indices: 8685587--8685636 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
8685577 TGTATATAAC
*
8685587 TTATTATAAATATCTTTATATCTTA
1 TTATTATAAATATCTATATATCTTA
* *
8685612 TTATGTATATATATCTATATCTCTT
1 TTAT-TATAAATATCTATATATCTT
8685637 TTTAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (25 bp):
TTATTATAAATATCTATATATCTTA
Found at i:8690338 original size:7 final size:7
Alignment explanation
Indices: 8690324--8690369 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
8690314 AGTTCAGACT
8690324 AAAAAA-
1 AAAAAAC
*
8690330 AACAAA-
1 AAAAAAC
8690336 AAAAAAC
1 AAAAAAC
*
8690343 AAAAATC
1 AAAAAAC
8690350 AAAAAAC
1 AAAAAAC
8690357 AAAAAAC
1 AAAAAAC
8690364 AAAAAA
1 AAAAAA
8690370 AATAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
6 10 0.29
7 25 0.71
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (7 bp):
AAAAAAC
Found at i:8690358 original size:24 final size:24
Alignment explanation
Indices: 8690325--8690384 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
8690315 GTTCAGACTA
8690325 AAAAAAACAAAAAA-AAACAAAAAT
1 AAAAAAACAAAAAACAAA-AAAAAT
*
8690349 CAAAAAACAAAAAACAAAAAAAAT
1 AAAAAAACAAAAAACAAAAAAAAT
8690373 AAAAAAATCAAA
1 AAAAAAA-CAAA
8690385 GTCAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (24 bp):
AAAAAAACAAAAAACAAAAAAAAT
Found at i:8691249 original size:20 final size:20
Alignment explanation
Indices: 8691223--8691261 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8691213 ACTTTGAGTC
*
8691223 AAAAAAAGATAAAAAATGATG
1 AAAAAAA-AGAAAAAATGATG
8691244 AAAAAAAAGAAAAAATGA
1 AAAAAAAAGAAAAAATGA
8691262 AAATGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (20 bp):
AAAAAAAAGAAAAAATGATG
Found at i:8693220 original size:46 final size:46
Alignment explanation
Indices: 8692517--8693203 Score: 1095
Period size: 46 Copynumber: 14.9 Consensus size: 46
8692507 ACGAAGTTAT
* *
8692517 AGATCTTATCTTCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
8692563 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
8692609 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* *
8692655 AGATCATGTCATCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
*
8692701 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAATATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
8692747 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
8692793 AGATCTTGTCTTCCTGTATTTGGCAGCAGAGAGGATCAAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
8692839 AGATCTTGTCTTCCTATTTTTGGCAGCGGAGGAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* *
8692885 AGATCTTGTCTTCCTGTATTTGGTAGCGGAGCGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* *
8692931 AGATCTTGTCTTCCTGTAATTGGCAGCGGAAGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
*
8692977 AGATCTTGTCTTCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * *
8693023 AGATCTTGTCTTCCTGTATTTGGCAGCAGAAGGGATCAAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * * *
8693069 AGATCTTATCTTCATGTATTTGGTAGCGGAGGAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* * ** *
8693115 AGATGTTATCTTTATGTATTTGGCAGCGGAGGAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
* **
8693161 AGATCTTGTCTTCCTGTATTTGGCAGCAGAGTAGATCGAAGAT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
8693204 GGTGAATCTT
Statistics
Matches: 594, Mismatches: 47, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 594 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (46 bp):
AGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGC
Found at i:8693742 original size:132 final size:132
Alignment explanation
Indices: 8693193--8693725 Score: 861
Period size: 132 Copynumber: 4.0 Consensus size: 132
8693183 GCAGCAGAGT
*
8693193 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAAGCAAATTTAAGCCATTAGTCCT
* * * *
8693258 ATCACCCTAAGCAGTAGT-GAAATAGGTTGAAGATTGCAGATTCTGTCACCCTAAATAGTAGTGG
66 ATCACCCTAAGCAGTAGTAG-AGTAGGTTGAAGATTACAGATTCTGTCACCCGAAGTAGTAGTGG
*
8693322 GGC
130 AGC
* * *
8693325 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGCGAAGCAGATTTAAGCCATTTGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAAGCAAATTTAAGCCATTAGTCCT
8693390 ATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTACAGATTCTGTCACCCGAAGTAGTAGTGGA
66 ATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTACAGATTCTGTCACCCGAAGTAGTAGTGGA
8693455 GC
131 GC
* * *
8693457 AGATCGAAGATGGTGAATCTTATCTTCCTAATACAGCAGAGAAGCAAATTTATGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAAGCAAATTTAAGCCATTAGTCCT
8693522 ATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTACAGATTCTGTCACCCGAAGTAGTAGTGGA
66 ATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTACAGATTCTGTCACCCGAAGTAGTAGTGGA
8693587 GC
131 GC
* *
8693589 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCT
1 AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAAGCAAATTTAAGCCATTAGTCCT
* * * * * * *
8693654 ATCACCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTATCCCCCTAAGCAGTAGTGGA
66 ATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTACAGATTCTGTCACCCGAAGTAGTAGTGGA
8693719 GC
131 GC
8693721 AGATC
1 AGATC
8693726 AACAATAACG
Statistics
Matches: 373, Mismatches: 27, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 372 1.00
133 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
AGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAAGCAAATTTAAGCCATTAGTCCT
ATCACCCTAAGCAGTAGTAGAGTAGGTTGAAGATTACAGATTCTGTCACCCGAAGTAGTAGTGGA
GC
Found at i:8695218 original size:26 final size:25
Alignment explanation
Indices: 8695180--8695229 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
8695170 NNNNNNCACC
*
8695180 TTATTATAAATATCTTTATATCTTA
1 TTATTATAAATATCTATATATCTTA
* *
8695205 TTATGTATATATATCTATATCTCTT
1 TTAT-TATAAATATCTATATATCTT
8695230 TTTAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (25 bp):
TTATTATAAATATCTATATATCTTA
Found at i:8701528 original size:20 final size:20
Alignment explanation
Indices: 8701488--8701539 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
8701478 TAAATTTTTT
8701488 TATTTCCTCATAGTTTTTGA
1 TATTTCCTCATAGTTTTTGA
*
8701508 TATTTCCTCGTA-TTTTATGA
1 TATTTCCTCATAGTTTT-TGA
*
8701528 TACTTCCTCATA
1 TATTTCCTCATA
8701540 ATTATTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.52
Consensus pattern (20 bp):
TATTTCCTCATAGTTTTTGA
Found at i:8701681 original size:21 final size:22
Alignment explanation
Indices: 8701632--8701673 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8701622 TTGGTACACC
8701632 CTCAT-AA-TTTTTTGTATGGT
1 CTCATAAATTTTTTTGTATGGT
8701652 CTCATAAATTTTTTTGTATGGT
1 CTCATAAATTTTTTTGTATGGT
8701674 TTTGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (22 bp):
CTCATAAATTTTTTTGTATGGT
Found at i:8702105 original size:20 final size:20
Alignment explanation
Indices: 8702065--8702105 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8702055 GCTAAAATTT
*
8702065 AATTTTGAAAGCATACCAAA
1 AATTTTGAAAGCATACAAAA
*
8702085 AATTTTGAAAGCATATAAAA
1 AATTTTGAAAGCATACAAAA
8702105 A
1 A
8702106 TGATGTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.27
Consensus pattern (20 bp):
AATTTTGAAAGCATACAAAA
Found at i:8703317 original size:33 final size:33
Alignment explanation
Indices: 8703291--8703469 Score: 137
Period size: 33 Copynumber: 5.4 Consensus size: 33
8703281 GAGAAAGTTC
* * * *
8703291 GCTAGAACAGTAAATACAAAATAGAGATAGCCT
1 GCTAGGACAGTAAACACAAAATAGAGAAAGCCG
* * *
8703324 GCTAGGACAGTAAACATAGAACAGAGAAAGTCC-
1 GCTAGGACAGTAAACACAAAATAGAGAAAG-CCG
* * * *
8703357 GTTGGGACAGTAAACACAAAATAGAGATAGTCG
1 GCTAGGACAGTAAACACAAAATAGAGAAAGCCG
* * *
8703390 GCTAGGACAGTAAACATAGAACAGAGAAAGTCC-
1 GCTAGGACAGTAAACACAAAATAGAGAAAG-CCG
** * * * *
8703423 TTTGGGACAATAAACACAAAATAGAGATAGCCT
1 GCTAGGACAGTAAACACAAAATAGAGAAAGCCG
*
8703456 GCTAGGACATTAAA
1 GCTAGGACAGTAAA
8703470 AACAGAGAAT
Statistics
Matches: 110, Mismatches: 32, Indels: 8
0.73 0.21 0.05
Matches are distributed among these distances:
32 3 0.03
33 104 0.95
34 3 0.03
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (33 bp):
GCTAGGACAGTAAACACAAAATAGAGAAAGCCG
Found at i:8703386 original size:66 final size:66
Alignment explanation
Indices: 8703297--8703508 Score: 309
Period size: 66 Copynumber: 3.2 Consensus size: 66
8703287 GTTCGCTAGA
*
8703297 ACAGTAAATACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
1 ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
8703362 G
66 G
* * *
8703363 ACAGTAAACACAAAATAGAGATAGTCGGCTAGGACAGTAAACATAGAACAGAGAAAGTCCTTTGG
1 ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
8703428 G
66 G
* * * * * * *
8703429 ACAATAAACACAAAATAGAGATAGCCTGCTAGGACATTAAAAACAGAGA-ATAGATAGTTCGTTG
1 ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGA-ACAGAGAAAGTCCGTTG
8703493 GG
65 GG
8703495 ACAGTAAACACAAA
1 ACAGTAAACACAAA
8703509 TAAAGTTCGT
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
66 129 0.99
67 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (66 bp):
ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
G
Found at i:8726428 original size:11 final size:11
Alignment explanation
Indices: 8726406--8726436 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
8726396 TCATGGATTA
8726406 TCTCTGTTTATT
1 TCTCT-TTTATT
8726418 TCTCTTTTATT
1 TCTCTTTTATT
8726429 TCTCTTTT
1 TCTCTTTT
8726437 TCCACCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.71
Consensus pattern (11 bp):
TCTCTTTTATT
Found at i:8731204 original size:138 final size:139
Alignment explanation
Indices: 8730945--8731223 Score: 551
Period size: 138 Copynumber: 2.0 Consensus size: 139
8730935 TAATAACTTA
8730945 ATTTTAAATATAATTATAGAAAATTTAAAGTGCTTAAGATAAAAAATTTAAAAATTATTTTAAAA
1 ATTTTAAATATAATTATAGAAAATTTAAAGTGCTTAAGATAAAAAATTTAAAAATTATTTTAAAA
8731010 TATCAAAATTTTACACCAACCAGTACACATAGTTACAAGTCAATATTGATCAAAACAGGCAGAAA
66 TATCAAAATTTTACACCAACCAGTACACATAGTTACAAGTCAATATTGATCAAAACAGGCAGAAA
8731075 TATATCTAT
131 TATATCTAT
8731084 ATTTTAAATA-AATTATAGAAAATTTAAAGTGCTTAAGATAAAAAATTTAAAAATTATTTTAAAA
1 ATTTTAAATATAATTATAGAAAATTTAAAGTGCTTAAGATAAAAAATTTAAAAATTATTTTAAAA
8731148 TATCAAAATTTTACACCAACCAGTACACATAGTTACAAGTCAATATTGATCAAAACAGGCAGAAA
66 TATCAAAATTTTACACCAACCAGTACACATAGTTACAAGTCAATATTGATCAAAACAGGCAGAAA
8731213 TATATCTAT
131 TATATCTAT
8731222 AT
1 AT
8731224 AGTCAAAATG
Statistics
Matches: 140, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
138 130 0.93
139 10 0.07
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (139 bp):
ATTTTAAATATAATTATAGAAAATTTAAAGTGCTTAAGATAAAAAATTTAAAAATTATTTTAAAA
TATCAAAATTTTACACCAACCAGTACACATAGTTACAAGTCAATATTGATCAAAACAGGCAGAAA
TATATCTAT
Found at i:8737922 original size:33 final size:33
Alignment explanation
Indices: 8737884--8737951 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
8737874 AATTAATGGG
*
8737884 AAAAGATGGTTTGGTAGATTAAGGTATGGGATA
1 AAAAGATGGTTTGATAGATTAAGGTATGGGATA
8737917 AAAAGATGGTTTGATAGATTAAGGTATGGGATA
1 AAAAGATGGTTTGATAGATTAAGGTATGGGATA
8737950 AA
1 AA
8737952 GTGGATTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (33 bp):
AAAAGATGGTTTGATAGATTAAGGTATGGGATA
Found at i:8751544 original size:154 final size:154
Alignment explanation
Indices: 8751381--8752021 Score: 1081
Period size: 154 Copynumber: 4.2 Consensus size: 154
8751371 AAAATCCGAT
* * * * * * * *
8751381 AAAAAATACGAAC-AAAGGACCGAAATAAGGGTTTTTTTTTAACTCATTTATAAAACACACTAAA
1 AAAAAATACGAACAAAAGG-CCAAAATAATGGTTTTTCTTAAATTTATTTAAAAAACACAGTAAA
* * *
8751445 TGAATACACTTCAAACATAATCTACTAAAATAATGTAAAATAATAAAATTAGAAAATATTATATT
65 TTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATATTATATT
8751510 TTTTAAAAGTAATAAAATTCGGGGA
130 TTTTAAAAGTAATAAAATTCGGGGA
8751535 AAAAAATACGAACAAAAGGCCAAAATAATGGTTTTTCTTAAATTTATTTAAAAAACACAGTAAAT
1 AAAAAATACGAACAAAAGGCCAAAATAATGGTTTTTCTTAAATTTATTTAAAAAACACAGTAAAT
*
8751600 TAATACATTTCAAACATAATGTACTAAAATGATGTAAAATAATAAAATTAGAAAATATTATATTT
66 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATATTATATTT
8751665 TTTAAAAGTAATAAAATTCGGGGA
131 TTTAAAAGTAATAAAATTCGGGGA
8751689 AAAAAATACGAACAAAAGGCCAAAATAATGGTTTTTCTTAAATTTATTTAAAAAACACAGTAAAT
1 AAAAAATACGAACAAAAGGCCAAAATAATGGTTTTTCTTAAATTTATTTAAAAAACACAGTAAAT
*
8751754 TAATACATTTCAAACATAATGTACTAAAATGATGTAAAATAATAAAATTAGAAAATATTATATTT
66 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATATTATATTT
8751819 TTTAAAAGTAATAAAATTCGGGGA
131 TTTAAAAGTAATAAAATTCGGGGA
8751843 AAAAAATACGAACAAAAGGCCAAAATAATGGTTTTTCTTAAATTTATTTAAAAAACACAGTAAAT
1 AAAAAATACGAACAAAAGGCCAAAATAATGGTTTTTCTTAAATTTATTTAAAAAACACAGTAAAT
* *
8751908 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAAAAATAAAATTAGAAAATAGTATATTT
66 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATATTATATTT
* *
8751973 TTTAAAAGCAATAAAA-TC-CGGA
131 TTTAAAAGTAATAAAATTCGGGGA
* *
8751995 AAAAAATACGAACAAAGGGCCGAAATA
1 AAAAAATACGAACAAAAGGCCAAAATA
8752022 CGAACAATTG
Statistics
Matches: 467, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
152 28 0.06
153 2 0.00
154 432 0.93
155 5 0.01
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (154 bp):
AAAAAATACGAACAAAAGGCCAAAATAATGGTTTTTCTTAAATTTATTTAAAAAACACAGTAAAT
TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATATTATATTT
TTTAAAAGTAATAAAATTCGGGGA
Found at i:8752451 original size:23 final size:24
Alignment explanation
Indices: 8752392--8752453 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 24
8752382 ACTTTTTTCT
8752392 AATA-TTAAATTATGATAAATTATTTA
1 AATATTTAAA-TAT-AT-AATTATTTA
8752418 AATATTTAAATATATAATT-TTTA
1 AATATTTAAATATATAATTATTTA
8752441 AAT-TTTAAA-ATAT
1 AATATTTAAATATAT
8752454 TATCTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.11
22 6 0.17
23 7 0.20
24 4 0.11
25 2 0.06
26 7 0.20
27 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
AATATTTAAATATATAATTATTTA
Found at i:8755356 original size:5 final size:6
Alignment explanation
Indices: 8755338--8755368 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
8755328 CACTTCAACA
8755338 TAAAAT TAAAAT T-AAAT TAAAAT TAAAAT TA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TA
8755369 GATTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAAAT
Found at i:8755356 original size:11 final size:11
Alignment explanation
Indices: 8755340--8755364 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8755330 CTTCAACATA
8755340 AAATTAAAATT
1 AAATTAAAATT
8755351 AAATTAAAATT
1 AAATTAAAATT
8755362 AAA
1 AAA
8755365 ATTAGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:8760411 original size:2 final size:2
Alignment explanation
Indices: 8760404--8760440 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
8760394 CAACACTGTC
* *
8760404 TA TA TA TA TA TA TA TA TA CA CA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8760441 CTTCACCATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8774213 original size:105 final size:105
Alignment explanation
Indices: 8774072--8774476 Score: 492
Period size: 105 Copynumber: 3.8 Consensus size: 105
8774062 AAATAAAATT
* *
8774072 CGTGATAGTGTTACCGTTAATTAACAAAATAAAATTATAATTTAAATTACTAATTCTTTTTTGTT
1 CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
* * *
8774137 TTTGTGAAAAGGAGATATTGTAAGCTTTCTTTAATTTGAA
66 TCTCTGAAAAGGAGATATTGTAAGCTTTCTTTTATTTGAA
* * * *
8774177 CGTGATAGTATCACTGTTAATTAACAAATTATAATTATAATTTAAATTATTAATTCTTTTTTGTT
1 CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
** * **
8774242 TCTCTGAAAATAAGATATTGTAAACTGACTTTTATTTGAA
66 TCTCTGAAAAGGAGATATTGTAAGCTTTCTTTTATTTGAA
* * *
8774282 -GATGATAGTATTACCGTTAATTAATAAAATAAAATTATAATTTAAATCATTAATTCGTTTTTGT
1 CG-TGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGT
* * * * *
8774346 TTCTCTGGAAATGAGATGTTGTAAGGTTTTTTTTTTATTTGAA
65 TTCTCTGAAAAGGAGATATTGTAA-G-CTTTCTTTTATTTGAA
* * * * *
8774389 GGTGATAGTATTATTC-TAAATTAACAAAATAAAATTATAATTTTAATTATTAATTCTTTTTTAT
1 CGTGATAGTATTA-CCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGT
*
8774453 TTCTCTG-AAAGTGAGATGTTGTAA
65 TTCTCTGAAAAG-GAGATATTGTAA
8774477 TAAGAATGAG
Statistics
Matches: 257, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
104 1 0.00
105 167 0.65
106 3 0.01
107 84 0.33
108 2 0.01
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (105 bp):
CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
TCTCTGAAAAGGAGATATTGTAAGCTTTCTTTTATTTGAA
Found at i:8774458 original size:212 final size:210
Alignment explanation
Indices: 8774074--8774476 Score: 563
Period size: 212 Copynumber: 1.9 Consensus size: 210
8774064 ATAAAATTCG
* * * *
8774074 TGATAGTGTTACCGTTAATTAACAAAATAAAATTATAATTTAAATTACTAATTCTTTTTTGTTTT
1 TGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATCACTAATTCGTTTTTGTTTC
* * *
8774139 TGTGAAAAGGAGATATTGTAAGCTTTCTTTAATTTGAACGTGATAGTATCACTGTTAATTAACAA
66 TCTGAAAAGGAGATATTGTAAGCTTTCTTTAATTTGAACGTGATAGTATCACTCTAAATTAACAA
* * *
8774204 ATTATAATTATAATTTAAATTATTAATTCTTTTTTGTTTCTCTGAAAATAAGATATTGTAAACTG
131 AATAAAATTATAATTTAAATTATTAATTCTTTTTTATTTCTCTGAAAATAAGATATTGTAAACTG
8774269 ACTTTTATTTGAAGA
196 ACTTTTATTTGAAGA
* *
8774284 TGATAGTATTACCGTTAATTAATAAAATAAAATTATAATTTAAATCATTAATTCGTTTTTGTTTC
1 TGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATCACTAATTCGTTTTTGTTTC
* * * * * * * * *
8774349 TCTGGAAATGAGATGTTGTAAGGTTTTTTTTTTATTTGAAGGTGATAGTATTATTCTAAATTAAC
66 TCTGAAAAGGAGATATTGTAA-G-CTTTCTTTAATTTGAACGTGATAGTATCACTCTAAATTAAC
* * * *
8774414 AAAATAAAATTATAATTTTAATTATTAATTCTTTTTTATTTCTCTGAAAGTGAGATGTTGTAA
129 AAAATAAAATTATAATTTAAATTATTAATTCTTTTTTATTTCTCTGAAAATAAGATATTGTAA
8774477 TAAGAATGAG
Statistics
Matches: 166, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
210 76 0.46
211 1 0.01
212 89 0.54
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.46
Consensus pattern (210 bp):
TGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATCACTAATTCGTTTTTGTTTC
TCTGAAAAGGAGATATTGTAAGCTTTCTTTAATTTGAACGTGATAGTATCACTCTAAATTAACAA
AATAAAATTATAATTTAAATTATTAATTCTTTTTTATTTCTCTGAAAATAAGATATTGTAAACTG
ACTTTTATTTGAAGA
Found at i:8783558 original size:19 final size:19
Alignment explanation
Indices: 8783531--8783570 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8783521 GTCCAAGTGT
* *
8783531 ATAACTAGTATTACACTAC
1 ATAACTAGTACTACACCAC
*
8783550 ATAATTAGTACTACACCAC
1 ATAACTAGTACTACACCAC
8783569 AT
1 AT
8783571 TAAAGCATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAACTAGTACTACACCAC
Found at i:8785525 original size:22 final size:22
Alignment explanation
Indices: 8785500--8785541 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
8785490 CCATTAGTTG
8785500 CTACAA-CCATTCAACAAAACTA
1 CTACAAGCC-TTCAACAAAACTA
8785522 CTACAAGCCTTCAACAAAAC
1 CTACAAGCCTTCAACAAAAC
8785542 ACAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.17
Consensus pattern (22 bp):
CTACAAGCCTTCAACAAAACTA
Found at i:8788167 original size:23 final size:23
Alignment explanation
Indices: 8788139--8788183 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8788129 CATTTTAAAA
*
8788139 TTTTAAAAATTTAAAATAATTAT
1 TTTTAAAAATTAAAAATAATTAT
*
8788162 TTTTAAAAATTAAAAATCATTA
1 TTTTAAAAATTAAAAATAATTA
8788184 AAATTACGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTAAAAATTAAAAATAATTAT
Found at i:8795755 original size:11 final size:11
Alignment explanation
Indices: 8795739--8795768 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
8795729 TTATATAAAG
8795739 CTTCCCTTTCC
1 CTTCCCTTTCC
8795750 CTTCCCTTTCC
1 CTTCCCTTTCC
8795761 CTTCCCTT
1 CTTCCCTT
8795769 ACACTGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
CTTCCCTTTCC
Found at i:8796650 original size:21 final size:22
Alignment explanation
Indices: 8796607--8796650 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8796597 ATGTATATTT
*
8796607 TGTTACATTAATGTTTTTAAAA
1 TGTTACATTAATGTTTATAAAA
*
8796629 TGTTATATTAAT-TTTATAAAA
1 TGTTACATTAATGTTTATAAAA
8796650 T
1 T
8796651 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
TGTTACATTAATGTTTATAAAA
Found at i:8797677 original size:21 final size:20
Alignment explanation
Indices: 8797639--8797678 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8797629 AAATAATATA
*
8797639 TAATATATTTTTTATATTAG
1 TAATATATTTTTAATATTAG
*
8797659 TAATGTATTTTTAACTATTA
1 TAATATATTTTTAA-TATTA
8797679 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
TAATATATTTTTAATATTAG
Found at i:8804590 original size:20 final size:20
Alignment explanation
Indices: 8804565--8804605 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
8804555 ACATACTATA
8804565 AGAAGTTATAACAAAATTTG
1 AGAAGTTATAACAAAATTTG
8804585 AGAAGTTATAACAAAATTTG
1 AGAAGTTATAACAAAATTTG
8804605 A
1 A
8804606 TCTTTTCGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (20 bp):
AGAAGTTATAACAAAATTTG
Found at i:8813165 original size:35 final size:35
Alignment explanation
Indices: 8813119--8813195 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
8813109 CCTAACTTCC
*
8813119 CATCTAAGTACAAAACATGTGTATGCTTTGCCATT
1 CATCTTAGTACAAAACATGTGTATGCTTTGCCATT
8813154 CATCTTAGTACAAAACATGTGTATGCTTTGCCATT
1 CATCTTAGTACAAAACATGTGTATGCTTTGCCATT
8813189 CATCTTA
1 CATCTTA
8813196 TCTTCTATTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (35 bp):
CATCTTAGTACAAAACATGTGTATGCTTTGCCATT
Found at i:8814939 original size:13 final size:14
Alignment explanation
Indices: 8814921--8814961 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
8814911 TTTTCAAAGA
8814921 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
8814934 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
8814948 TACGGTTTA-GACT
1 TATGGTTTAGGACT
8814961 T
1 T
8814962 TAGGGGTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:8816152 original size:16 final size:16
Alignment explanation
Indices: 8816131--8816162 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8816121 ACTTAGTAAT
8816131 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
8816147 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
8816163 GAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAGTTAA
Found at i:8817564 original size:47 final size:48
Alignment explanation
Indices: 8817495--8817589 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 48
8817485 TGCTTCGATT
*
8817495 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCAT-ATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATGATGGAGGTG
* * * *
8817542 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTTGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATGATGGAGGTG
8817590 GTTAGCGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 34 0.81
48 8 0.19
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (48 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATGATGGAGGTG
Found at i:8818262 original size:22 final size:22
Alignment explanation
Indices: 8818228--8818269 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8818218 CGACGCTGTT
8818228 ATATAATACATAACTTACATTA
1 ATATAATACATAACTTACATTA
* *
8818250 ATATTATATATAACTTACAT
1 ATATAATACATAACTTACAT
8818270 AACTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAATACATAACTTACATTA
Found at i:8818289 original size:34 final size:34
Alignment explanation
Indices: 8818246--8818641 Score: 774
Period size: 34 Copynumber: 11.6 Consensus size: 34
8818236 CATAACTTAC
* *
8818246 ATTAATATTATATATAACTTACATAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818280 ATTAATATTATACATAACTTACCTAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818314 ATTAATATTATACATAACTTACCTAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818348 ATTAATATTATACATAACTTACCTAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818382 ATTAATATTATACATAACTTACCTAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818416 ATTAATATTATACATAACTTACCTAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818450 ATTAATATTATACATAACTTACCTAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818484 ATTAATATTATACATAACTTACCTAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818518 ATTAATATTATACATAACTTACCTAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818552 ATTAATATTATACATAACTTACCTAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818586 ATTAATATTATACATAACTTACCTAACTTAATTA
1 ATTAATATTATACATAACTTACCTAACTTAATTA
8818620 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTTAC
8818642 NNNNNNNNNN
Statistics
Matches: 360, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 360 1.00
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.41
Consensus pattern (34 bp):
ATTAATATTATACATAACTTACCTAACTTAATTA
Found at i:8824780 original size:21 final size:21
Alignment explanation
Indices: 8824754--8824804 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
8824744 CTACAACTTA
* *
8824754 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
8824775 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
8824796 AAGCTGAGG
1 AAGCAGAGG
8824805 TTCAACGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:8824885 original size:21 final size:21
Alignment explanation
Indices: 8824856--8824910 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
8824846 GATGTGACAG
*
8824856 CGAGAGAAGCAGAGGCTAAAA
1 CGAGGGAAGCAGAGGCTAAAA
* * *
8824877 CGAGGGAAGTAGAGGCTACAG
1 CGAGGGAAGCAGAGGCTAAAA
*
8824898 TGAGGGAAGCAGA
1 CGAGGGAAGCAGA
8824911 ACAGCTTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.40, T:0.07
Consensus pattern (21 bp):
CGAGGGAAGCAGAGGCTAAAA
Found at i:8825278 original size:42 final size:42
Alignment explanation
Indices: 8825229--8825558 Score: 506
Period size: 42 Copynumber: 7.9 Consensus size: 42
8825219 GTTTTTTGCA
*
8825229 TAAGCGCCACTAAAGACCATGGTCTATAGTGGCGTTTTGTTT
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTT
8825271 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTT-TTGGT
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTT--T
* * *
8825314 TAAGCGCCGCTAAATACCATCGTCTATAGTGGCGTTTT-TTGG
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTT-T
* * * *
8825356 TAAGCACTGCTAAAGA-CACGGTCTGTAGTGGCGTTTTGTTT
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTT
8825397 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTT
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTT
8825439 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTT
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTT
8825481 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTT-TATT
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGT-TT
* *
8825523 TAAGCGCCACTACAGACCATGGTCTATAGTGGCGTT
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTT
8825559 GTAAAAAAAA
Statistics
Matches: 266, Mismatches: 17, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
41 35 0.13
42 192 0.72
43 39 0.15
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTT
Found at i:8825599 original size:84 final size:84
Alignment explanation
Indices: 8825238--8825616 Score: 248
Period size: 84 Copynumber: 4.5 Consensus size: 84
8825228 ATAAGCGCCA
* * *
8825238 CTAAAGACCATGGTCTATAGTGGCGTTTTGT-TTTAAGCGCCGCTAAAGACCATGGTCTATAGTG
1 CTAAAGACCATGATCTATAGCGGCGTTTT-TATTTAAGCGCCACTAAAGACCATGGTCTATAGTG
* ***** **
8825302 GCGTTTTTTGGTTAAGCGCCG
65 GCG-TTGTAAAAAAAAAGCCG
* * * * ** * *
8825323 CTAAATACCATCG-TCTATAGTGGCGTTTTT-TGGTAAGCACTGCTAAAGA-CACGGTCTGTAGT
1 CTAAAGACCAT-GATCTATAGCGGCGTTTTTAT-TTAAGCGCCACTAAAGACCATGGTCTATAGT
* ***** **
8825385 GGCGTTTTGTTTTAAGCGCCG
64 GGCGTTGTAAAAAAAAAGCCG
* * *
8825406 CTAAAGACCATGGTCTATAGTGGCGTTTTGT-TTTAAGCGCCGCTAAAGACCATGGTCTATAGTG
1 CTAAAGACCATGATCTATAGCGGCGTTTT-TATTTAAGCGCCACTAAAGACCATGGTCTATAGTG
* ***** **
8825470 GCGTTTTGTTTTAAGCGCCG
65 GCGTTGTAAAAAAAAAGCCG
* * *
8825490 CTAAAGACCATGGTCTATAGTGGCGTTTTTATTTAAGCGCCACTACAGACCATGGTCTATAGTGG
1 CTAAAGACCATGATCTATAGCGGCGTTTTTATTTAAGCGCCACTAAAGACCATGGTCTATAGTGG
8825555 CGTTGTAAAAAAAAAGCCG
66 CGTTGTAAAAAAAAAGCCG
* * *
8825574 CTAAAGTTCC-TGATCTTTAGCGGCGTTTATTATATAAAGCGCC
1 CTAAAG-ACCATGATCTATAGCGGCGTTT-TTAT-TTAAGCGCC
8825617 GCGAAAGTTA
Statistics
Matches: 255, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
82 1 0.00
83 55 0.22
84 144 0.56
85 46 0.18
86 9 0.04
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (84 bp):
CTAAAGACCATGATCTATAGCGGCGTTTTTATTTAAGCGCCACTAAAGACCATGGTCTATAGTGG
CGTTGTAAAAAAAAAGCCG
Found at i:8825599 original size:126 final size:126
Alignment explanation
Indices: 8825212--8825623 Score: 460
Period size: 126 Copynumber: 3.2 Consensus size: 126
8825202 CTGCCAAAAT
*
8825212 TAGCGGCGTTTTTTGCATAAGCGCCACTAAAGACCATGGTCTATAGTGGCGTTTTGTTTTAAGCG
1 TAGCGGCGTTTTTTG-ATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTTTAAGCG
***
8825277 CCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGTTAAGCGCCGCTAAA-TACCATCGTCTA
65 CCGCTAAAGACCATGGTCTATAGTGGCG-TTTTAAATTAAGCGCCGCTAAAGTACCAT-GTCTA
* * * * * *
8825340 TAGTGGCGTTTTTTGGTAAGCACTGCTAAAGA-CACGGTCTGTAGTGGCGTTTTGTTTTAAGCGC
1 TAGCGGCGTTTTTTGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTTTAAGCGC
***
8825404 CGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTTTAAGCGCCGCTAAAG-ACCATGGTCTA
66 CGCTAAAGACCATGGTCTATAGTGGCGTTTTAAATTAAGCGCCGCTAAAGTACCAT-GTCTA
* *
8825465 TAGTGGCGTTTTGTT-TTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTT-TATTTAAGC
1 TAGCGGCGTTTT-TTGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGT-TTTAAGC
* * * ** ** * *
8825528 GCCACTACAGACCATGGTCTATAGTGGCGTTGTAAAAAAAAAGCCGCTAAAGTTCC-TGATCTT
64 GCCGCTAAAGACCATGGTCTATAGTGGCGTTTTAAATTAAGCGCCGCTAAAGTACCATG-TCTA
*
8825591 TAGCGGCGTTTATTAT-ATAAAGCGCCGCGAAAG
1 TAGCGGCGTTT-TT-TGAT-AAGCGCCGCTAAAG
8825624 TTACTGACGT
Statistics
Matches: 244, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
125 57 0.23
126 142 0.58
127 18 0.07
128 27 0.11
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (126 bp):
TAGCGGCGTTTTTTGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTTTTAAGCGC
CGCTAAAGACCATGGTCTATAGTGGCGTTTTAAATTAAGCGCCGCTAAAGTACCATGTCTA
Found at i:8850624 original size:25 final size:26
Alignment explanation
Indices: 8850595--8850651 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
8850585 AAAATTTCCA
8850595 ATATCA-TACCAAAATATT-TAACGTT
1 ATATCAGTACCAAAAT-TTATAACGTT
* *
8850620 ATATCAGTACTAAAATTTATAATGTT
1 ATATCAGTACCAAAATTTATAACGTT
8850646 ATATCA
1 ATATCA
8850652 AAATTTCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (26 bp):
ATATCAGTACCAAAATTTATAACGTT
Found at i:8853194 original size:25 final size:25
Alignment explanation
Indices: 8853137--8853207 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
8853127 AAAGATGCAT
*
8853137 ATATATATATTATAAAAAAACCATGC
1 ATATATATATTATATAAAAA-CATGC
* *
8853163 -GA-GTATATTATATAAAAACATGC
1 ATATATATATTATATAAAAACATGC
8853186 ATATATATATTATATAAAAACA
1 ATATATATATTATATAAAAACA
8853208 ATGCGTGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
23 5 0.13
24 15 0.39
25 18 0.47
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.32
Consensus pattern (25 bp):
ATATATATATTATATAAAAACATGC
Found at i:8853224 original size:25 final size:23
Alignment explanation
Indices: 8853142--8853224 Score: 67
Period size: 25 Copynumber: 3.4 Consensus size: 23
8853132 TGCATATATA
* * *
8853142 TATATTATAAAAAAACCATGCGAG
1 TATAATATATAAAAA-CATGCGTG
* * *
8853166 TATATTATATAAAAACATGCATA
1 TATAATATATAAAAACATGCGTG
8853189 TATATATTATATAAAAACAATGCGTG
1 TATA-A-TATATAAAAAC-ATGCGTG
8853215 TATGAATATA
1 TAT-AATATA
8853225 GAAATAATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
23 9 0.19
24 14 0.29
25 15 0.31
26 9 0.19
27 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (23 bp):
TATAATATATAAAAACATGCGTG
Found at i:8853267 original size:18 final size:18
Alignment explanation
Indices: 8853246--8853285 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8853236 AATAACCATG
8853246 ATAATAAATAA-TATAATA
1 ATAAT-AATAAGTATAATA
*
8853264 ATAATAATAAGTATAATG
1 ATAATAATAAGTATAATA
8853282 ATAA
1 ATAA
8853286 CAACATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAATAATAAGTATAATA
Found at i:8853273 original size:12 final size:12
Alignment explanation
Indices: 8853227--8853285 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
8853217 TGAATATAGA
8853227 AATAATGATAAT
1 AATAATGATAAT
**
8853239 AACCATGATAAT
1 AATAATGATAAT
8853251 AAATAAT-ATAAT
1 -AATAATGATAAT
*
8853263 AATAATAATAAGT
1 AATAATGATAA-T
8853276 -ATAATGATAA
1 AATAATGATAA
8853286 CAACATAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 6 0.15
12 28 0.72
13 5 0.13
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (12 bp):
AATAATGATAAT
Done.