Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 138 of 205
Found at i:41888914 original size:31 final size:31
Alignment explanation
Indices: 41888876--41888939 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
41888866 CGTTTACAAT
41888876 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
41888907 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
41888938 AA
1 AA
41888940 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:41890408 original size:46 final size:46
Alignment explanation
Indices: 41890358--41890533 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
41890348 TGTTTGGGCA
41890358 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
41890404 TCCGAACTCGTTGAGTTGGGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* *
41890449 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
41890497 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41890534 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 63 0.57
47 26 0.24
48 2 0.02
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:41890513 original size:93 final size:93
Alignment explanation
Indices: 41890354--41890525 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
41890344 AGGATGTTTG
*
41890354 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
*
41890419 TTGGGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
41890447 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
41890512 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
41890526 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:41890971 original size:107 final size:107
Alignment explanation
Indices: 41890785--41890998 Score: 374
Period size: 107 Copynumber: 2.0 Consensus size: 107
41890775 TGAATGTCTT
* *
41890785 GGTGATGATTATGCAAATGATGTTTTATGTTTGCTTATATGGTTATGTTACTTGCTATTTGCATG
1 GGTGATGATTATGCAAATGATGTTTTATGTTTGCGTATATAGTTATGTTACTTGCTATTTGCATG
*
41890850 TGAACTTACTAAGCATTTATGCTTACTCCCTCCTTTTCATTC
66 TGAACTTACTAAGCATTTATGCTTACTCCCTCATTTTCATTC
*
41890892 GGTGATGATTATGCAAATGATGTTTTATGTTTGCGTATATAGTTGTGTTACTTGCTATTTGCATG
1 GGTGATGATTATGCAAATGATGTTTTATGTTTGCGTATATAGTTATGTTACTTGCTATTTGCATG
* *
41890957 TGAGCTTACTAAGCATTTATGCTTACTTCCTCATTTTCATTC
66 TGAACTTACTAAGCATTTATGCTTACTCCCTCATTTTCATTC
41890999 CTTGTAGTGT
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 101 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (107 bp):
GGTGATGATTATGCAAATGATGTTTTATGTTTGCGTATATAGTTATGTTACTTGCTATTTGCATG
TGAACTTACTAAGCATTTATGCTTACTCCCTCATTTTCATTC
Found at i:41892017 original size:48 final size:48
Alignment explanation
Indices: 41891941--41892064 Score: 185
Period size: 48 Copynumber: 2.6 Consensus size: 48
41891931 CGGGGCGTTA
* * *
41891941 CAAACATGGTCTTGCACTAGCTCTCATATAAATGCCGATGCCATGTTC
1 CAAACATGGTCTTACACTAGCTCTCATATAAAGGCCGACGCCATGTTC
* * **
41891989 CAAACATGGTCTTACACTGGCTCACATATCGAGGCCGACGCCATGTTC
1 CAAACATGGTCTTACACTAGCTCTCATATAAAGGCCGACGCCATGTTC
41892037 CAAACATGGTCTTACACTAGCTCTCATA
1 CAAACATGGTCTTACACTAGCTCTCATA
41892065 ACCCTAGTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
CAAACATGGTCTTACACTAGCTCTCATATAAAGGCCGACGCCATGTTC
Found at i:41893582 original size:43 final size:43
Alignment explanation
Indices: 41893533--41893705 Score: 190
Period size: 43 Copynumber: 4.0 Consensus size: 43
41893523 TGGCATAGAA
** * * *
41893533 AGTGCATCATCAGATGTACCAAAGCAACTATACTGGTACACAT
1 AGTGCATCATCAGATAAACCGAAGCAACTATACTGGCACACAC
*
41893576 AGTGCATCAT-AGGATAAACCGAAGCATCTATACTGGCACACAC
1 AGTGCATCATCA-GATAAACCGAAGCAACTATACTGGCACACAC
* *
41893619 AGTGCATCATCAGATAAACCGAAGCAACTATACTAGCACAGAC
1 AGTGCATCATCAGATAAACCGAAGCAACTATACTGGCACACAC
* * * *
41893662 TA-TGCATCAT-TGAATAAACTGAAGCATCTATATTGGCACACAC
1 -AGTGCATCATCAG-ATAAACCGAAGCAACTATACTGGCACACAC
41893705 A
1 A
41893706 ATGTATCCTC
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
42 3 0.03
43 106 0.95
44 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (43 bp):
AGTGCATCATCAGATAAACCGAAGCAACTATACTGGCACACAC
Found at i:41893668 original size:86 final size:86
Alignment explanation
Indices: 41893533--41893705 Score: 240
Period size: 86 Copynumber: 2.0 Consensus size: 86
41893523 TGGCATAGAA
** * * *
41893533 AGTGCATCATCAGATGTACCAAAGCAACTATACTGGTACACATAGTGCATCATAGGATAAACCGA
1 AGTGCATCATCAGATAAACCAAAGCAACTATACTAGCACACATAGTGCATCATAGAATAAACCGA
41893598 AGCATCTATACTGGCACACAC
66 AGCATCTATACTGGCACACAC
* * * *
41893619 AGTGCATCATCAGATAAACCGAAGCAACTATACTAGCACAGACTA-TGCATCATTGAATAAACTG
1 AGTGCATCATCAGATAAACCAAAGCAACTATACTAGCACACA-TAGTGCATCATAGAATAAACCG
*
41893683 AAGCATCTATATTGGCACACAC
65 AAGCATCTATACTGGCACACAC
41893705 A
1 A
41893706 ATGTATCCTC
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
86 74 0.97
87 2 0.03
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (86 bp):
AGTGCATCATCAGATAAACCAAAGCAACTATACTAGCACACATAGTGCATCATAGAATAAACCGA
AGCATCTATACTGGCACACAC
Found at i:41898528 original size:20 final size:21
Alignment explanation
Indices: 41898494--41898547 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
41898484 TGATGATATT
*
41898494 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
41898515 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
41898535 TTTTATTATTTTA
1 TTATATTATTTTA
41898548 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:41898553 original size:11 final size:11
Alignment explanation
Indices: 41898537--41898575 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
41898527 ATGAGATATT
41898537 TTATTATTTTA
1 TTATTATTTTA
*
41898548 TTATTATTTCA
1 TTATTATTTTA
41898559 TTATTATTTTA
1 TTATTATTTTA
41898570 TTATTA
1 TTATTA
41898576 AATAAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:41898561 original size:19 final size:19
Alignment explanation
Indices: 41898533--41898574 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
41898523 TTTAATGAGA
*
41898533 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
41898552 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
41898571 TATT
1 TATT
41898575 AAATAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:41906967 original size:46 final size:46
Alignment explanation
Indices: 41906915--41907096 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
41906905 AGTGTGCTCT
41906915 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
41906961 CTGATATGAAATGCGTAAGACCATGGCTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
41907007 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
41907053 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
41907097 TCATGTCAAA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 125 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:41921065 original size:48 final size:47
Alignment explanation
Indices: 41920986--41921091 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 47
41920976 GAGTGTCATG
**
41920986 GAAAAAGAAATTGAGATTGAAAATGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
41921034 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
41921082 GAAAAAGAAA
1 GAAAAAGAAA
41921092 GAAAAGACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
48 40 0.78
49 7 0.14
50 4 0.08
ACGTcount: A:0.58, C:0.02, G:0.25, T:0.15
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:41922804 original size:20 final size:20
Alignment explanation
Indices: 41922748--41922804 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
41922738 AGCTCCGTTT
* *
41922748 AGCTCGATTCCAGCTCACTCG
1 AGCTCAATT-CAGCTCACTCA
* *
41922769 AGCTCAAGTCAACTCACTCA
1 AGCTCAATTCAGCTCACTCA
41922789 AGCTCAATTCAGCTCA
1 AGCTCAATTCAGCTCA
41922805 ATCTTAACCC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.23
Consensus pattern (20 bp):
AGCTCAATTCAGCTCACTCA
Found at i:41923320 original size:152 final size:152
Alignment explanation
Indices: 41923125--41923427 Score: 588
Period size: 152 Copynumber: 2.0 Consensus size: 152
41923115 GTTCATGAAT
41923125 GGATTGGTGCAATGTATGAGAGTGTGCATGCACAATTGAGGTTCAATGGATGGCATTTAAAGGAG
1 GGATTGGTGCAATGTATGAGAGTGTGCATGCACAATTGAGGTTCAATGGATGGCATTTAAAGGAG
*
41923190 CACATGCATTTGGGACGTTCATGGAAGAGGGAGTTGCTGAAAGTTCATGTATTTGAAGATTCATG
66 CACATGCATTTGGGACGTTCATGCAAGAGGGAGTTGCTGAAAGTTCATGTATTTGAAGATTCATG
41923255 GATCATATTTATGGGGGAAAAC
131 GATCATATTTATGGGGGAAAAC
*
41923277 GGATTGGTGCAATGTATGGGAGTGTGCATGCACAATTGAGGTTCAATGGATGGCATTTAAAGGAG
1 GGATTGGTGCAATGTATGAGAGTGTGCATGCACAATTGAGGTTCAATGGATGGCATTTAAAGGAG
41923342 CACATGCATTTGGGACGTTCATGCAAGAGGGAGTTGCTGAAAGTTCATGTATTTGAAGATTCATG
66 CACATGCATTTGGGACGTTCATGCAAGAGGGAGTTGCTGAAAGTTCATGTATTTGAAGATTCATG
41923407 GATCATATTTATGGGGGAAAA
131 GATCATATTTATGGGGGAAAA
41923428 TACATGGGAC
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 149 1.00
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (152 bp):
GGATTGGTGCAATGTATGAGAGTGTGCATGCACAATTGAGGTTCAATGGATGGCATTTAAAGGAG
CACATGCATTTGGGACGTTCATGCAAGAGGGAGTTGCTGAAAGTTCATGTATTTGAAGATTCATG
GATCATATTTATGGGGGAAAAC
Found at i:41930427 original size:16 final size:16
Alignment explanation
Indices: 41930406--41930448 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
41930396 CCAATTGGGC
41930406 TATGTGGGCCCCACAG
1 TATGTGGGCCCCACAG
41930422 TATGTGGGCCCCACAG
1 TATGTGGGCCCCACAG
41930438 TATGTGGGCCC
1 TATGTGGGCCC
41930449 TACATGAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.16, C:0.30, G:0.33, T:0.21
Consensus pattern (16 bp):
TATGTGGGCCCCACAG
Found at i:41931431 original size:64 final size:64
Alignment explanation
Indices: 41931352--41931479 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
41931342 GAGCTACTTA
* *
41931352 GGTTACCTTGAAACCGTGAAGTTAAGTTTGGGATTGAGGTCCTGCCTGGTACAACATCGGTGTC
1 GGTTACCTTCAAACCGTGAAGTTAAGTTTGGGATTGAGCTCCTGCCTGGTACAACATCGGTGTC
41931416 GGTTACCTTCAAACCGTGAAGTTAAGTTTGGGATTGAGCTCCTGCCTGGTACAACATCGGTGTC
1 GGTTACCTTCAAACCGTGAAGTTAAGTTTGGGATTGAGCTCCTGCCTGGTACAACATCGGTGTC
41931480 CATCGCCGCT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (64 bp):
GGTTACCTTCAAACCGTGAAGTTAAGTTTGGGATTGAGCTCCTGCCTGGTACAACATCGGTGTC
Found at i:41932390 original size:28 final size:28
Alignment explanation
Indices: 41932350--41932405 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
41932340 CTAGAGTCTG
* *
41932350 GGAAAGAGTTCACTGTCTACAGCGATGC
1 GGAAAGAGTTCACTATCTACAGCAATGC
*
41932378 GGAAAGAGTTCACTATTTACAGCAATGC
1 GGAAAGAGTTCACTATCTACAGCAATGC
41932406 ACCACATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (28 bp):
GGAAAGAGTTCACTATCTACAGCAATGC
Found at i:41936097 original size:27 final size:27
Alignment explanation
Indices: 41936040--41936097 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
41936030 ACCCCTAATC
* *
41936040 GATAAAATGACTATTATAGCCCTGTGT
1 GATAAAATGACTATTATAGCCCTATGA
* *
41936067 GATAAAATGAGTGTTAT-GCCCTTATGA
1 GATAAAATGACTATTATAGCCC-TATGA
41936094 GATA
1 GATA
41936098 TATGATTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (27 bp):
GATAAAATGACTATTATAGCCCTATGA
Found at i:41941443 original size:40 final size:40
Alignment explanation
Indices: 41941360--41941622 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
41941350 TTGAATGCTG
* * * * * *
41941360 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
41941400 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
41941440 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
41941480 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
41941520 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
41941560 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
41941599 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
41941623 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:41941642 original size:79 final size:80
Alignment explanation
Indices: 41941399--41941657 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
41941389 AAGTGAATAT
* * * * * *
41941399 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
41941463 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
41941479 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
41941544 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
41941559 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
41941623 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
41941638 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
41941658 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:41949393 original size:40 final size:40
Alignment explanation
Indices: 41949349--41949572 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
41949339 AAGTGAATAT
* * * * **
41949349 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
41949389 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
41949429 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
41949469 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
41949509 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
41949548 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
41949573 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:41949447 original size:80 final size:80
Alignment explanation
Indices: 41949310--41949572 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
41949300 TTGAATGCTG
* * * * *
41949310 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
41949372 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
41949390 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
41949455 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
41949470 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
41949534 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
41949549 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41949573 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:41949524 original size:120 final size:120
Alignment explanation
Indices: 41949310--41949572 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
41949300 TTGAATGCTG
* * *
41949310 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
41949374 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
41949430 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
41949492 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
41949549 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41949573 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:41960729 original size:42 final size:43
Alignment explanation
Indices: 41960681--41960788 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 43
41960671 GATGCCACTG
*
41960681 TCCCAGACAG-GGTCTTACACGAAATCA-AACACGATGCCAACA
1 TCCCAGAC-GTGGTCTTACACGAAATCATAACACAATGCCAACA
** *
41960723 TCCCAGACGTGGTCTTACACGTAAATCATAAGTCAATGCCAACG
1 TCCCAGACGTGGTCTTACACG-AAATCATAACACAATGCCAACA
*
41960767 TCCCAGATGTGGTCTTACACGA
1 TCCCAGACGTGGTCTTACACGA
41960789 TAACACATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
41 1 0.02
42 19 0.33
43 7 0.12
44 31 0.53
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACACGAAATCATAACACAATGCCAACA
Found at i:41960772 original size:44 final size:42
Alignment explanation
Indices: 41960627--41960787 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 42
41960617 AAAGCTTGTA
** * *
41960627 CGATGCCAATTTCCCATACGTGGTCTTACATGT-AATCACATAT
1 CGATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-A-AT
* *
41960670 TGATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AAATCAAACA
1 CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAA-T
*
41960712 CGATGCCAACATCCCAGACGTGGTCTTACACGTAAATCATAAGT
1 CGATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-T
* *
41960756 CAATGCCAACGTCCCAGATGTGGTCTTACACG
1 CGATGCCAACGTCCCAGACGTGGTCTTACACG
41960788 ATAACACATA
Statistics
Matches: 97, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
41 2 0.02
42 27 0.28
43 36 0.37
44 32 0.33
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
CGATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAAT
Found at i:41960785 original size:86 final size:85
Alignment explanation
Indices: 41960626--41960788 Score: 197
Period size: 85 Copynumber: 1.9 Consensus size: 85
41960616 GAAAGCTTGT
** * * **
41960626 ACGATGCCAATTTCCCATACGTGGTCTTACATGTAATCACATATTGATGCCACTGTCCCAGACAG
1 ACGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCAATGCCACTGTCCCAGACAG
41960691 GGTCTTACACGAAATCAAAC
66 GGTCTTACACGAAATCAAAC
*
41960711 ACGATGCCAACATCCCAGACGTGGTCTTACACGTAAATCATA-AGTCAATGCCAAC-GTCCCAGA
1 ACGATGCCAACATCCCAGACGTGGTCTTACACGT-AATCACATA-TCAATGCC-ACTGTCCCAGA
*
41960774 -TGTGGTCTTACACGA
63 CAG-GGTCTTACACGA
41960789 TAACACATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
85 32 0.48
86 32 0.48
87 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (85 bp):
ACGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCAATGCCACTGTCCCAGACAG
GGTCTTACACGAAATCAAAC
Found at i:41961805 original size:17 final size:17
Alignment explanation
Indices: 41961785--41961819 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
41961775 CATAAGGACC
41961785 TCTCAATTATAAAGACA
1 TCTCAATTATAAAGACA
41961802 TCTCAATTATAAAGACA
1 TCTCAATTATAAAGACA
41961819 T
1 T
41961820 AGCAAATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (17 bp):
TCTCAATTATAAAGACA
Found at i:41965094 original size:38 final size:38
Alignment explanation
Indices: 41964998--41965094 Score: 149
Period size: 38 Copynumber: 2.6 Consensus size: 38
41964988 TAAACTCATT
* * *
41964998 TCACAACTCGTGTGAGCATTGACGGTTACATGATATAG
1 TCACAACTCGTGTGAGCATTTACGGTTACATGATACAA
* *
41965036 TCACAACTCATGTGAGCATTTACGGTTATATGATACAA
1 TCACAACTCGTGTGAGCATTTACGGTTACATGATACAA
41965074 TCACAACTCGTGTGAGCATTT
1 TCACAACTCGTGTGAGCATTT
41965095 CTCGAGTATC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (38 bp):
TCACAACTCGTGTGAGCATTTACGGTTACATGATACAA
Found at i:41968050 original size:48 final size:46
Alignment explanation
Indices: 41967975--41968292 Score: 198
Period size: 48 Copynumber: 6.7 Consensus size: 46
41967965 TTGTGCGCTC
* *
41967975 GTGTAAGACCATGTTTGAAACAAGGCATCAGCCACATTATAAGAGCCA
1 GTGTAAGACCATGTTTGGAACATGGCATC-G-CACATTATAAGAGCCA
* *
41968023 GTGTAAGACCATGTTTGGAACATGGCATCGGC-GATGCTATGAGAGCCA
1 GTGTAAGACCATGTTTGGAACATGGCATC-GCACAT--TATAAGAGCCA
* * * * ** * *
41968071 ATGTAAAACCATGTCTAGG-ATATGGCATCG-ATGTTGATATGTGCGCTA
1 GTGTAAGACCATGT-TTGGAACATGGCATCGCACATT-ATAAGAGC-C-A
* * *
41968119 GTGTAAGACCATGTTTGGGACATAGCATCGGCTACATTATAAGAGCTA
1 GTGTAAGACCATGTTTGGAACATGGCATC-GC-ACATTATAAGAGCCA
* * ** * *
41968167 GTGTAAGACCATGTCTGGGACATGGCATCG-GTATTGAGACAAGAGCTA
1 GTGTAAGACCATGTTTGGAACATGGCATCGCACATT---ATAAGAGCCA
* * * **
41968215 GTGTAAGACCATGTCTGGGACATGGCAT--CATCCTTGACATGTGAGCCA
1 GTGTAAGACCATGTTTGGAACATGGCATCGCA-CATT---ATAAGAGCCA
41968263 GTGTAAGACCATGTTTGGAACATGGCATCG
1 GTGTAAGACCATGTTTGGAACATGGCATCG
41968293 GCAATTCACC
Statistics
Matches: 213, Mismatches: 39, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
45 4 0.02
46 7 0.03
47 8 0.04
48 181 0.85
49 4 0.02
50 6 0.03
51 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
GTGTAAGACCATGTTTGGAACATGGCATCGCACATTATAAGAGCCA
Found at i:41968147 original size:96 final size:96
Alignment explanation
Indices: 41968015--41968243 Score: 269
Period size: 96 Copynumber: 2.4 Consensus size: 96
41968005 GCCACATTAT
* * ** *
41968015 AAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCGATGCTATGAGAGCCAATGTAAAAC
1 AAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCGACACTATAAGAGCCAATGTAAAAC
* * * *
41968080 CATGTCTAGGATATGGCATCGATGTTGATAT
66 CATGTCTAGGACATGGCATCGATATTGAGAC
** * * * * * * *
41968111 GTGCGCTAGTGTAAGACCATGTTTGGGACATAGCATCGGCTACATTATAAGAGCTAGTGTAAGAC
1 AAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCGACACTATAAGAGCCAATGTAAAAC
* *
41968176 CATGTCTGGGACATGGCATCGGTATTGAGAC
66 CATGTCTAGGACATGGCATCGATATTGAGAC
*
41968207 AAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 AAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATC
41968244 ATCCTTGACA
Statistics
Matches: 108, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
96 108 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (96 bp):
AAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCGACACTATAAGAGCCAATGTAAAAC
CATGTCTAGGACATGGCATCGATATTGAGAC
Found at i:41968226 original size:144 final size:144
Alignment explanation
Indices: 41967962--41968294 Score: 404
Period size: 144 Copynumber: 2.3 Consensus size: 144
41967952 GACATTCGGG
* * *
41967962 TGAT-TGTGCGCTCGTGTAAGACCATGTTTGAAACA-AGGCATCAGCCACATTATAAGAGCCAGT
1 TGATATGTGCGCTAGTGTAAGACCATGTTTGGAACATA-GCATCGGCCACATTATAAGAGCCAGT
* ** **
41968025 GTAAGACCATGTTTGGAACATGGCATCGGCGATGCTATGAGAGCCAATGTAAAACCATGTCTAGG
65 GTAAGACCATGTCTGGAACATGGCATCGGCGATGAGACAAGAGCCAATGTAAAACCATGTCTAGG
* *
41968090 ATATGGCATCGAT-GT
130 ACATGGCATC-ATCCT
* * *
41968105 TGATATGTGCGCTAGTGTAAGACCATGTTTGGGACATAGCATCGGCTACATTATAAGAGCTAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTTTGGAACATAGCATCGGCCACATTATAAGAGCCAGTG
* * * * * *
41968170 TAAGACCATGTCTGGGACATGGCATCGG-TATTGAGACAAGAGCTAGTGTAAGACCATGTCTGGG
66 TAAGACCATGTCTGGAACATGGCATCGGCGA-TGAGACAAGAGCCAATGTAAAACCATGTCTAGG
41968234 ACATGGCATCATCCT
130 ACATGGCATCATCCT
* * * *
41968249 TGACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 TGATATGTGCGCTAGTGTAAGACCATGTTTGGAACATAGCATCGGC
41968295 AATTCACCCT
Statistics
Matches: 162, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
143 7 0.04
144 154 0.95
145 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (144 bp):
TGATATGTGCGCTAGTGTAAGACCATGTTTGGAACATAGCATCGGCCACATTATAAGAGCCAGTG
TAAGACCATGTCTGGAACATGGCATCGGCGATGAGACAAGAGCCAATGTAAAACCATGTCTAGGA
CATGGCATCATCCT
Found at i:41968266 original size:96 final size:94
Alignment explanation
Indices: 41968015--41968293 Score: 265
Period size: 96 Copynumber: 2.9 Consensus size: 94
41968005 GCCACATTAT
* * * * * *
41968015 AAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC-GATGCTATGAGAGCCAATGTAAAA
1 AAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGCCTGA--C-ATGTGAGCCAGTGTAAGA
* * * * * *
41968079 CCATGTCTAGGATATGGCATCGATGTTGATAT
63 CCATGTCTGGGACATGGCATCGGTATTGAGAC
** * * * * *
41968111 GTGCGCTAGTGTAAGACCATGTTTGGGACATAGCATCGGCT-ACATTATAAGAGCTAGTGTAAGA
1 AAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGCCTGACA-TGT--GAGCCAGTGTAAGA
41968175 CCATGTCTGGGACATGGCATCGGTATTGAGAC
63 CCATGTCTGGGACATGGCATCGGTATTGAGAC
* *
41968207 AAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCATCCTTGACATGTGAGCCAGTGTAAGAC
1 AAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATC-GCC-TGACATGTGAGCCAGTGTAAGAC
* *
41968272 CATGTTTGGAACATGGCATCGG
64 CATGTCTGGGACATGGCATCGG
41968294 CAATTCACCC
Statistics
Matches: 148, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
93 1 0.01
94 2 0.01
96 138 0.93
97 1 0.01
98 3 0.02
99 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (94 bp):
AAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGCCTGACATGTGAGCCAGTGTAAGACCA
TGTCTGGGACATGGCATCGGTATTGAGAC
Found at i:41973590 original size:85 final size:85
Alignment explanation
Indices: 41973484--41973825 Score: 666
Period size: 85 Copynumber: 4.0 Consensus size: 85
41973474 TGACATTTAG
* *
41973484 CAACTGAACATAATAAGCCAATATTGATTCAAATATATATCCATCATTTTATCTCAATACTAAGC
1 CAACCGAACATAATAATCCAATATTGATTCAAATATATATCCATCATTTTATCTCAATACTAAGC
41973549 CAAAATTTACTATCATTCAC
66 CAAAATTTACTATCATTCAC
41973569 CAACCGAACATAATAATCCAATATTGATTCAAATATATATCCATCATTTTATCTCAATACTAAGC
1 CAACCGAACATAATAATCCAATATTGATTCAAATATATATCCATCATTTTATCTCAATACTAAGC
41973634 CAAAATTTACTATCATTCAC
66 CAAAATTTACTATCATTCAC
41973654 CAACCGAACATAATAATCCAATATTGATTCAAATATATATCCATCATTTTATCTCAATACTAAGC
1 CAACCGAACATAATAATCCAATATTGATTCAAATATATATCCATCATTTTATCTCAATACTAAGC
41973719 CAAAATTTACTATCATTCAC
66 CAAAATTTACTATCATTCAC
41973739 CAACCGAACATAATAATCCAATATTGATTCAAATATATATCCATCATTTTATCTCAATACTAAGC
1 CAACCGAACATAATAATCCAATATTGATTCAAATATATATCCATCATTTTATCTCAATACTAAGC
41973804 CAAAATTTACTATCATTCAC
66 CAAAATTTACTATCATTCAC
41973824 CA
1 CA
41973826 TCCCAAATAT
Statistics
Matches: 255, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 255 1.00
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (85 bp):
CAACCGAACATAATAATCCAATATTGATTCAAATATATATCCATCATTTTATCTCAATACTAAGC
CAAAATTTACTATCATTCAC
Found at i:41975029 original size:56 final size:55
Alignment explanation
Indices: 41974868--41975031 Score: 220
Period size: 56 Copynumber: 2.9 Consensus size: 55
41974858 TACATGTAAC
* *** * *
41974868 CACATATCGATGCCACTGTCCCAAATAGGGTCTTACTCGTACACATATAACGGAAT
1 CACATATCGATGCCAATGTATTAAAT-GGGTCTTACTCGCACACATATATCGGAAT
* *
41974924 CACATATCGATGCCAACGTATTAAACGCGGTCTTACTCGCACACATATATCGGAAT
1 CACATATCGATGCCAATGTATTAAATG-GGTCTTACTCGCACACATATATCGGAAT
*
41974980 CACATATCGATGCCAATGTATTAAATGTGGTCTTACCCGCACACATATATCG
1 CACATATCGATGCCAATGTATTAAATG-GGTCTTACTCGCACACATATATCG
41975032 ATGCCATGTT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
55 1 0.01
56 94 0.99
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (55 bp):
CACATATCGATGCCAATGTATTAAATGGGTCTTACTCGCACACATATATCGGAAT
Found at i:41975703 original size:26 final size:26
Alignment explanation
Indices: 41975667--41975724 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
41975657 GTTAATCCAA
*
41975667 AACATATCTTTCATATTTCATCAACT
1 AACATATCTTTCATATTTCATCAAAT
41975693 AACATATCTTTCATATTTCATCAAAT
1 AACATATCTTTCATATTTCATCAAAT
41975719 AACATA
1 AACATA
41975725 CAAAGCTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (26 bp):
AACATATCTTTCATATTTCATCAAAT
Found at i:41983686 original size:56 final size:55
Alignment explanation
Indices: 41983525--41983688 Score: 220
Period size: 56 Copynumber: 2.9 Consensus size: 55
41983515 TACATGTAAC
* *** * *
41983525 CACATATCGATGCCACTGTCCCAAATAGGGTCTTACTCGTACACATATAACGGAAT
1 CACATATCGATGCCAATGTATTAAAT-GGGTCTTACTCGCACACATATATCGGAAT
* *
41983581 CACATATCGATGCCAACGTATTAAACGCGGTCTTACTCGCACACATATATCGGAAT
1 CACATATCGATGCCAATGTATTAAATG-GGTCTTACTCGCACACATATATCGGAAT
*
41983637 CACATATCGATGCCAATGTATTAAATGTGGTCTTACCCGCACACATATATCG
1 CACATATCGATGCCAATGTATTAAATG-GGTCTTACTCGCACACATATATCG
41983689 ATGCCATGTT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
55 1 0.01
56 94 0.99
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (55 bp):
CACATATCGATGCCAATGTATTAAATGGGTCTTACTCGCACACATATATCGGAAT
Found at i:41984360 original size:26 final size:26
Alignment explanation
Indices: 41984324--41984381 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
41984314 GTTAATCCAA
*
41984324 AACATATCTTTCATATTTCATCAACT
1 AACATATCTTTCATATTTCATCAAAT
41984350 AACATATCTTTCATATTTCATCAAAT
1 AACATATCTTTCATATTTCATCAAAT
41984376 AACATA
1 AACATA
41984382 CAAAGCTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (26 bp):
AACATATCTTTCATATTTCATCAAAT
Found at i:41991946 original size:47 final size:47
Alignment explanation
Indices: 41991895--41992220 Score: 230
Period size: 47 Copynumber: 6.9 Consensus size: 47
41991885 TTAGGATTTT
41991895 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
41991942 ATGTGATGAATGTGAGCATGCATATATGTGATAAGTG-AGCAT-GCATA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAG-GCCGAATGGC-CA
* * * * * *
41991989 TATGTGAT-AAGGCCG-A-ATGGC-CA-ATGTGATGAATGTG-AGCAT-GCATA
1 -ATGTGATGAATG-TGAACAT-GCATATATGTGAT-AA-G-GCCGAATGGC-CA
*
41992036 TATGTGAT-AA-GTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 -ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41992082 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
41992129 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCTGAATGGTCGGCCG
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAA---T-GGCCA
* *
41992178 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATGAATGTGAACA-TGCATATATGTGATAAGGCCGAATG
41992221 TGTGAAATAT
Statistics
Matches: 227, Mismatches: 30, Indels: 44
0.75 0.10 0.15
Matches are distributed among these distances:
45 30 0.13
46 17 0.07
47 127 0.56
48 19 0.08
49 20 0.09
51 14 0.06
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:41991990 original size:70 final size:70
Alignment explanation
Indices: 41991894--41992116 Score: 410
Period size: 70 Copynumber: 3.2 Consensus size: 70
41991884 TTTAGGATTT
*
41991894 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGAT-AA-GTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
41991959 ATGCATA
64 ATGCATA
41991966 TATGTGATAAGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
1 TATGTGATAAGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
41992031 GCATA
66 GCATA
41992036 TATGTGATAAGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
1 TATGTGATAAGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
41992101 GCATA
66 GCATA
*
41992106 TGTGTGATAAG
1 TATGTGATAAG
41992117 GCCGAATGGC
Statistics
Matches: 149, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
70 139 0.93
71 2 0.01
72 8 0.05
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (70 bp):
TATGTGATAAGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
GCATA
Found at i:41992032 original size:117 final size:117
Alignment explanation
Indices: 41991895--41992153 Score: 316
Period size: 117 Copynumber: 2.2 Consensus size: 117
41991885 TTAGGATTTT
*
41991895 ATGTGATGAATGTGAACATGCATATATGTGATAAG-GCCGAATGGC-CA-ATGTGATGAATGTG-
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGTG-AGAAT-GCACATATGTGAT-AA-G-GC
* *
41991956 AGCAT-GCATATATGTGAT-AA-GTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
61 AGAATGGC-CA-ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
41992012 ATGTGATGAATGTGAGCATGCATATATGTGATAAGTGAGCATGCATATATGTGATAAGGCCGAAT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGTGAGAATGCACATATGTGATAAGGCAGAAT
*
41992077 GGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
66 GGCCAATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* *
41992129 ATGTGGTGAATATGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
41992154 GTGGTAAAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
115 8 0.06
116 9 0.07
117 99 0.80
118 8 0.06
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (117 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGTGAGAATGCACATATGTGATAAGGCAGAAT
GGCCAATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:41992137 original size:25 final size:25
Alignment explanation
Indices: 41992062--41992137 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
41992052 ATGCATATAT
41992062 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
41992087 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
41992109 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
41992134 GTGA
1 GTGA
41992138 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:41992278 original size:50 final size:50
Alignment explanation
Indices: 41992221--41992330 Score: 202
Period size: 50 Copynumber: 2.2 Consensus size: 50
41992211 AGGCCTAATG
*
41992221 TGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGTTAA
1 TGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
*
41992271 TGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
1 TGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
41992321 TGTGAAATAT
1 TGTGAAATAT
41992331 GACAGTCGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.34
Consensus pattern (50 bp):
TGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
Found at i:41992498 original size:37 final size:37
Alignment explanation
Indices: 41992390--41992498 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
41992380 GGAAATATAT
*
41992390 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
41992427 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
41992464 TCCGGGTAAGACCCGATAATTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
41992499 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:41994742 original size:56 final size:56
Alignment explanation
Indices: 41994682--41994816 Score: 211
Period size: 56 Copynumber: 2.4 Consensus size: 56
41994672 TCCTAGATAG
41994682 GGTCTTACTCGTACACATATGAT-GGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGTACACATAT-ATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
41994738 GGTCTTACTCGCACACATATATCGGAATCACTTATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGTACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
41994794 GGTCTTACTCGCT-CACATATATC
1 GGTCTTACTCG-TACACATATATC
41994817 AATGCCATGG
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
55 2 0.03
56 71 0.97
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGTACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:41996254 original size:60 final size:60
Alignment explanation
Indices: 41996183--41996388 Score: 169
Period size: 60 Copynumber: 3.5 Consensus size: 60
41996173 TCTCTTAAGG
* * *
41996183 GAAAGCATTTGTGGTGAGTACTGGATGTAAA-TGATGCCTTTATGGCAAAAATTTGGACAA
1 GAAAGCCTTTGTGGTGAGTACTAGATGTAAAGT-ATGCCTTTATGGCAAAAATCTGGACAA
* * * * *
41996243 GAAAGCCTTTGT-GTGGAATACTAGATGTAAAGTATGTCTTTGTGGTAAAACTCTGGACAA
1 GAAAGCCTTTGTGGT-GAGTACTAGATGTAAAGTATGCCTTTATGGCAAAAATCTGGACAA
* * * * * * * *
41996303 GAAAACCTTTGTGGCGAG---T---TGTAAAGTTTACCTTTGTGGCAAAACTCTAGA-TA
1 GAAAGCCTTTGTGGTGAGTACTAGATGTAAAGTATGCCTTTATGGCAAAAATCTGGACAA
*
41996356 GAAAAGCCTTTGTGGCGAGTACTAGATGTAAAG
1 G-AAAGCCTTTGTGGTGAGTACTAGATGTAAAG
41996389 GTTACCTTTA
Statistics
Matches: 118, Mismatches: 18, Indels: 20
0.76 0.12 0.13
Matches are distributed among these distances:
53 2 0.02
54 43 0.36
57 2 0.02
59 2 0.02
60 67 0.57
61 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (60 bp):
GAAAGCCTTTGTGGTGAGTACTAGATGTAAAGTATGCCTTTATGGCAAAAATCTGGACAA
Found at i:42000020 original size:30 final size:30
Alignment explanation
Indices: 41999984--42000042 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
41999974 ATTCTATTAT
*
41999984 TAATTTTGTTATTATTTTAAAGGCATTTGA
1 TAATTTTGTTATTATTTTAAAGACATTTGA
*
42000014 TAATTTTGTTATTATTTTAGAGACATTTG
1 TAATTTTGTTATTATTTTAAAGACATTTG
42000043 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGA
Found at i:42012121 original size:14 final size:14
Alignment explanation
Indices: 42012102--42012130 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42012092 AAATTTTCTG
42012102 GTTACCAAAGCCTA
1 GTTACCAAAGCCTA
42012116 GTTACCAAAGCCTA
1 GTTACCAAAGCCTA
42012130 G
1 G
42012131 CCAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (14 bp):
GTTACCAAAGCCTA
Found at i:42015331 original size:40 final size:40
Alignment explanation
Indices: 42015287--42015480 Score: 282
Period size: 40 Copynumber: 4.9 Consensus size: 40
42015277 GATATAGCTT
* * *
42015287 CTCGCTCAAATGCCTTCGGGACTTGGCCCGATTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
42015327 CTCGCACAATTGCCTTCGGGACTTAGCCGGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
42015367 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * * *
42015407 CTGGCACAAATGCCTTCGGGACTTAACCCAGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
42015447 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
42015481 CAATCTGAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 11 0.08
40 126 0.92
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:42020370 original size:542 final size:542
Alignment explanation
Indices: 42019348--42020432 Score: 1758
Period size: 542 Copynumber: 2.0 Consensus size: 542
42019338 CAGGTGACCC
*
42019348 AAGAAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTGCTTATCCCG
1 AAGAAGCTAACCTCTCTTAACCAGAACTCACACTTACTAAACTTAGCATATAACTGCTTATCCCG
* * *
42019413 TAAAATTTGCAACACTAATCCTAGGTGTTCAGCATGATCGGTTTCATTTCTCGAATAGACCAAAA
66 CAAAATTTGCAACACTAATCCTAGGTGCTCAGCATGATCGGTCTCATTTCTCGAATAGACCAAAA
* *
42019478 TATCATCGATAAACACAACTACAAACCGATCCAAATACGGTCTGAAAATTCGATTCATCAAATCC
131 TATCATCAATAAACACAACTACAAACCGATCCAAATACGGTCTGAAAATCCGATTCATCAAATCC
* * *
42019543 ATAAATACCGCGGGGGCATTAGTGAGCCCAAACGGCATCAATAAGAATTCGTAGTGACCGTATCT
196 ATAAATACCGCAGGGGCATTAGTGAGCCCAAACGGCATCAATAAGAACTCGTAGTGACCATATCT
* *
42019608 CGTTCTGAAAGTAGTTTTGGGTATATCCGAATCTCGAATTCGTAACTGATAATAACCCGATCTCA
261 CGTTCTGAAAGCAGTTTTGGGTATATCCGAATCTCGAATTCGCAACTGATAATAACCCGATCTCA
* * *
42019673 AATCTATCTTTGAAAACACTGAGGCTCCCTTTAGTTGATCAAACAAATCGTCAATACGCAGTATC
326 AATCTATCTTTGAAAACACTGAGGCTCCCTTCAGTTGATCAAACAAATCATCAATACGCAGTAAC
*
42019738 AGATATTTGTTCTTTATTGTCACCTTATTCAGCTGACGATAATCGATGCACAACCTCATGGTTCC
391 AGATATTTGTTCTTTATTGTCACCTTATTCAGCTGACGATAATCAATGCACAACCTCATGGTTCC
*
42019803 GTCCTTCTTTTTCACAAACAATACTGGTGCACCCCAAGGTAAGAAACTTGGTCGAGCGAAACCTC
456 GTCCTTCTTTTTCACAAACAATACTGGTGCACCCCAAGGTAAGAAACTTGGTCAAGCGAAACCTC
*
42019868 TATTCGTCAACTCTTGCAACTG
521 TATCCGTCAACTCTTGCAACTG
42019890 AAGAAGCTAACCTCTCTTAACCAGAACTCACACTTACTAAACTTAGCATATAACTGCTTATCCCG
1 AAGAAGCTAACCTCTCTTAACCAGAACTCACACTTACTAAACTTAGCATATAACTGCTTATCCCG
* * * *
42019955 CAAAATTTGCAACACTAGT-CTCAGGTGCTCAGCATGTTCGGTCTCATTTCTTGAATAGACCAAG
66 CAAAATTTGCAACACTAATCCT-AGGTGCTCAGCATGATCGGTCTCATTTCTCGAATAGACCAAA
* * * * *
42020019 ATGTCATCAATGAACACAACTACGAACCGATCCAAATATGGTCTGAAGATCCGATTCATCAAATC
130 ATATCATCAATAAACACAACTACAAACCGATCCAAATACGGTCTGAAAATCCGATTCATCAAATC
*
42020084 CATAAATACCGCAGGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCATATC
195 CATAAATACCGCAGGGGCATTAGTGAGCCCAAACGGCATCAATAAGAACTCGTAGTGACCATATC
* * * *
42020149 TCGTTCTGAAGGCAGTTTTGGGTATGTCCGAATCTCGAATTCGCAACTGATAATAGCTCGATCTC
260 TCGTTCTGAAAGCAGTTTTGGGTATATCCGAATCTCGAATTCGCAACTGATAATAACCCGATCTC
* * * * * *
42020214 AAATCTATTTTTGAGAACACTGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATACGCGGTAA
325 AAATCTATCTTTGAAAACACTGAGGCTCCCTTCAGTTGATCAAACAAATCATCAATACGCAGTAA
* * * *
42020279 CGGATATTTGTTCTTTATTGTCACTTTATTCAGCTGACGATAGTCAATGTACAACCTCATGGTTC
390 CAGATATTTGTTCTTTATTGTCACCTTATTCAGCTGACGATAATCAATGCACAACCTCATGGTTC
* *
42020344 CGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTGAGAAACTTGGTCAAGCGAAACCT
455 CGTCCTTCTTTTTCACAAACAATACTGGTGCACCCCAAGGTAAGAAACTTGGTCAAGCGAAACCT
*
42020409 CTATCCGTCAATTCTTGCAACTG
520 CTATCCGTCAACTCTTGCAACTG
42020432 A
1 A
42020433 GCTTTCAACT
Statistics
Matches: 498, Mismatches: 44, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
541 2 0.00
542 496 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (542 bp):
AAGAAGCTAACCTCTCTTAACCAGAACTCACACTTACTAAACTTAGCATATAACTGCTTATCCCG
CAAAATTTGCAACACTAATCCTAGGTGCTCAGCATGATCGGTCTCATTTCTCGAATAGACCAAAA
TATCATCAATAAACACAACTACAAACCGATCCAAATACGGTCTGAAAATCCGATTCATCAAATCC
ATAAATACCGCAGGGGCATTAGTGAGCCCAAACGGCATCAATAAGAACTCGTAGTGACCATATCT
CGTTCTGAAAGCAGTTTTGGGTATATCCGAATCTCGAATTCGCAACTGATAATAACCCGATCTCA
AATCTATCTTTGAAAACACTGAGGCTCCCTTCAGTTGATCAAACAAATCATCAATACGCAGTAAC
AGATATTTGTTCTTTATTGTCACCTTATTCAGCTGACGATAATCAATGCACAACCTCATGGTTCC
GTCCTTCTTTTTCACAAACAATACTGGTGCACCCCAAGGTAAGAAACTTGGTCAAGCGAAACCTC
TATCCGTCAACTCTTGCAACTG
Found at i:42028551 original size:85 final size:85
Alignment explanation
Indices: 42028419--42028589 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
42028409 TTGGCCGTAA
42028419 GGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCGT
1 GGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCGT
42028484 ATAGATTGATTTTGCCCCTT
66 ATAGATTGATTTTGCCCCTT
*
42028504 GGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATCTCTGAACGAGTTGGTCCGGTTGCGT
1 GGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCGT
42028569 ATAGATTGATTTTGCCCCTT
66 ATAGATTGATTTTGCCCCTT
42028589 G
1 G
42028590 AACTTGAAAA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (85 bp):
GGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCGT
ATAGATTGATTTTGCCCCTT
Found at i:42028970 original size:73 final size:73
Alignment explanation
Indices: 42028888--42029032 Score: 272
Period size: 73 Copynumber: 2.0 Consensus size: 73
42028878 AAAATTTCTT
*
42028888 AAGTGGGGGAGAGTTGTGACAGCCCTAAAGTGACCCTAGTCGAAAAGCGGTCTCGGGACTGCTAG
1 AAGTGGGGGAGAGTTGTGACAGCCCTAAAGTGACCCTAGTCGAAAAGCGGTCTCGGGACCGCTAG
42028953 ACCGAGTA
66 ACCGAGTA
*
42028961 AAGTGGGGGAGAGTTGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCGGGACCGCTAG
1 AAGTGGGGGAGAGTTGTGACAGCCCTAAAGTGACCCTAGTCGAAAAGCGGTCTCGGGACCGCTAG
42029026 ACCGAGT
66 ACCGAGT
42029033 CACCAAATTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.26, C:0.21, G:0.35, T:0.17
Consensus pattern (73 bp):
AAGTGGGGGAGAGTTGTGACAGCCCTAAAGTGACCCTAGTCGAAAAGCGGTCTCGGGACCGCTAG
ACCGAGTA
Found at i:42029301 original size:108 final size:108
Alignment explanation
Indices: 42029112--42029324 Score: 408
Period size: 108 Copynumber: 2.0 Consensus size: 108
42029102 TTCGATTTAG
42029112 TTAATTGCATGTGAATTTAGTTGATAGGACTTATGTGAGAAAATTTAGAAATGTGCTAGGCAAAT
1 TTAATTGCATGTGAATTTAGTTGATAGGACTTATGTGAGAAAATTTAGAAATGTGCTAGGCAAAT
*
42029177 GCAAGTGGCCTAATAGTGCATGTAATCAAAGGGGTGGACTTGT
66 GCAAGTGGCCGAATAGTGCATGTAATCAAAGGGGTGGACTTGT
*
42029220 TTAATTGCATGTGAATTTAGTTGATAGGACTTATGTGAGAAATTTTAGAAATGTGCTAGGCAAAT
1 TTAATTGCATGTGAATTTAGTTGATAGGACTTATGTGAGAAAATTTAGAAATGTGCTAGGCAAAT
42029285 GCAAGTGGCCGAATAGTGCATGTAATCAAAGGGGTGGACT
66 GCAAGTGGCCGAATAGTGCATGTAATCAAAGGGGTGGACT
42029325 AGCATGTCAA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 103 1.00
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.31
Consensus pattern (108 bp):
TTAATTGCATGTGAATTTAGTTGATAGGACTTATGTGAGAAAATTTAGAAATGTGCTAGGCAAAT
GCAAGTGGCCGAATAGTGCATGTAATCAAAGGGGTGGACTTGT
Found at i:42044028 original size:49 final size:47
Alignment explanation
Indices: 42043936--42044112 Score: 205
Period size: 49 Copynumber: 3.7 Consensus size: 47
42043926 TTAGGATTCT
*
42043936 ATGTGATGGATGTGAACA-TGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
42043983 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*** * * * * *
42044032 ATGTGATGAATGTGAAAGTGGCCA-ACGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
42044078 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
42044113 TCCCGAAGGG
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 37 0.34
47 26 0.24
49 47 0.43
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:42047022 original size:16 final size:16
Alignment explanation
Indices: 42046997--42047027 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42046987 GTATGTTCAG
42046997 ATTGAAACCTAGATAA
1 ATTGAAACCTAGATAA
*
42047013 ATTGATACCTAGATA
1 ATTGAAACCTAGATA
42047028 CAAAAAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (16 bp):
ATTGAAACCTAGATAA
Found at i:42055173 original size:27 final size:27
Alignment explanation
Indices: 42055143--42055242 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
42055133 GTCCCGACGG
*
42055143 ACTATCCCATTTTTAATGTCTCGTCAA
1 ACTATCCCATGTTTAATGTCTCGTCAA
* ***
42055170 ACTATCTCATGTTTAATGTCTCGTTGG
1 ACTATCCCATGTTTAATGTCTCGTCAA
* * *
42055197 ACTAT-CCATGTTTAATGTCCCTTCAG
1 ACTATCCCATGTTTAATGTCTCGTCAA
***
42055223 ACTATCTTGTGTTTAATGTC
1 ACTATCCCATGTTTAATGTC
42055243 CCATTGGACT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
26 21 0.36
27 38 0.64
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (27 bp):
ACTATCCCATGTTTAATGTCTCGTCAA
Found at i:42055228 original size:53 final size:53
Alignment explanation
Indices: 42055141--42055255 Score: 149
Period size: 53 Copynumber: 2.2 Consensus size: 53
42055131 CTGTCCCGAC
* * * *
42055141 GGACTATCCCATTTTTAATGTCTCGTCAAACTATCTCATGTTTAATGTCTCGTT
1 GGACTAT-CCATGTTTAATGTCCCGTCAAACTATCTCATGTTTAATGTCCCATT
* * **
42055195 GGACTATCCATGTTTAATGTCCCTTCAGACTATCTTGTGTTTAATGTCCCATT
1 GGACTATCCATGTTTAATGTCCCGTCAAACTATCTCATGTTTAATGTCCCATT
42055248 GGACTATC
1 GGACTATC
42055256 TTGTGTTTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 46 0.87
54 7 0.13
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (53 bp):
GGACTATCCATGTTTAATGTCCCGTCAAACTATCTCATGTTTAATGTCCCATT
Found at i:42055243 original size:27 final size:27
Alignment explanation
Indices: 42055170--42055264 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 27
42055160 GTCTCGTCAA
** * * *
42055170 ACTATCTCATGTTTAATGTCTCGTTGG
1 ACTATCTTGTGTTTAATGTCCCATTAG
**
42055197 ACTATC-CATGTTTAATGTCCC-TTCAG
1 ACTATCTTGTGTTTAATGTCCCATT-AG
*
42055223 ACTATCTTGTGTTTAATGTCCCATTGG
1 ACTATCTTGTGTTTAATGTCCCATTAG
42055250 ACTATCTTGTGTTTA
1 ACTATCTTGTGTTTA
42055265 TTTTCTCGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
25 2 0.03
26 21 0.35
27 35 0.58
28 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (27 bp):
ACTATCTTGTGTTTAATGTCCCATTAG
Found at i:42060335 original size:42 final size:43
Alignment explanation
Indices: 42060261--42060341 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 43
42060251 TTATGTTTTG
* *
42060261 GAACCATATGGGTAGAGGACACGGGCATGTGTCCAGGCCGTGC
1 GAACCACATGGGTAGAGGACACGGGCATGTGTCAAGGCCGTGC
* *
42060304 GAACCACATGGGTA-AGGACATGGGCGTGTGTCAAGGCC
1 GAACCACATGGGTAGAGGACACGGGCATGTGTCAAGGCC
42060342 ATGTGGCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 21 0.62
43 13 0.38
ACGTcount: A:0.25, C:0.22, G:0.37, T:0.16
Consensus pattern (43 bp):
GAACCACATGGGTAGAGGACACGGGCATGTGTCAAGGCCGTGC
Found at i:42069663 original size:13 final size:13
Alignment explanation
Indices: 42069645--42069669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42069635 AAATTTAATA
42069645 TTATTTTGTGTGT
1 TTATTTTGTGTGT
42069658 TTATTTTGTGTG
1 TTATTTTGTGTG
42069670 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:42070767 original size:12 final size:12
Alignment explanation
Indices: 42070750--42070782 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
42070740 TGAAGTTCGA
42070750 ATATGTATATAT
1 ATATGTATATAT
*
42070762 ATATGTATATCT
1 ATATGTATATAT
42070774 AT-TGTATAT
1 ATATGTATAT
42070783 TTGACGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:42070883 original size:112 final size:111
Alignment explanation
Indices: 42070644--42070850 Score: 306
Period size: 112 Copynumber: 1.8 Consensus size: 111
42070634 TTAAATTAGC
** * *
42070644 ATATATATATGTATAAATATTGTACATTTGATGAGCTATAATTTAAAGTATACGAATTGAAAATA
1 ATATATATATGTATATCTATTGTACATTTGACGAGCTATAATTAAAAGTATACGAATTGAAAATA
**
42070709 GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
66 GTTAAGTATGAATGATATATATACACATAAATGAAGTTCGAATA-GT
* * *
42070756 ATATATATATGTATATCTATTGTATATTTGACGAGCTATAATTAAAAGTATATGAATTGAAATTA
1 ATATATATATGTATATCTATTGTACATTTGACGAGCTATAATTAAAAGTATACGAATTGAAAATA
42070821 GTTAAGTATGAATGTTATATATATACACAT
66 GTTAAGTATGAATG--ATATATATACACAT
42070851 GTGTGAGGTT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
112 72 0.86
114 12 0.14
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (111 bp):
ATATATATATGTATATCTATTGTACATTTGACGAGCTATAATTAAAAGTATACGAATTGAAAATA
GTTAAGTATGAATGATATATATACACATAAATGAAGTTCGAATAGT
Found at i:42071225 original size:29 final size:29
Alignment explanation
Indices: 42071183--42071239 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
42071173 GAATTTTTCG
42071183 GACTTTAAGTCTAGAAGGCTAAGTGCCGA
1 GACTTTAAGTCTAGAAGGCTAAGTGCCGA
*
42071212 GACTTTAAGTCTAGCAGGCTAAGTGCCG
1 GACTTTAAGTCTAGAAGGCTAAGTGCCG
42071240 GTGATCTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (29 bp):
GACTTTAAGTCTAGAAGGCTAAGTGCCGA
Found at i:42071267 original size:41 final size:41
Alignment explanation
Indices: 42071217--42071366 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
42071207 GCCGAGACTT
*
42071217 TAAGTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
**
42071258 TAAGCCTAGCAGGCTAAGTGTTGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * *
42071299 TAAACCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* *
42071340 TAAGCTTAGCA-GCGTAAATGCCGGTGA
1 TAAGCCTAGCAGGC-TAAGTGCCGGTGA
42071367 ATATGTTAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 2 0.02
41 96 0.98
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
Found at i:42081721 original size:12 final size:12
Alignment explanation
Indices: 42081706--42081741 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
42081696 AAAAGAGTCA
42081706 ATAAACGAGCTT
1 ATAAACGAGCTT
*
42081718 ATAAATGAGCTT
1 ATAAACGAGCTT
*
42081730 TTAAACGAGCTT
1 ATAAACGAGCTT
42081742 GTTCTTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:42081966 original size:5 final size:5
Alignment explanation
Indices: 42081950--42082000 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
42081940 TGTAAAACTT
** *
42081950 TTAAA TTAAAA TTAAA TTAAA TTATAA AAAAA TTAAA CT-AA TTAAA TTAAA
1 TTAAA TT-AAA TTAAA TTAAA TTA-AA TTAAA TTAAA TTAAA TTAAA TTAAA
42082001 ACTTTTCAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 3 0.08
5 26 0.70
6 8 0.22
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (5 bp):
TTAAA
Found at i:42081971 original size:16 final size:16
Alignment explanation
Indices: 42081950--42082000 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
42081940 TGTAAAACTT
42081950 TTAAATTAAAATTAAA
1 TTAAATTAAAATTAAA
*
42081966 TTAAATTATAAA-AAAA
1 TTAAATTA-AAATTAAA
*
42081982 TTAAACT--AATTAAA
1 TTAAATTAAAATTAAA
42081996 TTAAA
1 TTAAA
42082001 ACTTTTCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.07
14 8 0.27
16 17 0.57
17 3 0.10
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAATTAAAATTAAA
Found at i:42083693 original size:45 final size:45
Alignment explanation
Indices: 42083640--42083729 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
42083630 GGAAGAAAGA
*
42083640 GCCAATGTATAGATCTTACAAAGAATTCATTCCAAAGGAAGAGCG
1 GCCAATGTATAGATCTTACAAAGAATTCATTCCAAAGGAAAAGCG
*
42083685 GCCAATGTATAGATCTTATAAAGAATTCATTCCAAAGGAAAAGCG
1 GCCAATGTATAGATCTTACAAAGAATTCATTCCAAAGGAAAAGCG
42083730 TAGAAAGGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (45 bp):
GCCAATGTATAGATCTTACAAAGAATTCATTCCAAAGGAAAAGCG
Found at i:42086395 original size:13 final size:13
Alignment explanation
Indices: 42086377--42086401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42086367 TAATTTAATA
42086377 TTATTTTGTGTGT
1 TTATTTTGTGTGT
42086390 TTATTTTGTGTG
1 TTATTTTGTGTG
42086402 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:42087499 original size:12 final size:12
Alignment explanation
Indices: 42087482--42087514 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
42087472 TGAAGTTCGA
42087482 ATATGTATATAT
1 ATATGTATATAT
*
42087494 ATATGTATATCT
1 ATATGTATATAT
42087506 AT-TGTATAT
1 ATATGTATAT
42087515 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:42087573 original size:112 final size:112
Alignment explanation
Indices: 42087376--42087579 Score: 372
Period size: 112 Copynumber: 1.8 Consensus size: 112
42087366 TTAAATCAGC
42087376 ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTA
1 ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTA
42087441 GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
66 GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
* * *
42087488 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTA
1 ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTA
*
42087553 GTTAAGTATGAATGTTATATATATGCA
66 GTTAAGTATGAATGATATATATATGCA
42087580 CATGTGTGAG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 88 1.00
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40
Consensus pattern (112 bp):
ATATATATATGTATAACTATTGTACATTTGATGAGCTATAATTAAAAGTATACGAATTGAAATTA
GTTAAGTATGAATGATATATATATGCATAAATGAAGTTCGAATATGT
Found at i:42087979 original size:41 final size:41
Alignment explanation
Indices: 42087920--42088069 Score: 219
Period size: 41 Copynumber: 3.7 Consensus size: 41
42087910 TTTCGGACTT
* *
42087920 TAAGTCTAGAAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
*
42087961 TAAGCCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * *
42088002 TAAACCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
* * *
42088043 TAAGCTTAGCAGTCTAAATGCCGGTGA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGA
42088070 ATATGTTAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
Found at i:42093372 original size:28 final size:28
Alignment explanation
Indices: 42093290--42093372 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 28
42093280 TGGTATCCAT
* * * *
42093290 CACTGGTACATGGTACCTAGAAATATAT
1 CACTGATACATAGTACCTGGAAATATAA
* * * * *
42093318 CACT-AGACAGAATGCTTGGAAACTATAA
1 CACTGATACATAGTACCTGGAAA-TATAA
42093346 CACTGATACATAGTACCTGGAAATATA
1 CACTGATACATAGTACCTGGAAATATA
42093373 TCATTGGCAC
Statistics
Matches: 39, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
27 10 0.26
28 16 0.41
29 13 0.33
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (28 bp):
CACTGATACATAGTACCTGGAAATATAA
Found at i:42100526 original size:21 final size:21
Alignment explanation
Indices: 42100501--42100542 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
42100491 AAAAAAGGGC
42100501 TTAATTGCTTAAA-ATGAAAAT
1 TTAA-TGCTTAAATATGAAAAT
*
42100522 TTAATGGTTAAATATGAAAAT
1 TTAATGCTTAAATATGAAAAT
42100543 GCCTAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (21 bp):
TTAATGCTTAAATATGAAAAT
Found at i:42101641 original size:43 final size:42
Alignment explanation
Indices: 42101580--42101708 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 42
42101570 CATAGGATTC
* *
42101580 CGATATGTGTTTTCGTGTAAGACCTCGTCTAGGACATTGGCAT
1 CGATATGTGATTACGTGTAAGACC-CGTCTAGGACATTGGCAT
* * *
42101623 CGACT-TGTGCTTACGTGTAAGACCCTGTCTAGGACAGTGGAAT
1 CGA-TATGTGATTACGTGTAAGACCC-GTCTAGGACATTGGCAT
** *
42101666 CGATATGTGATTACACGTAAGACCACGTCTGGGA-AGTTGGCAT
1 CGATATGTGATTACGTGTAAGACC-CGTCTAGGACA-TTGGCAT
42101709 TGTACGAGCC
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 3 0.04
43 66 0.93
44 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
CGATATGTGATTACGTGTAAGACCCGTCTAGGACATTGGCAT
Found at i:42106693 original size:27 final size:27
Alignment explanation
Indices: 42106662--42106839 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42106652 TAAATTGTAC
42106662 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
42106689 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42106715 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
42106743 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
42106771 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
42106798 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
42106825 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42106840 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:42106776 original size:82 final size:81
Alignment explanation
Indices: 42106663--42106818 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42106653 AAATTGTACA
* *
42106663 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
42106727 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
42106744 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
42106809 TGCGAGTTGA
65 TGCGAATTGA
42106819 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:42106830 original size:82 final size:81
Alignment explanation
Indices: 42106659--42106839 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
42106649 GATTAAATTG
* *
42106659 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
42106724 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
42106740 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
42106804 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
42106822 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
42106840 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:42108232 original size:25 final size:23
Alignment explanation
Indices: 42108204--42108258 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
42108194 CCATTAATTC
* *
42108204 GGAAGCTTCAGATAGCCATATATCG
1 GGAAGCTTAAGAGAGCC--ATATCG
* *
42108229 GGAAGTTTAAGCGAGCCATATCG
1 GGAAGCTTAAGAGAGCCATATCG
42108252 GGAAGCT
1 GGAAGCT
42108259 CACGAAGAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 12 0.48
25 13 0.52
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (23 bp):
GGAAGCTTAAGAGAGCCATATCG
Found at i:42112256 original size:80 final size:80
Alignment explanation
Indices: 42112152--42112303 Score: 234
Period size: 80 Copynumber: 1.9 Consensus size: 80
42112142 CAATGGTACC
* ** *
42112152 GAAGTACAAACAGGGGCACGTAGGTGCAATTGGGGGTACTGAAGTAAAAATAGGGGCATGTAT-G
1 GAAGTAAAAACAGGGGCACGTAGGTGCAATCAGGGGTACCGAAGTAAAAATAGGGGCATGTATAG
42112216 TGCAATCAGGGATACT
66 -GCAATCAGGGATACT
* *
42112232 GAAGTAAAAATAGGGGCACGTAGGTGCAATCAGGGGTACCGAAGTACAAATAGGGGCATGTATAG
1 GAAGTAAAAACAGGGGCACGTAGGTGCAATCAGGGGTACCGAAGTAAAAATAGGGGCATGTATAG
42112297 GCAATCA
66 GCAATCA
42112304 TACAAAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 64 0.98
81 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.33, T:0.18
Consensus pattern (80 bp):
GAAGTAAAAACAGGGGCACGTAGGTGCAATCAGGGGTACCGAAGTAAAAATAGGGGCATGTATAG
GCAATCAGGGATACT
Found at i:42112303 original size:40 final size:40
Alignment explanation
Indices: 42112146--42112289 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
42112136 TGCATTCAAT
* * **
42112146 GGTACCGAAGTACAAACAGGGGCACGTAGGTGCAATTGGG
1 GGTACCGAAGTAAAAATAGGGGCACGTAGGTGCAATCAGG
* * *
42112186 GGTACTGAAGTAAAAATAGGGGCATGTATGTGCAATCAGG
1 GGTACCGAAGTAAAAATAGGGGCACGTAGGTGCAATCAGG
* *
42112226 GATACTGAAGTAAAAATAGGGGCACGTAGGTGCAATCAGG
1 GGTACCGAAGTAAAAATAGGGGCACGTAGGTGCAATCAGG
*
42112266 GGTACCGAAGTACAAATAGGGGCA
1 GGTACCGAAGTAAAAATAGGGGCA
42112290 TGTATAGGCA
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.35, C:0.14, G:0.34, T:0.17
Consensus pattern (40 bp):
GGTACCGAAGTAAAAATAGGGGCACGTAGGTGCAATCAGG
Found at i:42112978 original size:50 final size:49
Alignment explanation
Indices: 42112920--42113021 Score: 186
Period size: 50 Copynumber: 2.1 Consensus size: 49
42112910 ACGATCTTAA
42112920 AAACATAAAAATTACAAGAAAATGAGTCAATTTCCATACCATTCAAGGG
1 AAACATAAAAATTACAAGAAAATGAGTCAATTTCCATACCATTCAAGGG
*
42112969 AAANCATAAAAATTACAAGAAAATGAGTCAATTTCCATACCATTCATGGG
1 AAA-CATAAAAATTACAAGAAAATGAGTCAATTTCCATACCATTCAAGGG
42113019 AAA
1 AAA
42113022 GAGATGATCG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 3 0.06
50 48 0.94
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (49 bp):
AAACATAAAAATTACAAGAAAATGAGTCAATTTCCATACCATTCAAGGG
Found at i:42122652 original size:23 final size:23
Alignment explanation
Indices: 42122622--42122672 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
42122612 GGAGGAAGTG
*
42122622 CTACTGGCAGTTTATCCACATAT
1 CTACTGGCAGTTCATCCACATAT
**
42122645 CTACTGGCAGTTCATCTGCATAT
1 CTACTGGCAGTTCATCCACATAT
42122668 CTACT
1 CTACT
42122673 AGTGGTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (23 bp):
CTACTGGCAGTTCATCCACATAT
Found at i:42123297 original size:9 final size:9
Alignment explanation
Indices: 42123285--42123348 Score: 101
Period size: 9 Copynumber: 7.1 Consensus size: 9
42123275 AAAATAACTA
*
42123285 AATTAACCG
1 AATTACCCG
42123294 AATTACCCG
1 AATTACCCG
*
42123303 AATTAACCG
1 AATTACCCG
42123312 AATTACCCG
1 AATTACCCG
42123321 AATTACCCG
1 AATTACCCG
42123330 AATTACCCG
1 AATTACCCG
*
42123339 AATTAACCG
1 AATTACCCG
42123348 A
1 A
42123349 CTTGAATCAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:42123308 original size:18 final size:18
Alignment explanation
Indices: 42123285--42123348 Score: 119
Period size: 18 Copynumber: 3.6 Consensus size: 18
42123275 AAAATAACTA
42123285 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
42123303 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
42123321 AATTACCCGAATTACCCG
1 AATTAACCGAATTACCCG
42123339 AATTAACCGA
1 AATTAACCGA
42123349 CTTGAATCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:42123454 original size:18 final size:18
Alignment explanation
Indices: 42123428--42123480 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
42123418 ATTTTTATGA
42123428 TTGGGTTGGGTTGGGTAC
1 TTGGGTTGGGTTGGGTAC
* *
42123446 TTTGGTTGGGTTGGATAC
1 TTGGGTTGGGTTGGGTAC
*
42123464 TTGGGTTTGGATTGGGT
1 TTGGG-TTGGGTTGGGT
42123481 TTAGGTGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 20 0.69
19 9 0.31
ACGTcount: A:0.08, C:0.04, G:0.45, T:0.43
Consensus pattern (18 bp):
TTGGGTTGGGTTGGGTAC
Found at i:42124519 original size:11 final size:11
Alignment explanation
Indices: 42124503--42124530 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
42124493 TTTAAAATTT
42124503 TATATTTATTA
1 TATATTTATTA
42124514 TATATTTATTA
1 TATATTTATTA
42124525 TATATT
1 TATATT
42124531 CAGGCCGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATTA
Found at i:42128351 original size:17 final size:17
Alignment explanation
Indices: 42128331--42128363 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
42128321 TTGAGTCAGG
42128331 ATTGAATTTTAAATTTC
1 ATTGAATTTTAAATTTC
42128348 ATTGAATTTTAAATTT
1 ATTGAATTTTAAATTT
42128364 TGAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTGAATTTTAAATTTC
Found at i:42131835 original size:342 final size:342
Alignment explanation
Indices: 42131202--42131887 Score: 1061
Period size: 342 Copynumber: 2.0 Consensus size: 342
42131192 TGGAAGCTAA
*
42131202 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAGAAGCACACACT
1 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAAAAGCACACACT
* * * *
42131267 ACCACTCAGACAATGCAGATCAGGCAGTTGGACATCATTTCATCAGATTTAATAATATACGATCC
66 ACCACTCACACAATGCAGATCAGACAGTTGGACATCATTTCAGCAGATTGAATAATATACGATCC
* * *
42131332 CAAGTGAGTCAACAAAATGAAAATATTGTTGTGAAAAGAGATAATGCTAGTGGAGGAAACAATAG
131 CAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAACAACAG
* ** *
42131397 GACCACATGTGATGGTCCAGAAAGTCATGATGCAACTGAAAAAGCTGGTGTGATTGTCTCAAAAT
196 GACCACATGTGATGGTCCAGAAAATCATGATGCAACTGAAAAAGCTCCTATGATTGTCTCAAAAT
*
42131462 TCAACCAAAGAAGTGAACCTTCTAGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATGTA
261 TCAACCAAAGAAGTGAACCTTCTAGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATGCA
*
42131527 TTGAACTCAAGAAATAG
326 TTAAACTCAAGAAATAG
* *
42131544 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGGAAAAGGTGGCTGGAAAAGCACACATT
1 TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAAAAGCACACACT
** * * * *
42131609 ACTGCTCACAGAATGCAGATCAGACAGTTGGACATCATTTTAGCAGATTGAATAATGTACGATGC
66 ACCACTCACACAATGCAGATCAGACAGTTGGACATCATTTCAGCAGATTGAATAATATACGATCC
* *
42131674 GAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAAGAACAG
131 CAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAACAACAG
***
42131739 GACTGTATGTGATGGTCCAGAAAATCATGATGCAACT-AAAACAGCTCCTATGATTGTCTCAAAA
196 GACCACATGTGATGGTCCAGAAAATCATGATGCAACTGAAAA-AGCTCCTATGATTGTCTCAAAA
* * * *
42131803 TTCAACCACATAAGTGAACCTTCTCA-TGCAAAAAACATGCTGCCTAAAAGGCAAACACAACATG
260 TTCAACCAAAGAAGTGAACCTTCT-AGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATG
42131867 CATTAAACTCAAGAAATAG
324 CATTAAACTCAAGAAATAG
42131886 TG
1 TG
42131888 ATGAAAGTGC
Statistics
Matches: 311, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
341 4 0.01
342 306 0.98
343 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (342 bp):
TGGTTTTGGTGATTCAAATAGAGATGCATGCTTTGAAGAAAAAGGTGGCTGGAAAAGCACACACT
ACCACTCACACAATGCAGATCAGACAGTTGGACATCATTTCAGCAGATTGAATAATATACGATCC
CAAGTGAGTCAACAAAATGAAAATATAGTTGTGAAAAGAGATAATGCTAGTGGAGAAAACAACAG
GACCACATGTGATGGTCCAGAAAATCATGATGCAACTGAAAAAGCTCCTATGATTGTCTCAAAAT
TCAACCAAAGAAGTGAACCTTCTAGTGCAAAAAACATACTGCCTAAAAGGCAAACAAAACATGCA
TTAAACTCAAGAAATAG
Found at i:42138054 original size:16 final size:17
Alignment explanation
Indices: 42138033--42138066 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
42138023 ATCACTTGTA
42138033 ACAACT-TTCTAATATT
1 ACAACTCTTCTAATATT
*
42138049 ACAACTCTTCTATTATT
1 ACAACTCTTCTAATATT
42138066 A
1 A
42138067 TTTTTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (17 bp):
ACAACTCTTCTAATATT
Found at i:42141237 original size:69 final size:69
Alignment explanation
Indices: 42141062--42141237 Score: 203
Period size: 69 Copynumber: 2.6 Consensus size: 69
42141052 GCCTCGGTGG
* * * * * ** *
42141062 ACTCTAATGGTTGGCATAGCCGAGCTATAG-ACTTACACCTTATAATCCCTGTGTTTACTGTCCT
1 ACTCTATTAGTTGCCATAGCCGAGCTATGGTA-TTACATCTTATAATCCCCATGTTTACTATCCT
42141126 GACAA
65 GACAA
* **
42141131 ACTCTGTTAGTTGCCATAGTTGAGCTATGGTATTACATCTTATAATCCCCATGTTTACTAT-CTC
1 ACTCTATTAGTTGCCATAGCCGAGCTATGGTATTACATCTTATAATCCCCATGTTTACTATCCT-
42141195 GACAA
65 GACAA
* *
42141200 ACTCTATTAGTTTCCATAGCCGAGCTATGGTGTTACAT
1 ACTCTATTAGTTGCCATAGCCGAGCTATGGTATTACAT
42141238 TATATACATC
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
68 2 0.02
69 86 0.97
70 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (69 bp):
ACTCTATTAGTTGCCATAGCCGAGCTATGGTATTACATCTTATAATCCCCATGTTTACTATCCTG
ACAA
Found at i:42149891 original size:27 final size:27
Alignment explanation
Indices: 42149852--42149927 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
42149842 TATTGTTAGC
* *
42149852 CCCAAATCCCAGAGGGTCGTGGGTAGT
1 CCCAATTCTCAGAGGGTCGTGGGTAGT
42149879 CCCAATTCTCAGAGGGTCGTGGGTAGT
1 CCCAATTCTCAGAGGGTCGTGGGTAGT
*
42149906 CCCAATTCTCAAAGGGTCGTGG
1 CCCAATTCTCAGAGGGTCGTGG
42149928 ACTACTCTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.22
Consensus pattern (27 bp):
CCCAATTCTCAGAGGGTCGTGGGTAGT
Found at i:42150869 original size:15 final size:15
Alignment explanation
Indices: 42150849--42150880 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
42150839 TATGATGACT
42150849 TAATTTTGTTAATGC
1 TAATTTTGTTAATGC
42150864 TAATTTTGTTAATGC
1 TAATTTTGTTAATGC
42150879 TA
1 TA
42150881 GATTAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
TAATTTTGTTAATGC
Found at i:42157445 original size:7 final size:6
Alignment explanation
Indices: 42157414--42157445 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
42157404 TGATTTTCTC
42157414 AAAATG AAAATG AAAATG AAAATG AGAAATG A
1 AAAATG AAAATG AAAATG AAAATG A-AAATG A
42157446 TTCATTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:42157634 original size:25 final size:25
Alignment explanation
Indices: 42157605--42157663 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
42157595 TTTCACCCGA
*
42157605 GGTAAAATTACCATAATTTTATTGG
1 GGTAAAATTACCATAATTTTACTGG
42157630 GGTAAAATTACCATAATTTTACTGG
1 GGTAAAATTACCATAATTTTACTGG
42157655 GGTAAAATT
1 GGTAAAATT
42157664 GAGATGAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (25 bp):
GGTAAAATTACCATAATTTTACTGG
Found at i:42159845 original size:10 final size:10
Alignment explanation
Indices: 42159827--42159872 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
42159817 CTATAACTAA
42159827 ATGTGATTAT
1 ATGTGATTAT
*
42159837 ATGTAATTAT
1 ATGTGATTAT
*
42159847 ATGTGCTTAT
1 ATGTGATTAT
42159857 ATGTGATTGAT
1 ATGTGATT-AT
42159868 ATGTG
1 ATGTG
42159873 TCAGAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.28, C:0.02, G:0.22, T:0.48
Consensus pattern (10 bp):
ATGTGATTAT
Found at i:42166971 original size:18 final size:18
Alignment explanation
Indices: 42166940--42166992 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
42166930 GCAATATATG
42166940 TAAAAATA-ATTTAAAATA
1 TAAAAATATA-TTAAAATA
* *
42166958 TAAAAATTTATTAATATA
1 TAAAAATATATTAAAATA
*
42166976 TAACAATATATGTAAAA
1 TAAAAATATAT-TAAAA
42166993 ACAATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TAAAAATATATTAAAATA
Found at i:42167229 original size:20 final size:20
Alignment explanation
Indices: 42167204--42167242 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
42167194 GCAATTACAC
42167204 AATTC-ACATATACAATATTT
1 AATTCAACATATA-AATATTT
42167224 AATTCAAACATATAAATAT
1 AATTC-AACATATAAATAT
42167243 GCATAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTCAACATATAAATATTT
Found at i:42167402 original size:5 final size:5
Alignment explanation
Indices: 42167373--42167411 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
42167363 TAAATTTAAC
* *
42167373 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
42167412 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:42174164 original size:15 final size:15
Alignment explanation
Indices: 42174144--42174175 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
42174134 CATTTCACTA
42174144 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
42174159 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
42174174 TT
1 TT
42174176 TGCATGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:42177928 original size:26 final size:26
Alignment explanation
Indices: 42177872--42177930 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
42177862 TATTTTCTCG
* *
42177872 AAATTTTACCAAGGGAAAAATCTTTA
1 AAATTTTACCAAGGGAAAAATCGTCA
*
42177898 AAATTTTACCAAGGGCAAAATCGTCA
1 AAATTTTACCAAGGGAAAAATCGTCA
*
42177924 CAATTTT
1 AAATTTT
42177931 CCTGGAGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAAGGGAAAAATCGTCA
Found at i:42184349 original size:26 final size:26
Alignment explanation
Indices: 42184313--42184381 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
42184303 TTTTCAATAG
*
42184313 TGCTCACACGAGCTGTGAAA-TGAGTC
1 TGCTCACACGAGTTGTGAAATTG-GTC
*
42184339 TGCTCACACGATTTGTGAAATTGGTC
1 TGCTCACACGAGTTGTGAAATTGGTC
*
42184365 TACTCACACGAGTTGTG
1 TGCTCACACGAGTTGTG
42184382 GGTCGAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 36 0.95
27 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (26 bp):
TGCTCACACGAGTTGTGAAATTGGTC
Found at i:42189441 original size:20 final size:21
Alignment explanation
Indices: 42189407--42189449 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
42189397 ATGTATTTAG
*
42189407 CAAAGTTACGATTTTCCAACA
1 CAAAGTTACGATTTTCAAACA
*
42189428 CAAAG-TACGGTTTTCAAACA
1 CAAAGTTACGATTTTCAAACA
42189448 CA
1 CA
42189450 CAACCATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.26
Consensus pattern (21 bp):
CAAAGTTACGATTTTCAAACA
Found at i:42190267 original size:45 final size:46
Alignment explanation
Indices: 42190218--42190304 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 46
42190208 CATTTTAGAG
*
42190218 AAAACCACATTCATTTCTAAATG-ATTCAATTTCTCCATTTCAAAA
1 AAAACCACAATCATTTCTAAATGTATTCAATTTCTCCATTTCAAAA
* * * * *
42190263 AAAACCATAATCATTTCTGAATGTTTTCCATTTCTCTATTTC
1 AAAACCACAATCATTTCTAAATGTATTCAATTTCTCCATTTC
42190305 TATTCATTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
45 20 0.57
46 15 0.43
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.40
Consensus pattern (46 bp):
AAAACCACAATCATTTCTAAATGTATTCAATTTCTCCATTTCAAAA
Found at i:42192508 original size:20 final size:18
Alignment explanation
Indices: 42192485--42192525 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
42192475 GAGTTGAGAA
*
42192485 AATTATTTAATTGAAAATTT
1 AATTAATTAATT--AAATTT
42192505 AATTAATTAATTAAATTT
1 AATTAATTAATTAAATTT
42192523 AAT
1 AAT
42192526 AAATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AATTAATTAATTAAATTT
Found at i:42197219 original size:11 final size:11
Alignment explanation
Indices: 42197203--42197305 Score: 55
Period size: 11 Copynumber: 9.9 Consensus size: 11
42197193 TAAAAAAATT
42197203 TATTTTAAAAA
1 TATTTTAAAAA
42197214 TATTTT--AAA
1 TATTTTAAAAA
42197223 -A--TTAAAAA
1 TATTTTAAAAA
* * *
42197231 AAATTAAAAAA
1 TATTTTAAAAA
42197242 GTATTTTAAAAA
1 -TATTTTAAAAA
42197254 TATTTT--AAA
1 TATTTTAAAAA
42197263 -A--TTAAAAA
1 TATTTTAAAAA
*
42197271 AATTTTAAAAAAA
1 TATTTT--AAAAA
*
42197284 GTATTTTAAAAG
1 -TATTTTAAAAA
42197296 TATTTTAAAA
1 TATTTTAAAA
42197306 TTAAAAAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 28
0.68 0.06 0.26
Matches are distributed among these distances:
6 4 0.06
8 8 0.11
9 8 0.11
11 30 0.42
12 12 0.17
13 5 0.07
14 5 0.07
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:42197247 original size:40 final size:41
Alignment explanation
Indices: 42197187--42197328 Score: 209
Period size: 42 Copynumber: 3.5 Consensus size: 41
42197177 AATTTATTTT
*
42197187 AAAAATTAAAAAAATTTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAAA-GTATTTTAAAAATATTTTAAAATTAAA
42197229 AAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
* *
42197269 AAAATTTTAAAAAAAGTATTTTAAAAGTATTTTAAAATT-AA
1 AAAA-ATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
*
42197310 AAAAA-TAAAAAAAATATTT
1 AAAAATTAAAAAAAGTATTT
42197329 ATTATATTCG
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
39 13 0.14
40 30 0.32
41 14 0.15
42 36 0.39
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (41 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:42197283 original size:30 final size:30
Alignment explanation
Indices: 42197230--42197294 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 30
42197220 AAAATTAAAA
42197230 AAAATTAAAAAAGTATTTTAAAAA-TATTTT
1 AAAATTAAAAAAG-ATTTTAAAAAGTATTTT
42197260 AAAATTAAAAAA-ATTTTAAAAAAAGTATTTT
1 AAAATTAAAAAAGATTTT--AAAAAGTATTTT
42197291 AAAA
1 AAAA
42197295 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 5 0.16
30 17 0.53
31 10 0.31
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTAAAAAAGATTTTAAAAAGTATTTT
Found at i:42201496 original size:24 final size:24
Alignment explanation
Indices: 42201476--42201523 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
42201466 TATTATTCTG
42201476 AATTTCAC-ATGTATTATTATTTAA
1 AATTT-ACTATGTATTATTATTTAA
42201500 AATTTACTATGTATTATTATTTAA
1 AATTTACTATGTATTATTATTTAA
42201524 TTTTAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
AATTTACTATGTATTATTATTTAA
Found at i:42201760 original size:17 final size:15
Alignment explanation
Indices: 42201732--42201779 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
42201722 GTCATTCCTG
42201732 TATAATATTTTTATC
1 TATAATATTTTTATC
42201747 TATATATATCTTTTAT-
1 TATA-ATAT-TTTTATC
*
42201763 TAAAATTATTTTTATC
1 TATAA-TATTTTTATC
42201779 T
1 T
42201780 CACATACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 11 0.39
16 11 0.39
17 6 0.21
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (15 bp):
TATAATATTTTTATC
Found at i:42203653 original size:12 final size:12
Alignment explanation
Indices: 42203634--42203664 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
42203624 ATAAATAATG
42203634 AATTTTATTTTT
1 AATTTTATTTTT
*
42203646 ATTTTTATTTTT
1 AATTTTATTTTT
42203658 AATTTTA
1 AATTTTA
42203665 ATTTCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
AATTTTATTTTT
Found at i:42228803 original size:11 final size:11
Alignment explanation
Indices: 42228789--42228823 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
42228779 AAAAACTAAA
*
42228789 AAAATATTAGT
1 AAAATAATAGT
42228800 AAAATAATAGT
1 AAAATAATAGT
42228811 AAAATAATAGT
1 AAAATAATAGT
42228822 AA
1 AA
42228824 TCATATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:42230348 original size:27 final size:27
Alignment explanation
Indices: 42230318--42230369 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
42230308 ACCAATCATA
* *
42230318 CCTCCTTGACAGGCAGCACTGGTGACC
1 CCTCCTTGAAAGGCAGCACTAGTGACC
*
42230345 CCTCCTTGAAAGGCGGCACTAGTGA
1 CCTCCTTGAAAGGCAGCACTAGTGA
42230370 GTAGATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.19
Consensus pattern (27 bp):
CCTCCTTGAAAGGCAGCACTAGTGACC
Found at i:42230484 original size:4 final size:4
Alignment explanation
Indices: 42230475--42230536 Score: 67
Period size: 4 Copynumber: 15.5 Consensus size: 4
42230465 AAAGAGGGAG
*
42230475 AAGA AAGA AAGA AAGA AAGA AAGAA AAGA GAAGA AA-A AAGA GA-A AAGA
1 AAGA AAGA AAGA AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA AAGA AAGA
42230523 AAG- AAGA ATAGA AA
1 AAGA AAGA A-AGA AA
42230537 TCTGTTTTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
3 8 0.16
4 30 0.60
5 12 0.24
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:42230523 original size:17 final size:17
Alignment explanation
Indices: 42230475--42230536 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
42230465 AAAGAGGGAG
*
42230475 AAGAAAGAAAGA-AAGA
1 AAGAAAGAAAAAGAAGA
42230491 AAGAAAGAAAAGAGAAGA
1 AAGAAAGAAAA-AGAAGA
42230509 AA-AAAGAGAAAAGAA-A
1 AAGAAAGA-AAAAGAAGA
42230525 GAAGAATAGAAA
1 -AAGAA-AGAAA
42230537 TCTGTTTTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
16 11 0.28
17 12 0.31
18 13 0.33
19 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (17 bp):
AAGAAAGAAAAAGAAGA
Found at i:42237132 original size:105 final size:108
Alignment explanation
Indices: 42236930--42237131 Score: 275
Period size: 105 Copynumber: 1.9 Consensus size: 108
42236920 ATTACATTCA
* *
42236930 TAACAAATCACAATAAATATTAAACTAAACAAATAATTAACCTAATAAAAAATTACTAACAAAAT
1 TAACAAATCACAATAAACATTAAACTAAACAAACAATT-A--TAATAAAAAATTACTAACAAAAT
* *
42236995 AACTTTAAAATCAATTAAAAAAACAAAAAAAATTACATTCATAACC
63 AACTTTAAAATAAAGTAAAAAAACAAAAAAAATTACATTCATAACC
* * *
42237041 TAACAAATCACAATAAGCATTAAACTAAACAAACAATT-T-AT-AATAGTTACTAACAAAATAAC
1 TAACAAATCACAATAAACATTAAACTAAACAAACAATTATAATAAAAAATTACTAACAAAATAAC
*
42237103 TTTAAAATAAAGTAAAAACAACATAAAAA
66 TTTAAAATAAAGTAAAAA-AACAAAAAAA
42237132 TCATAATAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
105 35 0.43
106 11 0.13
107 1 0.01
111 35 0.43
ACGTcount: A:0.61, C:0.14, G:0.01, T:0.24
Consensus pattern (108 bp):
TAACAAATCACAATAAACATTAAACTAAACAAACAATTATAATAAAAAATTACTAACAAAATAAC
TTTAAAATAAAGTAAAAAAACAAAAAAAATTACATTCATAACC
Found at i:42237648 original size:21 final size:19
Alignment explanation
Indices: 42237619--42237657 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 19
42237609 AAAATATGGA
42237619 TTTTTTTAGAATAAAAATAT
1 TTTTTTTAGAA-AAAAATAT
42237639 TTTTTATTAGAAAAAAATA
1 TTTTT-TTAGAAAAAAATA
42237658 GGGTGGTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTTTTTAGAAAAAAATAT
Found at i:42237753 original size:13 final size:14
Alignment explanation
Indices: 42237730--42237763 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
42237720 GCATACCTAT
*
42237730 TATTTTTTATTTTA
1 TATTATTTATTTTA
42237744 -ATTATTTATTTTA
1 TATTATTTATTTTA
42237757 TATTATT
1 TATTATT
42237764 GGTGTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTTATTTTA
Found at i:42239410 original size:10 final size:10
Alignment explanation
Indices: 42239391--42239500 Score: 61
Period size: 10 Copynumber: 10.8 Consensus size: 10
42239381 ATTATTAACA
42239391 ATTATAAAAAT
1 ATTAT-AAAAT
42239402 ATTATAAAAT
1 ATTATAAAAT
42239412 -TTATAAAA-
1 ATTATAAAAT
*
42239420 ATTTATAAAAA
1 A-TTATAAAAT
*
42239431 ATTGTAATAA-
1 ATTATAA-AAT
42239441 ATTATTAAAA-
1 ATTA-TAAAAT
42239451 ATTTATAAAAT
1 A-TTATAAAAT
*
42239462 -TAATAAATCAT
1 ATTATAAA--AT
42239473 ATT-TAAAAT
1 ATTATAAAAT
* *
42239482 TTTATAAAAC
1 ATTATAAAAT
42239492 ACTTATAAA
1 A-TTATAAA
42239501 TAATAGAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
9 18 0.22
10 34 0.43
11 27 0.34
12 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:42239417 original size:20 final size:19
Alignment explanation
Indices: 42239375--42239460 Score: 84
Period size: 20 Copynumber: 4.4 Consensus size: 19
42239365 TCATACAAAG
* *
42239375 TATAAAATTATTAACAA-T
1 TATAAAAATATTAAAAATT
42239393 TATAAAAATATTATAAAATT
1 TATAAAAATATTA-AAAATT
* *
42239413 TATAAAAATTTATAAAAAAT
1 TATAAAAATAT-TAAAAATT
*
42239433 TGTAATAAATTATTAAAAATT
1 TATAA-AAA-TATTAAAAATT
42239454 TATAAAA
1 TATAAAA
42239461 TTAATAAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
18 12 0.22
19 3 0.05
20 22 0.40
21 16 0.29
22 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (19 bp):
TATAAAAATATTAAAAATT
Found at i:42239443 original size:31 final size:30
Alignment explanation
Indices: 42239375--42239460 Score: 106
Period size: 31 Copynumber: 2.9 Consensus size: 30
42239365 TCATACAAAG
*
42239375 TATAAAATTATTAACAA-TTATAAAAATAT
1 TATAAAATTATTAAAAATTTATAAAAATAT
42239404 TATAAAATT-TATAAAAATTTATAAAAA-AT
1 TATAAAATTAT-TAAAAATTTATAAAAATAT
*
42239433 TGTAATAAATTATTAAAAATTTATAAAA
1 TAT-A-AAATTATTAAAAATTTATAAAA
42239461 TTAATAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
28 1 0.02
29 18 0.36
30 10 0.20
31 20 0.40
32 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
TATAAAATTATTAAAAATTTATAAAAATAT
Done.