Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 313 of 438
Found at i:97588563 original size:21 final size:21
Alignment explanation
Indices: 97588539--97588584 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
97588529 AATTTGCACT
97588539 CACCTACATCAATCCAAATAA
1 CACCTACATCAATCCAAATAA
*
97588560 CACCTACGTCAATCCAAATAA
1 CACCTACATCAATCCAAATAA
97588581 CACC
1 CACC
97588585 AATACATAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.17
Consensus pattern (21 bp):
CACCTACATCAATCCAAATAA
Found at i:97589537 original size:52 final size:50
Alignment explanation
Indices: 97589425--97589562 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 50
97589415 TTCACACCTT
97589425 AAGTGCCAATATCATGGTCCGAAGCCAACTC-A-ATA-AATCATGCACCCG
1 AAGTGCCAATATCATGG-CCGAAGCCAACTCAATATATAATCATGCACCCG
* * *
97589473 AAGTGCAAATATCATGGCCTGTAGCCAACTCAATATATATATC-TCGCACTCG
1 AAGTGCCAATATCATGGCC-GAAGCCAACTCAATATATA-ATCAT-GCACCCG
97589525 AAGTGCCAATATCATGGCCCGAAGCCAACTCAATATAT
1 AAGTGCCAATATCATGG-CCGAAGCCAACTCAATATAT
97589563 GTCTCAATGA
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
47 2 0.03
48 26 0.33
49 1 0.01
50 3 0.04
51 2 0.03
52 42 0.54
53 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (50 bp):
AAGTGCCAATATCATGGCCGAAGCCAACTCAATATATAATCATGCACCCG
Found at i:97593041 original size:21 final size:21
Alignment explanation
Indices: 97593000--97593043 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
97592990 TCTGAGTTAT
*
97593000 AAAATGTAAATTACTAAGCTA
1 AAAATGTAAAATACTAAGCTA
*
97593021 AAAATGCTAAAATA-TATGCTA
1 AAAATG-TAAAATACTAAGCTA
97593042 AA
1 AA
97593044 GATAACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATGTAAAATACTAAGCTA
Found at i:97595692 original size:50 final size:50
Alignment explanation
Indices: 97595256--97595694 Score: 538
Period size: 50 Copynumber: 8.9 Consensus size: 50
97595246 AGGGTAAGGT
* * * * * * * *
97595256 GCCGACGCTATGTCCCGGACATGGTCTTACACTGGCTCACACA--TCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * *
97595304 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GACTCTCGTATATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATCTCGAG
* * * * * *
97595354 G-CAATGCCATGTCCCATACATGATCTTACACTGGCTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * * *
97595402 TGCCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATA--TC-AA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
*
97595448 GCCGATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
97595498 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
97595548 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
** * *
97595598 GATGATGCCATGTCCCAGTCATGGTCTTACACTAGCTCTCATATCTCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* *
97595648 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
97595695 CCTAGCATCA
Statistics
Matches: 343, Mismatches: 36, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
45 32 0.09
46 2 0.01
47 6 0.02
48 39 0.11
49 43 0.13
50 221 0.64
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
Found at i:97599068 original size:47 final size:45
Alignment explanation
Indices: 97598922--97599177 Score: 168
Period size: 47 Copynumber: 5.5 Consensus size: 45
97598912 TATACGTACT
*
97598922 GATGCATGTCCCAGACATGTCTTACACTAGCA-TGAAACT-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACT--CACTCTACGCC
* * * * * *
97598966 AATGCATGTCCCAGACACGTCTTACACTGGCTAACATCA-TCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGC--AC-TCACTCTACGCC
*
97599013 GATGCATGTTCCAGACATGTCTTACACTAGCACTCACCTCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCA-CTCTACGCC
* * * *
97599059 GATGCCATGTCCCAGA-ATAGTCTGACAC-AGGCTA-TCA-TGATGCGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTA-GC-ACTCACT-CTAC-GCC
* * * * *
97599106 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTC-ACTCTACGCC
97599152 GATGCCATGTCCCAGACATGGTCTTA
1 GATG-CATGTCCCAGACAT-GTCTTA
97599178 TACTGGCTCT
Statistics
Matches: 164, Mismatches: 27, Indels: 38
0.72 0.12 0.17
Matches are distributed among these distances:
44 31 0.19
45 4 0.02
46 45 0.27
47 75 0.46
48 9 0.05
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCACTCTACGCC
Found at i:97599129 original size:93 final size:93
Alignment explanation
Indices: 97598920--97599169 Score: 294
Period size: 93 Copynumber: 2.7 Consensus size: 93
97598910 TGTATACGTA
* *
97598920 CTGATGCATGTCCCAGACATGTCTTACACTAGCA-TGAAACT-TAGCCAATG-CATGTCCCAGAC
1 CTGATGCATGTCCCAGACATGTCTTACACTAGCACT-CAACTCTAGCCGATGCCATGTCCCAGAC
* * *
97598982 ACGTCTTACACTGGCTAACATCATCGAGG
65 AAGTCTGACACAGGCTAACATCATCGAGG
* *
97599011 CTGATGCATGTTCCAGACATGTCTTACACTAGCACTCACCTCTACGCCGATGCCATGTCCCAGA-
1 CTGATGCATGTCCCAGACATGTCTTACACTAGCACTCAACTCTA-GCCGATGCCATGTCCCAGAC
* * *
97599075 ATAGTCTGACACAGGCTATCATGAT-GCGG
65 A-AGTCTGACACAGGCTAACATCATCGAGG
* ** * *
97599104 CTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGTCGATGCCATGTCCCAGAC
1 CTGATGCATGTCCCAGACATGTCTTACACTAGCACTCAACTCTA-GCCGATGCCATGTCCCAGAC
97599169 A
65 A
97599170 TGGTCTTATA
Statistics
Matches: 136, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
91 36 0.26
92 3 0.02
93 67 0.49
94 30 0.22
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (93 bp):
CTGATGCATGTCCCAGACATGTCTTACACTAGCACTCAACTCTAGCCGATGCCATGTCCCAGACA
AGTCTGACACAGGCTAACATCATCGAGG
Found at i:97605233 original size:14 final size:14
Alignment explanation
Indices: 97605214--97605241 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
97605204 AAATGGCTAT
97605214 GGCACACGCCTGTG
1 GGCACACGCCTGTG
97605228 GGCACACGCCTGTG
1 GGCACACGCCTGTG
97605242 TGGCCTAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.36, G:0.36, T:0.14
Consensus pattern (14 bp):
GGCACACGCCTGTG
Found at i:97610274 original size:11 final size:11
Alignment explanation
Indices: 97610258--97610282 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
97610248 TCTGATTTCA
97610258 CTGAAAATGGG
1 CTGAAAATGGG
97610269 CTGAAAATGGG
1 CTGAAAATGGG
97610280 CTG
1 CTG
97610283 TTACAACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.12, G:0.36, T:0.20
Consensus pattern (11 bp):
CTGAAAATGGG
Found at i:97615255 original size:25 final size:28
Alignment explanation
Indices: 97615203--97615256 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
97615193 TTATCGCTAT
* *
97615203 TATATGTTGAATGATAGATTTTGCATAA
1 TATATGTTGAATGATAGATTATGAATAA
97615231 TATA-GTTGAAT-AT-GATTATGAATAA
1 TATATGTTGAATGATAGATTATGAATAA
97615256 T
1 T
97615257 GCATAATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 2 0.08
27 7 0.29
28 4 0.17
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.43
Consensus pattern (28 bp):
TATATGTTGAATGATAGATTATGAATAA
Found at i:97615416 original size:48 final size:48
Alignment explanation
Indices: 97615345--97615615 Score: 275
Period size: 48 Copynumber: 5.6 Consensus size: 48
97615335 TATGTGCGCT
* *
97615345 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
* * * * * *
97615393 AGTGTAAGACCACGTCTGGGACATGACATCAG-CATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CGATATGAGAGCC
* *
97615441 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGA-TATGAGAGCC
* * * *
97615489 AGTTTAAGACCATGTTTGGGACATGGCATCAG-AATTCAGA-A-GAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA--C-GATATGAGAGCC
* *
97615537 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGACAT-ATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGA-GAGCC
* * *
97615585 AATGTAAGACCATGTTTGGAACATGGCATCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCA
97615616 AAAATTCACC
Statistics
Matches: 184, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
46 2 0.01
47 7 0.04
48 170 0.92
49 4 0.02
51 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
Found at i:97615499 original size:96 final size:96
Alignment explanation
Indices: 97615335--97615615 Score: 350
Period size: 96 Copynumber: 2.9 Consensus size: 96
97615325 ATTTGGGTGT
*
97615335 TATGTGCGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAA
1 TATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAA
* *
97615400 GACCACGTCTGGGACATGACATCAGCATTGA
66 GACCACGTCTGGGACATGACATCAGAATTCA
* *
97615431 TATGTGCGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTTTA
1 TATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCCAGTGTA
* * *
97615495 AGACCATGTTTGGGACATGGCATCAGAATTCA
65 AGACCACGTCTGGGACATGACATCAGAATTCA
* * * * * * * *
97615527 GAAGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGACAT-ATGAGCCAATGTA
1 TATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGA-GAGCCAGTGTA
* * * *
97615591 AGACCATGTTTGGAACATGGCATCA
65 AGACCACGTCTGGGACATGACATCA
97615616 AAAATTCACC
Statistics
Matches: 163, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
95 2 0.01
96 160 0.98
97 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (96 bp):
TATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTGTAA
GACCACGTCTGGGACATGACATCAGAATTCA
Found at i:97623050 original size:48 final size:48
Alignment explanation
Indices: 97622991--97623308 Score: 255
Period size: 48 Copynumber: 6.6 Consensus size: 48
97622981 TATGTACGCT
*
97622991 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
* * * * *** * * *
97623039 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATTTTGTGAGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
* * * * * * *
97623087 AGTGTAAGACCACGTCTGAGACATGACATCAG-CATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CGATATGAGAGCC
*
97623135 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGA-TATGAGAGCC
* * * * * * *
97623183 AGTGTAAGACCATGTTTGGGACATGGTATC-GACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CGATATGAGAGCC
* * * * ** * *
97623231 AGTGTAAAACCATGTTTGGGATATGGCCTCAGCGTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
* * *
97623279 AATGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
97623309 GGAAATTCAC
Statistics
Matches: 210, Mismatches: 54, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
47 5 0.02
48 201 0.96
49 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCC
Found at i:97623159 original size:96 final size:99
Alignment explanation
Indices: 97622987--97623257 Score: 315
Period size: 96 Copynumber: 2.8 Consensus size: 99
97622977 GTGATATGTA
* * *
97622987 CGCTAGTGTAAGACCATGTCT-AGGACATGGCATCAGCCA-CGATATGAGAGCCAGTGTAAGACC
1 CGCTAGTGTAAGACCATGTCTGA-GACATGGCATCAGACATTGATATGAGAGCTAGTGTAAGACC
* * *
97623050 ATGTTTGGAACATGGCATCGG-CA-ATTTTGTGAG
65 ATGTTTGGGACATGGCATCGGCCACATTATGAGAG
* * * *
97623083 CGCTAGTGTAAGACCACGTCTGAGACATGACATCAG-CATTGATATGTGCGCTAGTGTAAGACCA
1 CGCTAGTGTAAGACCATGTCTGAGACATGGCATCAGACATTGATATGAGAGCTAGTGTAAGACCA
*
97623147 TGTCTGGGACATGGCATCGGCCACATTATGAGAG
66 TGTTTGGGACATGGCATCGGCCACATTATGAGAG
* * * * * *
97623181 C-C-AGTGTAAGACCATGTTTGGGACATGGTATC-GACATTGAGACGAGAGCTAGTGTAAAACCA
1 CGCTAGTGTAAGACCATGTCTGAGACATGGCATCAGACATTGATATGAGAGCTAGTGTAAGACCA
*
97623243 TGTTTGGGATATGGC
66 TGTTTGGGACATGGC
97623258 CTCAGCGTCG
Statistics
Matches: 148, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
95 3 0.02
96 132 0.89
97 4 0.03
98 9 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (99 bp):
CGCTAGTGTAAGACCATGTCTGAGACATGGCATCAGACATTGATATGAGAGCTAGTGTAAGACCA
TGTTTGGGACATGGCATCGGCCACATTATGAGAG
Found at i:97623263 original size:144 final size:144
Alignment explanation
Indices: 97622978--97623310 Score: 409
Period size: 144 Copynumber: 2.3 Consensus size: 144
97622968 GACATTTGGG
* * *
97622978 TGATATGTACGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* ** * * *
97623043 TAAGACCATGTTTGGAACATGGCATCGGCAATTTTGTGAGCGCTAGTGTAAGACCACGTCTGAGA
66 TAAGACCATGTTTGGAACATGGCATCGACAATTGAGCGAGAGCTAGTGTAAAACCACGTCTGAGA
97623108 CATGACATCAGCAT
131 CATGACATCAGCAT
97623122 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGT
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCCAGT
* * * * *
97623186 GTAAGACCATGTTTGGGACATGGTATCGAC-ATTGAGACGAGAGCTAGTGTAAAACCATGTTTGG
65 GTAAGACCATGTTTGGAACATGGCATCGACAATTGAG-CGAGAGCTAGTGTAAAACCACGTCTGA
* * * *
97623250 GATATGGCCTCAGCGT
129 GACATGACATCAGCAT
* * * * * * *
97623266 CGACATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
97623311 AAATTCACCC
Statistics
Matches: 162, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
143 5 0.03
144 157 0.97
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (144 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
TAAGACCATGTTTGGAACATGGCATCGACAATTGAGCGAGAGCTAGTGTAAAACCACGTCTGAGA
CATGACATCAGCAT
Found at i:97638573 original size:21 final size:20
Alignment explanation
Indices: 97638536--97638574 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
97638526 TTAATATTTT
*
97638536 ATTAATTTAATATTAATGTG
1 ATTAATTTAATACTAATGTG
*
97638556 ATTAATTCTAATCCTAATG
1 ATTAATT-TAATACTAATG
97638575 GAACTCTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (20 bp):
ATTAATTTAATACTAATGTG
Found at i:97641232 original size:20 final size:22
Alignment explanation
Indices: 97641192--97641234 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
97641182 TAATAAAATC
97641192 ATTATAATTATTTTAGTTTTAT
1 ATTATAATTATTTTAGTTTTAT
*
97641214 ATTAT-ATTA-TTTGGTTTTAT
1 ATTATAATTATTTTAGTTTTAT
97641234 A
1 A
97641235 GATTTTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 4 0.20
22 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
ATTATAATTATTTTAGTTTTAT
Found at i:97641293 original size:3 final size:3
Alignment explanation
Indices: 97641285--97641323 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
97641275 TGGTAAAGTA
97641285 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
97641324 CAAATCGCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:97641630 original size:15 final size:15
Alignment explanation
Indices: 97641610--97641639 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97641600 AGAAAAAGTC
97641610 ATATTAATATATTAA
1 ATATTAATATATTAA
*
97641625 ATATTAATGTATTAA
1 ATATTAATATATTAA
97641640 TGTTTTGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATTAATATATTAA
Found at i:97646359 original size:22 final size:22
Alignment explanation
Indices: 97646328--97646369 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
97646318 TCCCCATAGA
*
97646328 AAGTGTAGGGATGGACGGAGGC
1 AAGTGCAGGGATGGACGGAGGC
* *
97646350 AAGTGCAGGGTTGGATGGAG
1 AAGTGCAGGGATGGACGGAG
97646370 TTATCATGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.07, G:0.50, T:0.17
Consensus pattern (22 bp):
AAGTGCAGGGATGGACGGAGGC
Found at i:97646426 original size:19 final size:20
Alignment explanation
Indices: 97646404--97646447 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
97646394 CTGTTTTGTT
97646404 ATGGG-CCAACTGTATTGAA
1 ATGGGCCCAACTGTATTGAA
* *
97646423 ATGGGCCCAACTGTGTTGAT
1 ATGGGCCCAACTGTATTGAA
97646443 ATGGG
1 ATGGG
97646448 TTAAGGCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTGAA
Found at i:97647520 original size:43 final size:44
Alignment explanation
Indices: 97647451--97647578 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 44
97647441 ATAAAACTTG
* *
97647451 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATA
1 TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATA
** * * * *
97647494 T-CGGTGCCACTGTCCCAGATAGGGTCTTACACGTAATCTCA-A
1 TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATA
*
97647536 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACAT
97647579 CTCGATAACC
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
42 7 0.10
43 60 0.90
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
TACAATGCCAATGTCCCAGATATGGTCTTACATGTAATCACATA
Found at i:97649779 original size:12 final size:12
Alignment explanation
Indices: 97649762--97649787 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
97649752 GGGCTCGGGG
97649762 ACACGCCCGTGT
1 ACACGCCCGTGT
97649774 ACACGCCCGTGT
1 ACACGCCCGTGT
97649786 AC
1 AC
97649788 GATTACTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.42, G:0.23, T:0.15
Consensus pattern (12 bp):
ACACGCCCGTGT
Found at i:97655729 original size:24 final size:24
Alignment explanation
Indices: 97655697--97655745 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
97655687 TGCTATAAGG
97655697 ATTGTTTTGAGATCGAGGATTGTT
1 ATTGTTTTGAGATCGAGGATTGTT
97655721 ATTGTTTTGAGATCGAGGATTGTT
1 ATTGTTTTGAGATCGAGGATTGTT
97655745 A
1 A
97655746 CCCATGTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.29, T:0.45
Consensus pattern (24 bp):
ATTGTTTTGAGATCGAGGATTGTT
Found at i:97658247 original size:17 final size:17
Alignment explanation
Indices: 97658225--97658257 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
97658215 ACATGAAATA
97658225 AAAGGATTAGGAGCATT
1 AAAGGATTAGGAGCATT
97658242 AAAGGATTAGGAGCAT
1 AAAGGATTAGGAGCAT
97658258 CGAATTCACC
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:0.42, C:0.06, G:0.30, T:0.21
Consensus pattern (17 bp):
AAAGGATTAGGAGCATT
Found at i:97661355 original size:43 final size:43
Alignment explanation
Indices: 97661294--97661379 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
97661284 GTATCAAGCA
97661294 CATAAGCAAAATAAGCTTCGCAACCCTTTCTCACATATTTCTG
1 CATAAGCAAAATAAGCTTCGCAACCCTTTCTCACATATTTCTG
*
97661337 CATAAGCAAAATAAGCTTCGTAACCCTTTCTCACATATTTCTG
1 CATAAGCAAAATAAGCTTCGCAACCCTTTCTCACATATTTCTG
97661380 AGCTAACATC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (43 bp):
CATAAGCAAAATAAGCTTCGCAACCCTTTCTCACATATTTCTG
Found at i:97665340 original size:43 final size:42
Alignment explanation
Indices: 97665200--97665345 Score: 159
Period size: 43 Copynumber: 3.4 Consensus size: 42
97665190 TATCCCAGAT
* ** * *
97665200 ATGGTCTTACATGTTAT-CACATATTGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCCA-ATA-CAATGCCAATGTCCTAGAC
* * * * *
97665243 AAGGTCTTACACGAAATCGATTAACAATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATCCAAT-ACAATGCCAATGTCCTAGAC
97665286 ATGGTCTTACATGTAATCTCAATACAATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATC-CAATACAATGCCAATGTCCTAGAC
97665329 ATGGTCTTACATGTAAT
1 ATGGTCTTACATGTAAT
97665346 AAAATCTCGG
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
43 81 0.95
44 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCCAATACAATGCCAATGTCCTAGAC
Found at i:97669232 original size:29 final size:28
Alignment explanation
Indices: 97669190--97669287 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 28
97669180 GTGACAAGAT
97669190 TGGCACTAAGTGTGCAAGCTTGAAA-AGTA
1 TGGCACTAAGTGTGCAAGCTT-AAATA-TA
97669219 TGGCACTAAGTGTGCGAA-CTTAAATTATA
1 TGGCACTAAGTGTGC-AAGCTTAAA-TATA
* * *
97669248 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCAAGCTTAAAT-ATA
97669277 TGGCACTAAGT
1 TGGCACTAAGT
97669288 CTGCGTGATC
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
28 5 0.08
29 52 0.87
30 3 0.05
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCAAGCTTAAATATA
Found at i:97677378 original size:29 final size:29
Alignment explanation
Indices: 97677276--97677377 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
97677266 GTGACAAGAT
***
97677276 TGGCACTAAGTGTGCAAGCTTGAAAAGTC-
1 TGGCACTAAGTGTGCAAGCTT-AAATCACA
* * *
97677305 TGGCACTAAGTGTGCAAACTTAAATTATA
1 TGGCACTAAGTGTGCAAGCTTAAATCACA
* *
97677334 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCAAGCTTAAATCACA
97677363 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
97677378 GTGATCGATT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTAAATCACA
Found at i:97681601 original size:47 final size:44
Alignment explanation
Indices: 97681437--97681600 Score: 179
Period size: 46 Copynumber: 3.6 Consensus size: 44
97681427 GTGCCTATGA
* *
97681437 CATGTCCCAGACATGGTCTTACACTA-ACACATCTCATAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGACTCGTCTCATA-CCGATG
* * **
97681482 CATGTCCCATACATGTCTTACA-TTGACTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGAC-T-CGTCTC-ATACCGATG
*
97681528 CATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTAG-ACTCGTCTC-ATACCGATG
97681574 CCATGTCCCAGACATGTCTTACACTAG
1 -CATGTCCCAGACATGTCTTACACTAG
97681601 CTGACAATAA
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 10 0.10
45 13 0.13
46 44 0.44
47 29 0.29
48 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGACTCGTCTCATACCGATG
Found at i:97689146 original size:48 final size:46
Alignment explanation
Indices: 97689029--97689199 Score: 156
Period size: 47 Copynumber: 3.7 Consensus size: 46
97689019 AGGGAAAGGT
* * *
97689029 GCCGATGCCATGTCCCAGACATGATCTTACACT-G-A-T-A-CATTTA
1 GCCGATG-CATGTCCTAGACATG-TCTTACACTAGCACTCATCATATG
* * * *
97689072 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTTAAT-
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCATCAT-ATG
* * * *
97689118 GCTGATGCCATGTCCTAGACATTGTCTTACACTAGCTCTCATGATGTG
1 GCCGATG-CATGTCCTAGACA-TGTCTTACACTAGCACTCATCATATG
97689166 GCCGATGCATGTCCTAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGC
97689200 TCACAATAGC
Statistics
Matches: 106, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
41 9 0.08
42 15 0.14
43 8 0.08
44 1 0.01
46 22 0.21
47 26 0.25
48 25 0.24
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCATCATATG
Found at i:97689662 original size:34 final size:34
Alignment explanation
Indices: 97689619--97689687 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
97689609 TTTTATCAAA
*
97689619 TTTCTTCATATCTTAAGCCTAGCTGAACCATTTT
1 TTTCTTCATATCTTAAGCCTAGCCGAACCATTTT
97689653 TTTCTTCATATCTTAAGCCTAGCCGAACCATTTT
1 TTTCTTCATATCTTAAGCCTAGCCGAACCATTTT
97689687 T
1 T
97689688 ACTCTTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.23, C:0.25, G:0.09, T:0.43
Consensus pattern (34 bp):
TTTCTTCATATCTTAAGCCTAGCCGAACCATTTT
Found at i:97689698 original size:34 final size:34
Alignment explanation
Indices: 97689621--97689698 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
97689611 TTATCAAATT
* *
97689621 TCTTCATATCTTAAGCCTAGCTGAACCATTTTTT
1 TCTTCATATCTTAAGCCTAGCCGAACCATTTTTC
97689655 TCTTCATATCTTAAGCCTAGCCGAACCATTTTTAC
1 TCTTCATATCTTAAGCCTAGCCGAACCATTTTT-C
97689690 TCTT-ATATC
1 TCTTCATATC
97689699 AACTCCAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 37 0.90
35 4 0.10
ACGTcount: A:0.24, C:0.26, G:0.08, T:0.42
Consensus pattern (34 bp):
TCTTCATATCTTAAGCCTAGCCGAACCATTTTTC
Found at i:97691809 original size:14 final size:14
Alignment explanation
Indices: 97691787--97691824 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
97691777 TAATAAAAAT
*
97691787 AAACTAACTTAGAA
1 AAACCAACTTAGAA
97691801 AAACCAACTTAGAA
1 AAACCAACTTAGAA
97691815 AAACCAACTT
1 AAACCAACTT
97691825 TGCAGATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.55, C:0.21, G:0.05, T:0.18
Consensus pattern (14 bp):
AAACCAACTTAGAA
Found at i:97710420 original size:40 final size:40
Alignment explanation
Indices: 97710356--97710488 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
97710346 GCCTATGGGA
* * * * *
97710356 CTTAACCCGGATATCACGATTTGCACAAACGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* *
97710396 CTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* * * *
97710436 CTTAGCCCGGATATAGCTACTAGCACAATTGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
**
97710476 CTTAATCCGGATA
1 CTTAGCCCGGATA
97710489 AAATTTTCAG
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
Found at i:97717542 original size:80 final size:80
Alignment explanation
Indices: 97717458--97717606 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
97717448 TATGGTAACC
* * * *
97717458 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
97717522 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
97717538 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
97717603 CCGG
66 CCGG
97717607 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:97717548 original size:40 final size:38
Alignment explanation
Indices: 97717499--97717606 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
97717489 ATCACGATTT
*
97717499 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
97717539 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
97717579 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
97717607 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:97720268 original size:80 final size:80
Alignment explanation
Indices: 97720184--97720335 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
97720174 TATGGTAACC
* * * *
97720184 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
97720248 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
97720264 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
97720329 CCGGATA
66 CCGGATA
97720336 ATTTCAGCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.02
80 59 0.98
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:97720274 original size:40 final size:39
Alignment explanation
Indices: 97720225--97720335 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
97720215 ATCACGATTT
*
97720225 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAA-GCACTA
*
97720265 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
97720305 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
97720336 ATTTCAGCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 58 0.92
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:97723440 original size:23 final size:23
Alignment explanation
Indices: 97723412--97723457 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
97723402 GTCTAAAGAT
97723412 CCGATTCATTAAATCCATAAATA
1 CCGATTCATTAAATCCATAAATA
97723435 CCGATTCATTAAATCCATAAATA
1 CCGATTCATTAAATCCATAAATA
97723458 GGGGCATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.30
Consensus pattern (23 bp):
CCGATTCATTAAATCCATAAATA
Found at i:97727402 original size:38 final size:37
Alignment explanation
Indices: 97727352--97727455 Score: 145
Period size: 38 Copynumber: 2.7 Consensus size: 37
97727342 ATCACGATTT
*
97727352 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAACTA
**
97727390 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAACTA
*
97727428 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
97727456 TTATAATTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 2 0.03
38 58 0.97
ACGTcount: A:0.22, C:0.31, G:0.25, T:0.22
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAAACTA
Found at i:97732329 original size:22 final size:22
Alignment explanation
Indices: 97732301--97732342 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
97732291 TCTGTCTGAA
97732301 ATATAT-GAAATGATGATATGTG
1 ATATATGGAAAT-ATGATATGTG
97732323 ATATATGGAAATATGATATG
1 ATATATGGAAATATGATATG
97732343 ATAATTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (22 bp):
ATATATGGAAATATGATATGTG
Found at i:97735379 original size:40 final size:39
Alignment explanation
Indices: 97735334--97735463 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
97735324 CGGAATACAA
97735334 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
97735374 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
97735414 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
97735454 CCGGATATAA
1 CCGGATATAA
97735464 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:97742809 original size:40 final size:39
Alignment explanation
Indices: 97742764--97742893 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
97742754 CGGAATACAA
97742764 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
97742804 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
97742844 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
97742884 CCGGATATAA
1 CCGGATATAA
97742894 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:97747247 original size:50 final size:50
Alignment explanation
Indices: 97747138--97747353 Score: 220
Period size: 50 Copynumber: 4.3 Consensus size: 50
97747128 GCTAAATGAC
* * * * * * ***
97747138 CTTGTATATTCAGCCACATAGGTATGTACATATGTGATGTTGTATTGGGT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTAAT
* * * *
97747188 CTTGAATATTCGGCCATGA-AGGTATGCACAAATGCGATATTATATTTAAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTATATTT-AAT
* * * * *
97747239 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTAAT
*
97747288 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTAAT
1 CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTAAT
*
97747338 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
97747354 AATGAGTGAT
Statistics
Matches: 134, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
49 3 0.02
50 129 0.96
51 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGCACATATGTGATATTATATTTAAT
Found at i:97747317 original size:100 final size:100
Alignment explanation
Indices: 97747138--97747353 Score: 283
Period size: 100 Copynumber: 2.2 Consensus size: 100
97747128 GCTAAATGAC
* * * ** *
97747138 CTTGTATATTCAGCCACATAGGTATGTACATATGTGATGTTGTATTGGGTCTTGAATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCC
*
97747203 ATGAAGGTATGCACAAATGCGATATTATATTTAAAT
66 ATGAAGGTAAGCACAAATGCGATATTATATTT-AAT
* * *
97747239 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCC
* *
97747303 AT-ATAGGTAAGCACATATGTGATATTATATTTAAT
66 ATGA-AGGTAAGCACAAATGCGATATTATATTTAAT
*
97747338 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
97747354 AATGAGTGAT
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
99 4 0.04
100 96 0.96
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (100 bp):
CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGGCC
ATGAAGGTAAGCACAAATGCGATATTATATTTAAT
Found at i:97757224 original size:35 final size:34
Alignment explanation
Indices: 97757184--97757256 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 34
97757174 CTAAACCCTT
*
97757184 ATTTACTTTACTTGAAATAAAAAAAAAACCTTTTA
1 ATTTACTCTACTTGAAATAAAAAAAAAA-CTTTTA
97757219 ATTTACTCTACTTGAAATAAAAAAAAAACTTTTA
1 ATTTACTCTACTTGAAATAAAAAAAAAACTTTTA
97757253 ATTT
1 ATTT
97757257 TGATGATCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 10 0.27
35 27 0.73
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (34 bp):
ATTTACTCTACTTGAAATAAAAAAAAAACTTTTA
Found at i:97758603 original size:25 final size:25
Alignment explanation
Indices: 97758575--97758626 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
97758565 TTTGGCTTGA
*
97758575 CATTTACTAAGAAATATCGAATATT
1 CATTTACTAAGAAATATCAAATATT
* * *
97758600 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGAAATATCAAATATT
97758625 CA
1 CA
97758627 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGAAATATCAAATATT
Found at i:97759890 original size:11 final size:11
Alignment explanation
Indices: 97759874--97759898 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
97759864 TTCAGCTGAT
97759874 GAAAATGAAGA
1 GAAAATGAAGA
97759885 GAAAATGAAGA
1 GAAAATGAAGA
97759896 GAA
1 GAA
97759899 TTCTACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:97764779 original size:48 final size:48
Alignment explanation
Indices: 97764721--97764854 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 48
97764711 GGGTTATTGT
97764721 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA-CAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGACATTGAGATCAA
* * * * * **
97764769 GAGCTAGTGTAAGACATGTTTGGGAAAT-GCATCAACCTAGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACATTGAGATCAA
* *
97764816 -AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATT
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACATT
97764855 CTACCCCATG
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
46 36 0.51
47 20 0.29
48 14 0.20
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACATTGAGATCAA
Found at i:97774817 original size:48 final size:47
Alignment explanation
Indices: 97774741--97775009 Score: 189
Period size: 48 Copynumber: 5.6 Consensus size: 47
97774731 TGATATGTGT
* * *
97774741 GCCAATGTAAGACCATGTTTGGAACATGGCATCGGCCACATCATGAGA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCAT-ATGAGA
* * * * * *
97774789 GCCAGTGTAACACCATGTCTGGGACATGGCATTGGCGTTGATATGTA-C
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGC-CTCATATG-AGA
* * * * * * * * * *
97774837 GCTAGTGTAAGACCATGTCTGGGATATAGCATCGACGTTGATGTGTGG
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGC-CTCATATGAGA
* * * * * * *
97774885 GCTAGTGTAAGACCATGTCTGGAACATGGCATTGGCAATAAGACGACA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGC-CTCATATGAGA
* * ** *
97774933 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGGCATGTGA
1 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTC-ATATGAGA
*
97774981 GCCAGTGTAAGACCATGTTTGGAACATGG
1 GCCAGTGTAAGACCATGTCTGGAACATGG
97775010 TATAGGTAAT
Statistics
Matches: 173, Mismatches: 44, Indels: 8
0.77 0.20 0.04
Matches are distributed among these distances:
47 1 0.01
48 169 0.98
49 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCATATGAGA
Found at i:97774988 original size:96 final size:96
Alignment explanation
Indices: 97774746--97775009 Score: 298
Period size: 96 Copynumber: 2.8 Consensus size: 96
97774736 TGTGTGCCAA
* * * * *
97774746 TGTAAGACCATGTTTGGAACATGGCATCGGCCAC-ATCATGAGAGCCAGTGTAACACCATGTCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGCCAGTGTAAGACCATGTCTG
* ** * * *
97774810 GGACATGGCATTGGCGTTGATATGTACGCTAG
65 GAACATGGCATTGGCAATAAGACGTACGCTAG
* * * * * ** * *
97774842 TGTAAGACCATGTCTGGGATATAGCATCGACGTTGATGTGTGGGCTAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTGG
97774907 AACATGGCATTGGCAATAAGACG-ACAGCTAG
66 AACATGGCATTGGCAATAAGACGTAC-GCTAG
* *
97774938 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGGCATGTGAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTGG
97775003 AACATGG
66 AACATGG
97775010 TATAGGTAAT
Statistics
Matches: 135, Mismatches: 31, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
95 2 0.01
96 132 0.98
97 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTGG
AACATGGCATTGGCAATAAGACGTACGCTAG
Found at i:97777031 original size:40 final size:40
Alignment explanation
Indices: 97776963--97777166 Score: 293
Period size: 40 Copynumber: 5.1 Consensus size: 40
97776953 CGGAATTTAA
* ** * *
97776963 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* *
97777003 CCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
97777043 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
97777083 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
97777123 CCGGATATAATC-ACTAGCATAATTGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
97777163 CCGG
1 CCGG
97777167 GTATCATTCA
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 149 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:97784238 original size:40 final size:40
Alignment explanation
Indices: 97784170--97784333 Score: 213
Period size: 40 Copynumber: 4.1 Consensus size: 40
97784160 CGGAATTTAA
* * * *
97784170 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
97784210 CCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
*
97784250 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
97784290 CCGGATATAATC-ACTAGCATAATTGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGC
97784330 CCGG
1 CCGG
97784334 GTATCATTCA
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 108 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:97786764 original size:39 final size:40
Alignment explanation
Indices: 97786710--97786864 Score: 197
Period size: 39 Copynumber: 3.9 Consensus size: 40
97786700 TGTGTATGAA
* *
97786710 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
97786749 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
* * * * *
97786788 TGTGTGAGTTGTGATATCCAGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
* * * *
97786828 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGC
97786865 GTTTGAACGA
Statistics
Matches: 100, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (40 bp):
TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
Found at i:97786831 original size:79 final size:79
Alignment explanation
Indices: 97786718--97786864 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 79
97786708 AATGTGCGAA
* * *
97786718 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CCCGAA
1 TTGTGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAGTCCCGAA
97786782 GGCAATTGTGTGAG
66 GGCAATTGTGTGAG
* * * *
97786796 TTGTGATATCCAGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTATGTCCCGA
1 TTGTGATATCCAGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAGTCCCGA
97786861 AGGC
65 AGGC
97786865 GTTTGAACGA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 17 0.28
79 34 0.57
80 9 0.15
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (79 bp):
TTGTGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAGTCCCGAA
GGCAATTGTGTGAG
Found at i:97786891 original size:79 final size:78
Alignment explanation
Indices: 97786720--97786902 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 78
97786710 TGTGCGAATT
* * * *
97786720 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCAGGTTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAGCCCGAAGGC
*** *
97786785 AATTGTGTGAGTT
66 AATTGAACGAGTA
* * *
97786798 GTGATATCCAGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTATGTCCCGAAG
1 GTGATATCCAGGTTAAG-CCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAG-CCCGAAG
**
97786863 GCGTTTGAACGAGTA
64 GCAATTGAACGAGTA
*
97786878 GCT-ATATCC-GGTTAAACTCCGAAGG
1 G-TGATATCCAGGTTAAGC-CCGAAGG
97786903 TATGTGATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
78 16 0.18
79 47 0.54
80 23 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (78 bp):
GTGATATCCAGGTTAAGCCCGAAGGCAATTGTGCGAGTTATCATAACCGGGCTAAGCCCGAAGGC
AATTGAACGAGTA
Found at i:97795957 original size:41 final size:41
Alignment explanation
Indices: 97795911--97796130 Score: 275
Period size: 41 Copynumber: 5.3 Consensus size: 41
97795901 TATTCGGGCT
*
97795911 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAAAT-GGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATT-AAATCAGGC
* *
97795952 TTATTGCCTAGCAAGCTTTGTGCCGGTGTATTAAATTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* * *
97795993 TTATTACCTAGCAGGCTTTGTGTCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* *
97796034 TTATTGCCTAGCAGGCTTTATATGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTAAATCAGGC
* * *
97796077 TTATTGTCTAGCAGGCTTTGTGCCGGTGTTTTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATC-AGGC
97796118 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
97796131 AATTTTATGT
Statistics
Matches: 160, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
40 6 0.04
41 114 0.71
42 4 0.03
43 36 0.22
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
Found at i:97796096 original size:84 final size:82
Alignment explanation
Indices: 97795911--97796131 Score: 286
Period size: 84 Copynumber: 2.7 Consensus size: 82
97795901 TATTCGGGCT
* * *
97795911 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAAAT-GGGCTTATTGCCTAGCAAGCTTTGTGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATT-ATATCAGGCTTATTGCCTAGCAAGCTTTATGC
*
97795975 CGGTGTATTAAATTAGGC
65 CGGTGTATTAAATCAGGC
* * *
97795993 TTATTACCTAGCAGGCTTTGTGTCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTTTATATG
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAAGC-TT-TATG
*
97796058 CCGGTGTATTATATCAGGC
64 CCGGTGTATTAAATCAGGC
* *
97796077 TTATTGTCTAGCAGGCTTTGTGCCGGTGTTTTATA-CTAGGCTT-TATGCCTAGCAA
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGCTTAT-TGCCTAGCAA
97796132 ATTTTATGTG
Statistics
Matches: 121, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
81 3 0.02
82 48 0.40
83 4 0.03
84 66 0.55
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (82 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAAGCTTTATGCC
GGTGTATTAAATCAGGC
Found at i:97798626 original size:48 final size:48
Alignment explanation
Indices: 97798551--97798775 Score: 154
Period size: 48 Copynumber: 4.7 Consensus size: 48
97798541 TGATATGCGT
*
97798551 GCCAGTGTAAGACCATGT-TCGGAACATGGCATCGGC-CACATCATGAGA
1 GCCAGTGTAAGACCATGTCT-GGGACATGGCATCGGCGCACAT-ATGAGA
* *** * *
97798599 GCCAGTGTAAGAGCATGTCTGGGACATGGCATCGGCGTTGATATGTGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGCACATATGAGA
* * *** * * *
97798647 GCTAGTGTAAGACCATGTCTGGGACATAGCATC-GAAAATGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGCA-CATATGAGA
* * ** * *
97798695 GCTAGTGTAAAACCATGTCTAAGACATGGCATCGGCCTCGACATGTGA-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CGC-ACATATGAGA
* * *
97798744 -CCAATGTAAGACCATGTTTGGAACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
97798776 AGCAATTCCC
Statistics
Matches: 135, Mismatches: 36, Indels: 12
0.74 0.20 0.07
Matches are distributed among these distances:
47 1 0.01
48 125 0.93
49 5 0.04
50 3 0.02
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGCACATATGAGA
Found at i:97798712 original size:96 final size:96
Alignment explanation
Indices: 97798595--97798775 Score: 227
Period size: 96 Copynumber: 1.9 Consensus size: 96
97798585 GCCACATCAT
* * ** * * * ** * *
97798595 GAGAGCCAGTGTAAGAGCATGTCTGGGACATGGCATCGGCGTTGATATGTGCGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAAACCATGTCTAAGACATGGCATCGGCCTCGACATGTGAACCAATGTAAGAC
*
97798660 CATGTCTGGGACATAGCATCGAAAATGAGAC
66 CATGTCTGGAACATAGCATCGAAAATGAGAC
*
97798691 GAGAGCTAGTGTAAAACCATGTCTAAGACATGGCATCGGCCTCGACATGTGAACCAATGTAAGAC
1 GAGAGCCAGTGTAAAACCATGTCTAAGACATGGCATCGGCCTCGACATGTGAACCAATGTAAGAC
* *
97798756 CATGTTTGGAACATGGCATC
66 CATGTCTGGAACATAGCATC
97798776 AGCAATTCCC
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (96 bp):
GAGAGCCAGTGTAAAACCATGTCTAAGACATGGCATCGGCCTCGACATGTGAACCAATGTAAGAC
CATGTCTGGAACATAGCATCGAAAATGAGAC
Found at i:97803097 original size:48 final size:49
Alignment explanation
Indices: 97803042--97803224 Score: 192
Period size: 48 Copynumber: 3.8 Consensus size: 49
97803032 CGTGAGCCAA
97803042 TGTAAGACCATGTTTGGAACATGGCATCGGCAT-TTACATGAGAGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATCTTACATGAGAGCTAG
* * * ** * * * *
97803090 TGTAAGACGATGTATGGGACATGGCATTAGCCTCGT-CATGTGGGCTAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATCTTACATGAGAGCTAG
* * * * *
97803138 TGTAAGACCATGTTTGGAACATGGCATCGGCACCGATATATGAGAACCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATC-TTACATGAGAGCTAG
* *
97803188 TGTAAGACCATGTCTGGGACAT-GCATCGGCATCTTAC
1 TGTAAGACCATGTTTGGAACATGGCATCGGCATCTTAC
97803225 CCTTTTGTAT
Statistics
Matches: 105, Mismatches: 27, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
48 66 0.63
49 12 0.11
50 27 0.26
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (49 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCATCTTACATGAGAGCTAG
Found at i:97806590 original size:37 final size:36
Alignment explanation
Indices: 97806540--97806621 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 36
97806530 TACGAAGTCT
97806540 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
97806576 GTACCCGGACATAATCTCCACATGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
97806613 TCACCCGGA
1 T-ACCCGGA
97806622 ATATATTTCC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:97806727 original size:48 final size:48
Alignment explanation
Indices: 97806666--97806889 Score: 322
Period size: 48 Copynumber: 4.7 Consensus size: 48
97806656 TGTTACAACA
* * * **
97806666 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
* * ** * * *
97806714 TTCACTTTCGCCATTCGGCTTTATGACATATACACATCTCATATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
97806762 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
97806810 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
**
97806858 TTCACATTAGCCATTCGGCTTTATGACATATA
1 TTCACATTAGCCATTCGGCTTTACCACATATA
97806890 AACACTTTCA
Statistics
Matches: 159, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 159 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
Found at i:97811555 original size:14 final size:16
Alignment explanation
Indices: 97811536--97811568 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
97811526 AGCAACCCAT
97811536 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
97811550 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
97811566 ATT
1 ATT
97811569 AAGTTTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 5 0.29
16 4 0.24
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:97813601 original size:29 final size:29
Alignment explanation
Indices: 97813562--97813640 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
97813552 CTTAATAATC
*
97813562 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
97813592 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
97813621 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
97813641 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:97814298 original size:2 final size:2
Alignment explanation
Indices: 97814280--97814323 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
97814270 TGATGGCCGA
* *
97814280 AT AT GT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97814322 AT
1 AT
97814324 CAACTATACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97821695 original size:29 final size:29
Alignment explanation
Indices: 97821656--97821734 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
97821646 CTTAATAATC
*
97821656 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
97821686 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
97821715 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
97821735 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:97822395 original size:2 final size:2
Alignment explanation
Indices: 97822376--97822412 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
97822366 GCCGATTATG
* *
97822376 TA TA TC TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97822413 CAACTATACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97833816 original size:23 final size:23
Alignment explanation
Indices: 97833782--97833825 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
97833772 TATATGGGGA
*
97833782 ACATGTCGCAAAGTC-CCCATTC
1 ACATGTCACAAAGTCGCCCATTC
97833804 ACATCGTCACAAAGTCGCCCAT
1 ACAT-GTCACAAAGTCGCCCAT
97833826 CGTCACAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.30, C:0.36, G:0.14, T:0.20
Consensus pattern (23 bp):
ACATGTCACAAAGTCGCCCATTC
Found at i:97836388 original size:29 final size:29
Alignment explanation
Indices: 97836307--97836389 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 29
97836297 ATTTTCAGAC
*
97836307 CTAGGGGTAAAATGGTCATTTTGCAAAAGT
1 CTAGGGG-CAAATGGTCATTTTGCAAAAGT
*
97836337 CTAGGGGCAAAATGGTCATTTTGTAAAAGT
1 CTAGGGGC-AAATGGTCATTTTGCAAAAGT
97836367 CTAGGGGCAAATGGTCATTTTGC
1 CTAGGGGCAAATGGTCATTTTGC
97836390 CCAATTTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
29 14 0.29
30 35 0.71
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (29 bp):
CTAGGGGCAAATGGTCATTTTGCAAAAGT
Found at i:97836912 original size:94 final size:93
Alignment explanation
Indices: 97836724--97836948 Score: 265
Period size: 94 Copynumber: 2.4 Consensus size: 93
97836714 TCATTTGTGT
* * * * * *
97836724 GCTAGTGTAAGAAATGTCTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGAT-GGAGCCAGTATAAGACCATATC
**
97836789 TGGGACATGGCATCGGCATTGAGACGAGA
65 TGGGACATGGCATCGGCACGGAGACGAGA
* *
97836818 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGAT-GTGCTAGTATAAGACCATATCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGATGGAGCCAGTATAAGACCATATCT
*
97836882 GGGACATGGCATCGGCACGGATACGTGAGA
66 GGGACATGGCATCGGCACGGAGAC--GAGA
* *
97836912 G-TCAGTGTAAGACCATGTCTAGGACATGGCATTGACT
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGACT
97836949 TAACGTAAGA
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
92 39 0.35
93 1 0.01
94 52 0.46
95 13 0.12
96 8 0.07
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGATGGAGCCAGTATAAGACCATATCT
GGGACATGGCATCGGCACGGAGACGAGA
Found at i:97836937 original size:50 final size:49
Alignment explanation
Indices: 97836725--97836943 Score: 189
Period size: 47 Copynumber: 4.6 Consensus size: 49
97836715 CATTTGTGTG
* *
97836725 CTAGTGTAAGA-AATGTCTGGGACAT-GCATCGGCCAC-ATTA-TGGGAG-
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGA-TACTGAGAGT
* * *
97836771 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC-GAGAG-
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATACTGAGAGT
*
97836819 CTAGTGTAAGA-CATGTCTGGGACAT-GCATC-G-AC--TACATGA-TGT
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATAC-TGAGAGT
* *
97836862 GCTAGTATAAGACCATATCTGGGACATGGCATCGGCACGGATACGTGAGAGT
1 -CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATAC-TGAGAGT
*
97836914 C-AGTGTAAGACCATGTCTAGGACATGGCAT
1 CTAGTGTAAGACCATGTCTGGGACATGGCAT
97836944 TGACTTAACG
Statistics
Matches: 140, Mismatches: 16, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
41 2 0.01
42 1 0.01
43 2 0.01
44 11 0.08
45 14 0.10
46 20 0.14
47 30 0.21
48 24 0.17
49 1 0.01
50 26 0.19
51 7 0.05
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATACTGAGAGT
Found at i:97842700 original size:30 final size:31
Alignment explanation
Indices: 97842637--97842701 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
97842627 AATATTTTTT
* *
97842637 AATAATAATTATTCCTATTTATTTATGTTTA
1 AATAATAATTATTACTATTTATTTATGTATA
*
97842668 AATAA-AATTATTAGTATTTATTTAT-TAATA
1 AATAATAATTATTACTATTTATTTATGT-ATA
97842698 AATA
1 AATA
97842702 TATTATACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 24 0.80
31 5 0.17
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (31 bp):
AATAATAATTATTACTATTTATTTATGTATA
Found at i:97849064 original size:3 final size:3
Alignment explanation
Indices: 97849047--97849113 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
97849037 GTTAAGATTT
* * *
97849047 TTA TTA TAA TATA TTA TT- TTA TTA TTA -TA TTA ATA TTA -CA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
97849090 -TA TTA -TA TTA TTA TATA TTA TTA T
1 TTA TTA TTA TTA TTA T-TA TTA TTA T
97849114 GTTATATATA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
2 9 0.18
3 37 0.73
4 5 0.10
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:97849077 original size:5 final size:5
Alignment explanation
Indices: 97849048--97849124 Score: 66
Period size: 5 Copynumber: 14.6 Consensus size: 5
97849038 TTAAGATTTT
* * *
97849048 TATTA TAATA TATTA TTTTA TTATTA TATTAA TATTA CATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA -TATTA TATT-A TATTA TATTA TATTA TATTA
*
97849100 TTATATA TTATTA TGTTA TA-TA TAT
1 -TAT-TA -TATTA TATTA TATTA TAT
97849125 AAACAAAGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
4 4 0.07
5 35 0.59
6 14 0.24
7 6 0.10
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:97855411 original size:46 final size:46
Alignment explanation
Indices: 97855276--97855411 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
97855266 TTTGACATGA
* * *
97855276 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
**
97855322 TGCCATGGTGTCTTTCAACCATGGTCTTGTTCATTTCATATCAGGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
97855368 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTCATATCAG
97855412 AGAGCACACT
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 4 0.05
46 76 0.95
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:97860540 original size:46 final size:46
Alignment explanation
Indices: 97860405--97860540 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
97860395 TTTGACATGA
* * *
97860405 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCAT-TCATGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
**
97860451 TGCCATGGTGTCTTTCAACCATGGTCTTGTTCATTTCATATCAGGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
97860497 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTCATATCAG
97860541 AGAGCACACT
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 6 0.08
46 74 0.93
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:97869019 original size:17 final size:17
Alignment explanation
Indices: 97868997--97869029 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
97868987 CAGTATGATT
97868997 ATATGTGATT-ATTTGAA
1 ATATGT-ATTGATTTGAA
97869014 ATATGTATTGATTTGA
1 ATATGTATTGATTTGA
97869030 TGTTGAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (17 bp):
ATATGTATTGATTTGAA
Found at i:97870590 original size:43 final size:42
Alignment explanation
Indices: 97870499--97870594 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 42
97870489 ATTGAGATTA
* *
97870499 CATGTAAGACCATATTTGGGATATGACATCGATATGAGACTT
1 CATGTAAGACCATAGTTGGGATATGACATCGATATGAGACCT
* * * * *
97870541 CGTGTAAGATCATAGTTGGGCTATTGGCATCGATATGGGATCCT
1 CATGTAAGACCATAGTTGGGATA-TGACATCGATATGAGA-CCT
97870585 -ATGTAAGACC
1 CATGTAAGACC
97870595 GCATCTGGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
42 19 0.44
43 22 0.51
44 2 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATAGTTGGGATATGACATCGATATGAGACCT
Found at i:97878108 original size:43 final size:42
Alignment explanation
Indices: 97878035--97878128 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 42
97878025 GGATTACGTG
**
97878035 TAAGACCATATCTGGGATATAGCATCGATATGAGATTTCATA
1 TAAGACCATATCTGGGATATAGCATCGATATGAGATCCCATA
* * *
97878077 TAAGACCATAGT-TGGGCTATTGGCATCGATATGAGATCCCATG
1 TAAGACCATA-TCTGGGATA-TAGCATCGATATGAGATCCCATA
97878120 TAAGACCAT
1 TAAGACCAT
97878129 GGAATATGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 16 0.36
43 29 0.64
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATAGCATCGATATGAGATCCCATA
Found at i:97880347 original size:22 final size:23
Alignment explanation
Indices: 97880321--97880366 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
97880311 CAACCAAACC
97880321 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
97880343 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
97880366 A
1 A
97880367 CGTTATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:97882927 original size:12 final size:12
Alignment explanation
Indices: 97882910--97882942 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
97882900 TGTTTTTACC
97882910 CAATTTCTTCAA
1 CAATTTCTTCAA
97882922 CAATTTCTTCAA
1 CAATTTCTTCAA
*
97882934 TAATTTCTT
1 CAATTTCTT
97882943 TTTCTAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (12 bp):
CAATTTCTTCAA
Found at i:97883624 original size:30 final size:30
Alignment explanation
Indices: 97883588--97883647 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
97883578 TATTTTATTA
97883588 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
*
97883618 TTAATTTTGTTATTATTTTAGAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
97883648 CTTATTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:97883801 original size:12 final size:12
Alignment explanation
Indices: 97883771--97883804 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
97883761 TATATATTTT
97883771 AAAATT-ATATA
1 AAAATTAATATA
97883782 AAAA-TAATATA
1 AAAATTAATATA
97883793 AAAATTAATATA
1 AAAATTAATATA
97883805 GGCGGGCCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:97886307 original size:3 final size:3
Alignment explanation
Indices: 97886301--97886349 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
97886291 ACTTTTTATT
97886301 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
97886349 A
1 A
97886350 AACTTTAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:97888894 original size:35 final size:35
Alignment explanation
Indices: 97888848--97888917 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
97888838 TTGCATGTTC
*
97888848 AATTTTGTTTTTTAGATTTCAATATCAATTACAGG
1 AATTTTGTTTTTGAGATTTCAATATCAATTACAGG
97888883 AATTTTGTTTTTGAGATTTCAATATCAATTACAGG
1 AATTTTGTTTTTGAGATTTCAATATCAATTACAGG
97888918 TGGAGCATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (35 bp):
AATTTTGTTTTTGAGATTTCAATATCAATTACAGG
Found at i:97891342 original size:31 final size:31
Alignment explanation
Indices: 97891304--97891367 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
97891294 AGCTCTTTCA
97891304 AAGAATTGAAATAAGAATGATAAATAGATTT
1 AAGAATTGAAATAAGAATGATAAATAGATTT
97891335 AAGAATTGAAATAAGAATGATAAATAGATTT
1 AAGAATTGAAATAAGAATGATAAATAGATTT
97891366 AA
1 AA
97891368 CAACAAAGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (31 bp):
AAGAATTGAAATAAGAATGATAAATAGATTT
Found at i:97892122 original size:61 final size:61
Alignment explanation
Indices: 97892019--97892147 Score: 215
Period size: 61 Copynumber: 2.1 Consensus size: 61
97892009 AATAAAAATT
*
97892019 TTCAAGCACAAATACTTAAACAAGACATAAACATATTGAATTTCAACAAGAGATATGACAA
1 TTCAAGCACAAATACTTAAACAAGACATAAACATATTAAATTTCAACAAGAGATATGACAA
* * *
97892080 TTCAAGCACAAATACTTATACAAGACATAAACATGTTAAATTTCAACAAGAGTTATGACAA
1 TTCAAGCACAAATACTTAAACAAGACATAAACATATTAAATTTCAACAAGAGATATGACAA
97892141 TT-AAGCA
1 TTCAAGCA
97892148 TTGGAGAAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
60 5 0.08
61 59 0.92
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (61 bp):
TTCAAGCACAAATACTTAAACAAGACATAAACATATTAAATTTCAACAAGAGATATGACAA
Found at i:97893216 original size:13 final size:13
Alignment explanation
Indices: 97893184--97893222 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
97893174 CTAACCTATT
97893184 AACTTAAGTT-TA
1 AACTTAAGTTCTA
*
97893196 ATCTTAAGTTCTA
1 AACTTAAGTTCTA
97893209 AACTTAAGTTCTA
1 AACTTAAGTTCTA
97893222 A
1 A
97893223 GTTTTAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (13 bp):
AACTTAAGTTCTA
Found at i:97893238 original size:32 final size:30
Alignment explanation
Indices: 97893188--97893248 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
97893178 CCTATTAACT
*
97893188 TAAGTTTAATCTTAAGTTCTAAACTTAAGTTC
1 TAAGTTTAATCCTAAGTTCT-AA-TTAAGTTC
97893220 TAAGTTTTAATCCT-AGTTCTAATTAAGTT
1 TAAG-TTTAATCCTAAGTTCTAATTAAGTT
97893249 AAGAGTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 7 0.26
31 2 0.07
32 10 0.37
33 8 0.30
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (30 bp):
TAAGTTTAATCCTAAGTTCTAATTAAGTTC
Found at i:97906812 original size:1 final size:1
Alignment explanation
Indices: 97906769--97906793 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
97906759 CCTTTAGTTG
97906769 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
97906794 CCTTCTATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:97916662 original size:3 final size:3
Alignment explanation
Indices: 97916654--97916706 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
97916644 AAACATACGA
97916654 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
97916702 GAT AA
1 AAT AA
97916707 CATTCAAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:97918185 original size:16 final size:16
Alignment explanation
Indices: 97918166--97918202 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
97918156 TAAAAGCTCG
97918166 AGAAATTAAAAAAAAA
1 AGAAATTAAAAAAAAA
*
97918182 AGAAA--AGAAAAAAA
1 AGAAATTAAAAAAAAA
97918196 AGAAATT
1 AGAAATT
97918203 GATACCCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
14 13 0.72
16 5 0.28
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AGAAATTAAAAAAAAA
Found at i:97920976 original size:27 final size:27
Alignment explanation
Indices: 97920946--97921005 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
97920936 AATTTGAATT
*
97920946 AAAGACTTGATTTTATGATTTTGAAAC
1 AAAGACTTGATTTTATAATTTTGAAAC
*
97920973 AAAGATTTGATTTTATAATTTTGAAAC
1 AAAGACTTGATTTTATAATTTTGAAAC
97921000 AAAGAC
1 AAAGAC
97921006 ATGAGTGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (27 bp):
AAAGACTTGATTTTATAATTTTGAAAC
Found at i:97925338 original size:169 final size:169
Alignment explanation
Indices: 97925059--97925367 Score: 528
Period size: 169 Copynumber: 1.8 Consensus size: 169
97925049 AAAACAATAT
* * * * *
97925059 CAAAGATGGTATCGATAAAAATATAGTAGGTATCGGTATTTTTTGAAAAGTATTGATACTTTTTG
1 CAAAGATGGTATCGATAAAAATACAATAGGTATCGATATTTTTTGAAAAGTATCGATACTTTTTA
* * *
97925124 TTTTTGTTCAATTTTTGTTTTAAGTCAATAAGCAAGTTTGGTATCAATCTTTAAATAGGTATCAA
66 CTTTTGTTCAATTTTTGTTTCAAGTCAATAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAA
97925189 TAAAAATTGTGATTGTTTAAAAATCATCAAGTCATAATG
131 TAAAAATTGTGATTGTTTAAAAATCATCAAGTCATAATG
97925228 CAAAGATGGTATCGATAAAAATACAATAGGTATCGATATTTTTTGAAAAGTATCGATACTTTTTA
1 CAAAGATGGTATCGATAAAAATACAATAGGTATCGATATTTTTTGAAAAGTATCGATACTTTTTA
* *
97925293 CTTTTGTTCAATTTTTGTTTCAAGTCAGTAAGTAAGTTTGGTATCAATCTTGAAATAGGTATCAA
66 CTTTTGTTCAATTTTTGTTTCAAGTCAATAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAA
97925358 TAAAAATTGT
131 TAAAAATTGT
97925368 ATGAGTATCA
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
169 130 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (169 bp):
CAAAGATGGTATCGATAAAAATACAATAGGTATCGATATTTTTTGAAAAGTATCGATACTTTTTA
CTTTTGTTCAATTTTTGTTTCAAGTCAATAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAA
TAAAAATTGTGATTGTTTAAAAATCATCAAGTCATAATG
Found at i:97929890 original size:36 final size:36
Alignment explanation
Indices: 97929843--97929912 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
97929833 TAAGAGTCTG
97929843 CTATTATCTTCTAAGTTGTCAACATTTCGAATTGAA
1 CTATTATCTTCTAAGTTGTCAACATTTCGAATTGAA
97929879 CTATTATCTTCTAAGTTGTCAACATTTCGAATTG
1 CTATTATCTTCTAAGTTGTCAACATTTCGAATTG
97929913 TTTCTCCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (36 bp):
CTATTATCTTCTAAGTTGTCAACATTTCGAATTGAA
Found at i:97937475 original size:23 final size:23
Alignment explanation
Indices: 97937448--97937495 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
97937438 TTAATTCATG
97937448 TTAATTTATTTATGTATGTATTT
1 TTAATTTATTTATGTATGTATTT
97937471 TTAATTTATTTATGTATGTATTT
1 TTAATTTATTTATGTATGTATTT
97937494 TT
1 TT
97937496 CACTATGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (23 bp):
TTAATTTATTTATGTATGTATTT
Found at i:97942209 original size:53 final size:53
Alignment explanation
Indices: 97942068--97942218 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
97942058 ACAAGTGTGC
* **
97942068 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
97942121 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
97942174 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
97942219 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:97949724 original size:53 final size:53
Alignment explanation
Indices: 97949583--97949733 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
97949573 ACAAGTGTGC
* **
97949583 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
97949636 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
97949689 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
97949734 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:97956005 original size:53 final size:53
Alignment explanation
Indices: 97955851--97956014 Score: 219
Period size: 53 Copynumber: 3.1 Consensus size: 53
97955841 TGACGAAAAT
* **
97955851 ATGTGATAA-GTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
97955901 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
97955954 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
97956008 TATGTGA
1 -ATGTGA
97956015 ACCGTGTAAG
Statistics
Matches: 102, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
50 9 0.09
51 3 0.03
52 2 0.02
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:97967185 original size:3 final size:3
Alignment explanation
Indices: 97967177--97967201 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
97967167 CTCTTAAAAC
97967177 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
97967202 CACTATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:97970082 original size:2 final size:2
Alignment explanation
Indices: 97970075--97970127 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
97970065 GCATTATGTG
97970075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97970117 TA TA TA TA TA T
1 TA TA TA TA TA T
97970128 GATAAGACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97977801 original size:20 final size:20
Alignment explanation
Indices: 97977776--97977815 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
97977766 TTAGGGATTT
*
97977776 CTATGGATCAAGTTGCTAAG
1 CTATGGATCAAGTTACTAAG
97977796 CTATGGATCAAGTTACTAAG
1 CTATGGATCAAGTTACTAAG
97977816 TAAATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (20 bp):
CTATGGATCAAGTTACTAAG
Found at i:97978212 original size:19 final size:20
Alignment explanation
Indices: 97978190--97978231 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
97978180 TAATTTAGCC
*
97978190 TTTTTATTTTTATTTT-ATT
1 TTTTTATTTTAATTTTAATT
*
97978209 TTTTTGTTTTAATTTTAATT
1 TTTTTATTTTAATTTTAATT
97978229 TTT
1 TTT
97978232 CTTTTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTATTTTAATTTTAATT
Found at i:97978259 original size:23 final size:21
Alignment explanation
Indices: 97978207--97978266 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
97978197 TTTTATTTTA
**
97978207 TTTTTTTGTTTTAATTTTAATT
1 TTTTTTTGTTTT-ATTTTAAAG
97978229 TTTCTTTTGTTTTATTCTTACAAG
1 TTT-TTTTGTTTTATT-TTA-AAG
*
97978253 TTTTTTTGGTTTAT
1 TTTTTTTGTTTTAT
97978267 GGCTAGAGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 6 0.19
23 22 0.69
24 4 0.12
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (21 bp):
TTTTTTTGTTTTATTTTAAAG
Found at i:97982538 original size:45 final size:45
Alignment explanation
Indices: 97982489--97982680 Score: 160
Period size: 45 Copynumber: 4.3 Consensus size: 45
97982479 TCAGCCACAA
* * *
97982489 TCTTATTTATTTCT-AGAATGATGCCATAGTGTCTTTCAGCTATGG
1 TCTTATTCATTTCTCAGTAT-ATGCCATAGTGTCTTTCAACTATGG
* * *
97982534 TCTTATTCATTTCCTTCAG-AT-TGCCATAATTTTTTTCAACTATGG
1 TCTTATTCATTT-C-TCAGTATATGCCATAGTGTCTTTCAACTATGG
* * * * * *
97982579 TCTTATTTAATTCT-AGTATAGTGACGTAGTCTCTTTCAACTATAG
1 TCTTATTCATTTCTCAGTATA-TGCCATAGTGTCTTTCAACTATGG
* * *
97982624 TCTTATTCATTT-TCGGTATAATGTCATAGTGACTTTCAACTATGG
1 TCTTATTCATTTCTCAGTAT-ATGCCATAGTGTCTTTCAACTATGG
*
97982669 TCTTACTCATTT
1 TCTTATTCATTT
97982681 GATTTATGAT
Statistics
Matches: 117, Mismatches: 22, Indels: 16
0.75 0.14 0.10
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 103 0.88
46 2 0.02
47 3 0.03
48 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.46
Consensus pattern (45 bp):
TCTTATTCATTTCTCAGTATATGCCATAGTGTCTTTCAACTATGG
Found at i:97982784 original size:5 final size:5
Alignment explanation
Indices: 97982774--97982799 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
97982764 CCAAAATGGC
97982774 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
97982800 TTTACAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:97991047 original size:2 final size:2
Alignment explanation
Indices: 97991040--97991072 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
97991030 TTTAAAAATA
97991040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
97991073 AATGAAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98000470 original size:18 final size:20
Alignment explanation
Indices: 98000424--98000471 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
98000414 GATAAAAGTT
98000424 TTTTATTTTTATAAAATAGTA
1 TTTTATTTTTATAAAATAG-A
* *
98000445 TATTATTTTTA-AAGATA-A
1 TTTTATTTTTATAAAATAGA
98000463 TTTTATTTT
1 TTTTATTTT
98000472 CACAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.38
20 5 0.21
21 10 0.42
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTATTTTTATAAAATAGA
Found at i:98015388 original size:18 final size:18
Alignment explanation
Indices: 98015361--98015396 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
98015351 GAGATGGTTG
*
98015361 GAGTTGATAAAAGACTAT
1 GAGTTAATAAAAGACTAT
*
98015379 GAGTTAATAATAGACTAT
1 GAGTTAATAAAAGACTAT
98015397 CGCTCGGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (18 bp):
GAGTTAATAAAAGACTAT
Found at i:98018300 original size:46 final size:46
Alignment explanation
Indices: 98018247--98018466 Score: 166
Period size: 46 Copynumber: 4.7 Consensus size: 46
98018237 GACAAGAGCT
*
98018247 AGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGGCATCGGCCTAGAGATGT-AGCC
* * *
98018293 AGTGTAAGACATGTCTAGGACAT-GCATCCG-CTAGAAAATGT-GTC
1 AGTGTAAGACATGTCTAGGACATGGCATCGGCCTAG-AGATGTAGCC
* * * * *
98018337 AATGTAAGACCATGTCTCGGACATGGCATCGGCAC-GGATATGTGAGAGTC
1 AGTGTAAGA-CATGTCTAGGACATGGCATCGGC-CTAGAGATGT---AGCC
* * *
98018387 AGTATAAGACCATGTCTAGGACATGGCATC-GACTTGATGGATG-AGCC
1 AGTGTAAGA-CATGTCTAGGACATGGCATCGGCCTAGA--GATGTAGCC
**
98018434 AGTGTAAGACTATGTCTAATACATGGCATCGGC
1 AGTGTAAGAC-ATGTCTAGGACATGGCATCGGC
98018467 ACTATATCTT
Statistics
Matches: 140, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 46 0.33
47 29 0.21
48 3 0.02
49 3 0.02
50 30 0.21
51 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGGCATCGGCCTAGAGATGTAGCC
Found at i:98019486 original size:40 final size:41
Alignment explanation
Indices: 98019442--98019521 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 41
98019432 AAGATTTTTA
98019442 GACACGGGCTA-GGACATGGGC-GTGTCATGGCCGTGTGAGG
1 GACACGGGCTATGGACATGGGCGGTGTCA-GGCCGTGTGAGG
98019482 GACACGGGCTATGGACATGGGCGTGTGTCAGGCCGTGTGA
1 GACACGGGCTATGGACATGGGCG-GTGTCAGGCCGTGTGA
98019522 AAAGCCTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
40 11 0.30
41 10 0.27
42 10 0.27
43 6 0.16
ACGTcount: A:0.17, C:0.20, G:0.44, T:0.19
Consensus pattern (41 bp):
GACACGGGCTATGGACATGGGCGGTGTCAGGCCGTGTGAGG
Found at i:98026871 original size:48 final size:48
Alignment explanation
Indices: 98026748--98026948 Score: 164
Period size: 48 Copynumber: 4.3 Consensus size: 48
98026738 CCCGGATATA
* *
98026748 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCTAGACATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAAACATG
* * * *
98026796 GTCTTACATGGGACCATAGATCAATGCCAATGCCATGTCCCAAACACT-
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAAACA-TG
* * * * *
98026844 GTCTTACATAGGATCACATATTGATGCCGAT---A-G-CCC-AGCTATA
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAAAC-ATG
* ** * * * *
98026887 GTCTTACACGAAATTACATATCGATTCCAAAGCCATATCCCAAACATG
1 GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAAACATG
*
98026935 GTCTTATATGGGAT
1 GTCTTACATGGGAT
98026949 TGTACATGAA
Statistics
Matches: 114, Mismatches: 30, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
42 3 0.03
43 26 0.23
44 1 0.01
45 1 0.01
46 1 0.01
48 79 0.69
49 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (48 bp):
GTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAAACATG
Found at i:98032874 original size:23 final size:23
Alignment explanation
Indices: 98032847--98032897 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
98032837 AGGAGGTGAT
98032847 TAAAAACTAGGATTTTAACTAAG
1 TAAAAACTAGGATTTTAACTAAG
98032870 TAAAAACTAGGATTTTAACTAAG
1 TAAAAACTAGGATTTTAACTAAG
98032893 TAAAA
1 TAAAA
98032898 TAAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (23 bp):
TAAAAACTAGGATTTTAACTAAG
Found at i:98034674 original size:16 final size:15
Alignment explanation
Indices: 98034649--98034682 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
98034639 AAAGTTGATA
*
98034649 ATAATTAATATATATT
1 ATAATAAATATA-ATT
98034665 ATAATAAATATAATT
1 ATAATAAATATAATT
98034680 ATA
1 ATA
98034683 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:98037061 original size:15 final size:16
Alignment explanation
Indices: 98037041--98037079 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
98037031 TTTCTCAATA
*
98037041 ATGTCTACCT-TTTCC
1 ATGTCTACCTCATTCC
98037056 ATGTCTACCTCGATTCC
1 ATGTCTACCTC-ATTCC
98037073 ATGTCTA
1 ATGTCTA
98037080 GTTATCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
17 11 0.52
ACGTcount: A:0.18, C:0.31, G:0.10, T:0.41
Consensus pattern (16 bp):
ATGTCTACCTCATTCC
Found at i:98045489 original size:33 final size:32
Alignment explanation
Indices: 98045424--98045490 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
98045414 TTGTTGTGGA
98045424 TTGAATTGGTTAGGTGTTTAAGTAAAATTTTT
1 TTGAATTGGTTAGGTGTTTAAGTAAAATTTTT
*
98045456 TTGAATTGGTTAGGTGTTTAAGTAAAAATTTT
1 TTGAATTGGTTAGGTGTTTAAGTAAAATTTTT
98045488 TTG
1 TTG
98045491 TTGCATTGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.49
Consensus pattern (32 bp):
TTGAATTGGTTAGGTGTTTAAGTAAAATTTTT
Found at i:98045503 original size:32 final size:31
Alignment explanation
Indices: 98045428--98045503 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
98045418 TGTGGATTGA
* *
98045428 ATTGGTTAGGTGTTTAAGTAAAATTTTTTTG
1 ATTGATTAGGTGTTTAAGTAAAAATTTTTTG
*
98045459 AATTGGTTAGGTGTTTAAGTAAAAATTTTTTG
1 -ATTGATTAGGTGTTTAAGTAAAAATTTTTTG
98045491 -TTGCATTGAGGTG
1 ATTG-ATT-AGGTG
98045504 CCATTTTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 3 0.08
31 2 0.05
32 35 0.88
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.47
Consensus pattern (31 bp):
ATTGATTAGGTGTTTAAGTAAAAATTTTTTG
Found at i:98072563 original size:29 final size:28
Alignment explanation
Indices: 98072521--98072616 Score: 106
Period size: 29 Copynumber: 3.3 Consensus size: 28
98072511 GTCACAAGAT
98072521 TGGCACTAAGTGTGCAAGCTTGAAA-AGTA
1 TGGCACTAAGTGTGCAAGCTT-AAATA-TA
98072550 TGGCACTAAGTGTGCGAA-CTTAAATTATA
1 TGGCACTAAGTGTGC-AAGCTTAAA-TATA
* * *
98072579 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCAAGCTTAAAT-ATA
98072608 TGGCACTAA
1 TGGCACTAA
98072617 ATTATATGGC
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
28 5 0.09
29 50 0.86
30 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (28 bp):
TGGCACTAAGTGTGCAAGCTTAAATATA
Found at i:98072633 original size:44 final size:44
Alignment explanation
Indices: 98072570--98072660 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
98072560 TGTGCGAACT
98072570 TAAATTATATGGCACTATGTGTGCGAGCTTAAATCACATGGCAC
1 TAAATTATATGGCACTATGTGTGCGAGCTTAAATCACATGGCAC
98072614 TAAATTATATGGCACTATGTGTGCGAGCTTAAATCACATGGCAC
1 TAAATTATATGGCACTATGTGTGCGAGCTTAAATCACATGGCAC
98072658 TAA
1 TAA
98072661 GTGTGCGTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
TAAATTATATGGCACTATGTGTGCGAGCTTAAATCACATGGCAC
Done.