Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 248 of 325
Found at i:77868390 original size:40 final size:40
Alignment explanation
Indices: 77868263--77868392 Score: 149
Period size: 40 Copynumber: 3.2 Consensus size: 40
77868253 ATGCTGGAAA
* * *
77868263 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GC
* * *
77868304 -TACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG-AC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGC
*
77868342 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGC
77868383 TTATATCCGG
1 TTATATCCGG
77868393 TTATATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 71 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGC
Found at i:77868391 original size:80 final size:80
Alignment explanation
Indices: 77868225--77868392 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 80
77868215 AAATTGAATG
* *
77868225 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
77868290 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
77868305 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
*
77868368 CATTTGTGC-ACGT-GCTT
64 CAATTGTGCTA-GTGGC-T
77868385 ATATCCGG
1 ATATCCGG
77868393 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
79 7 0.09
80 68 0.91
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:77872024 original size:17 final size:17
Alignment explanation
Indices: 77872004--77872036 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
77871994 TTATACGCAT
*
77872004 ATAATATATATACACAC
1 ATAATATATACACACAC
77872021 ATAATATATACACACA
1 ATAATATATACACACA
77872037 ATTATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAATATATACACACAC
Found at i:77872696 original size:2 final size:2
Alignment explanation
Indices: 77872689--77872714 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
77872679 GTAAAAACTT
77872689 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
77872715 CATGCATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77873582 original size:17 final size:17
Alignment explanation
Indices: 77873560--77873597 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
77873550 AAATTAGATC
77873560 ACTTTTAAATTGGGCTA
1 ACTTTTAAATTGGGCTA
*
77873577 ACTTTTAATTTGGGCTA
1 ACTTTTAAATTGGGCTA
77873594 ACTT
1 ACTT
77873598 ATGATGATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (17 bp):
ACTTTTAAATTGGGCTA
Found at i:77880330 original size:17 final size:18
Alignment explanation
Indices: 77880308--77880341 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77880298 CACATTGAAG
77880308 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
77880325 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
77880342 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:77882342 original size:55 final size:55
Alignment explanation
Indices: 77882265--77882375 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
77882255 TTCGATACTA
77882265 ATCCCCTACCAAACTGATTTAGAAAGAGTGAGGGAGAGAAGAAATCGGTACTAGG
1 ATCCCCTACCAAACTGATTTAGAAAGAGTGAGGGAGAGAAGAAATCGGTACTAGG
77882320 ATCCCCTACCAAACTGATTTAGAAAGAGTGAGGGAGAGAAGAAATCGGTACTAGG
1 ATCCCCTACCAAACTGATTTAGAAAGAGTGAGGGAGAGAAGAAATCGGTACTAGG
77882375 A
1 A
77882376 AGCCCAATTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (55 bp):
ATCCCCTACCAAACTGATTTAGAAAGAGTGAGGGAGAGAAGAAATCGGTACTAGG
Found at i:77887135 original size:17 final size:18
Alignment explanation
Indices: 77887113--77887146 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77887103 CACATTGAAG
77887113 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
77887130 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
77887147 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:77888444 original size:28 final size:28
Alignment explanation
Indices: 77888401--77888474 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
77888391 GGCCCCTTTC
* ** *
77888401 GGCCCAATCTCATTCATATGGCCCATCG
1 GGCCCAATCACATTCATATAACCCATCA
* *
77888429 GGCCCAATCACTTTCATATAACCCGTCA
1 GGCCCAATCACATTCATATAACCCATCA
*
77888457 GGCCCAATCACACTCATA
1 GGCCCAATCACATTCATA
77888475 GTCATGCAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (28 bp):
GGCCCAATCACATTCATATAACCCATCA
Found at i:77888713 original size:16 final size:16
Alignment explanation
Indices: 77888692--77888724 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
77888682 CCAAACTTCT
77888692 GGCTTTTCGACATTTC
1 GGCTTTTCGACATTTC
*
77888708 GGCTTTTCGGCATTTC
1 GGCTTTTCGACATTTC
77888724 G
1 G
77888725 ATATTTGCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.42
Consensus pattern (16 bp):
GGCTTTTCGACATTTC
Found at i:77892732 original size:40 final size:40
Alignment explanation
Indices: 77892605--77892772 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
77892595 CGGAATACAA
* *
77892605 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
77892645 CCAGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
77892685 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACGACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
77892725 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACGACTAGCACAAATGCCTTCGGGTCTTAGC
77892765 CCGGATAT
1 CCGGATAT
77892773 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACGACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:77900768 original size:40 final size:40
Alignment explanation
Indices: 77900618--77900785 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
77900608 CGGAATACAA
* ** *
77900618 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
* ** *
77900658 CCGGATAGAA-CGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * *
77900698 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
77900738 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
77900778 CCGGATAT
1 CCGGATAT
77900786 CATTCAATTG
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:77904957 original size:63 final size:63
Alignment explanation
Indices: 77904858--77904985 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
77904848 GTGTCATTTC
77904858 TTGCATCCACTGAATGACTATCTCCATGTCGGTCATGTCACTAGGCCCTTGGCTTGTTTGGGT
1 TTGCATCCACTGAATGACTATCTCCATGTCGGTCATGTCACTAGGCCCTTGGCTTGTTTGGGT
77904921 TTGCATCCACTGAATGACTATCTCCATGTCGGTCATGTCACTAGGCCCTTGGCTTGTTTGGGT
1 TTGCATCCACTGAATGACTATCTCCATGTCGGTCATGTCACTAGGCCCTTGGCTTGTTTGGGT
77904984 TT
1 TT
77904986 TCTCCTTGCT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (63 bp):
TTGCATCCACTGAATGACTATCTCCATGTCGGTCATGTCACTAGGCCCTTGGCTTGTTTGGGT
Found at i:77909625 original size:29 final size:29
Alignment explanation
Indices: 77909552--77909790 Score: 291
Period size: 29 Copynumber: 8.2 Consensus size: 29
77909542 TTTGCTAAAT
* *
77909552 GATGGTCGAAACCATCCCTTTTCTTTAATC
1 GATGGTCGAAACCATCCCTTTTC-ATATTC
*
77909582 GATGGTTGAAACCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* *
77909611 AATGGTCGAAGCCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
**
77909640 GATGGTTAAAACCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* * *
77909669 GATGGTCGAAACCATCTCTATTCTTTAATT-
1 GATGGTCGAAACCATCCCTTTTC-AT-ATTC
* *
77909699 GATGGTTGAAGCCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** *
77909728 GATGGTCGTCACCATCCTTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
**
77909757 GATGGTCGAAACCATCTGTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
77909786 GATGG
1 GATGG
77909791 GCATCAATAC
Statistics
Matches: 177, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
28 3 0.02
29 129 0.73
30 42 0.24
31 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATATTC
Found at i:77909704 original size:88 final size:87
Alignment explanation
Indices: 77909552--77909790 Score: 291
Period size: 88 Copynumber: 2.7 Consensus size: 87
77909542 TTTGCTAAAT
* * * * * *
77909552 GATGGTCGAAACCATCCCTTTTCTTTAATCGATGGTTGAAACCATCCCTTTTCATATTCAATGGT
1 GATGGTCAAAACCATCCCTTTTC-ATATTCGATGGTCGAAACCATCTCTATTCATATTCAATGGT
77909617 CGAAGCCATCCCTTTTCATATTC
65 CGAAGCCATCCCTTTTCATATTC
* * *
77909640 GATGGTTAAAACCATCCCTTTTCATATTCGATGGTCGAAACCATCTCTATTCTTTAATT-GATGG
1 GATGGTCAAAACCATCCCTTTTCATATTCGATGGTCGAAACCATCTCTATTC-AT-ATTCAATGG
*
77909704 TTGAAGCCATCCCTTTTCATATTC
64 TCGAAGCCATCCCTTTTCATATTC
*** * * * *
77909728 GATGGTCGTCACCATCCTTTTTCATATTCGATGGTCGAAACCATCTGTTTTCATATTCGATGG
1 GATGGTCAAAACCATCCCTTTTCATATTCGATGGTCGAAACCATCTCTATTCATATTCAATGG
77909791 GCATCAATAC
Statistics
Matches: 130, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
86 3 0.02
87 30 0.23
88 94 0.72
89 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (87 bp):
GATGGTCAAAACCATCCCTTTTCATATTCGATGGTCGAAACCATCTCTATTCATATTCAATGGTC
GAAGCCATCCCTTTTCATATTC
Found at i:77909704 original size:117 final size:117
Alignment explanation
Indices: 77909552--77909790 Score: 363
Period size: 117 Copynumber: 2.0 Consensus size: 117
77909542 TTTGCTAAAT
*
77909552 GATGGTCGAAACCATCCCTTTTCTTTAATCGATGGTTGAAACCATCCCTTTTCATATTCAATGGT
1 GATGGTCGAAACCATCCCTATTCTTTAATCGATGGTTGAAACCATCCCTTTTCATATTCAATGGT
*
77909617 CG-AAGCCATCCCTTTTCATATTCGATGGTTAAAACCATCCCTTTTCATATTC
66 CGTAA-CCATCCCTTTTCATATTCGATGGTCAAAACCATCCCTTTTCATATTC
* * * *
77909669 GATGGTCGAAACCATCTCTATTCTTTAATTGATGGTTGAAGCCATCCCTTTTCATATTCGATGGT
1 GATGGTCGAAACCATCCCTATTCTTTAATCGATGGTTGAAACCATCCCTTTTCATATTCAATGGT
* * * **
77909734 CGTCACCATCCTTTTTCATATTCGATGGTCGAAACCATCTGTTTTCATATTC
66 CGTAACCATCCCTTTTCATATTCGATGGTCAAAACCATCCCTTTTCATATTC
77909786 GATGG
1 GATGG
77909791 GCATCAATAC
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
117 109 0.99
118 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (117 bp):
GATGGTCGAAACCATCCCTATTCTTTAATCGATGGTTGAAACCATCCCTTTTCATATTCAATGGT
CGTAACCATCCCTTTTCATATTCGATGGTCAAAACCATCCCTTTTCATATTC
Found at i:77927150 original size:20 final size:20
Alignment explanation
Indices: 77927127--77927167 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
77927117 CTAGATCAGG
*
77927127 ACTAATTTGCAATACTGTTA
1 ACTAATTTGCAATACTATTA
77927147 ACTAATTTGCAATACTATTA
1 ACTAATTTGCAATACTATTA
77927167 A
1 A
77927168 AAGTCTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (20 bp):
ACTAATTTGCAATACTATTA
Found at i:77932458 original size:25 final size:25
Alignment explanation
Indices: 77932412--77932459 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
77932402 AATTTTTAGA
* **
77932412 TTTAGTTTAATTTATTTTAGTTTCT
1 TTTACTTTAATTTATTAAAGTTTCT
*
77932437 TTTACTTTTATTTATTAAAGTTT
1 TTTACTTTAATTTATTAAAGTTT
77932460 GTTCCTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.67
Consensus pattern (25 bp):
TTTACTTTAATTTATTAAAGTTTCT
Found at i:77947226 original size:16 final size:16
Alignment explanation
Indices: 77947205--77947241 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
77947195 CTCCAGCGAT
77947205 GCCCCTGAATACCTCA
1 GCCCCTGAATACCTCA
77947221 GCCCCTGAATACCTCA
1 GCCCCTGAATACCTCA
77947237 GCCCC
1 GCCCC
77947242 ATTAGACCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.49, G:0.14, T:0.16
Consensus pattern (16 bp):
GCCCCTGAATACCTCA
Found at i:77952171 original size:48 final size:47
Alignment explanation
Indices: 77952113--77952383 Score: 215
Period size: 48 Copynumber: 5.7 Consensus size: 47
77952103 TATGTGCACT
**
77952113 AGTGTAAGACCATGTCTGGGACATGGCGCCAGCCATGATATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCATGATATAAGAGCC
* * * * * * *
77952161 AGTGTAAGACCATGTTTGGAACATGGTATTGCCAATGTTCTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCC-ATGATATAAGAGCC
* * * ** * *
77952209 AGTGTAAGACCATGTTTGGGACACGGCATCGGCATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCA-TGATATAAGAGCC
* *
77952257 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGAA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCATGA-TAT-AAGAGCC
* * * **
77952305 AGTGTAAGACCATGTCTGGGATATGGCATTGGCC-TCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGCCAT-GATATAAGAGCC
* * *
77952353 AGTGTAAGACCATTTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
77952384 ACAATTCACC
Statistics
Matches: 176, Mismatches: 38, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
47 7 0.04
48 164 0.93
49 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCATGATATAAGAGCC
Found at i:77952281 original size:96 final size:96
Alignment explanation
Indices: 77952113--77952383 Score: 269
Period size: 96 Copynumber: 2.8 Consensus size: 96
77952103 TATGTGCACT
* ** * * ** *
77952113 AGTGTAAGACCATGTCTGGGACATGGCGCCAGCCAT-GATATAAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTCTGGGACACGGCATC-GGCATCGACATGTGAGCCAGTGTAAGACCATGTC
* * * *
77952177 TGGAACATGGTAT-TGCCA-ATGTTCTGAGAGCC
65 TGGAACATGGCATCGGCCACA--TTATGAAAGCC
* * * * *
77952209 AGTGTAAGACCATGTTTGGGACACGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACACGGCATCGGCATCGACATGTGAGCCAGTGTAAGACCATGTCT
* *
77952274 GGGACATGGCATCGGCCACATTATGAAAGCT
66 GGAACATGGCATCGGCCACATTATGAAAGCC
* * * * * *
77952305 AGTGTAAGACCATGTCTGGGATATGGCATTGGCCTCGACATGTGAGCCAGTGTAAGACCATTTTT
1 AGTGTAAGACCATGTCTGGGACACGGCATCGGCATCGACATGTGAGCCAGTGTAAGACCATGTCT
77952370 GGAACATGGCATCG
66 GGAACATGGCATCG
77952384 ACAATTCACC
Statistics
Matches: 144, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
95 4 0.03
96 135 0.94
97 4 0.03
98 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACACGGCATCGGCATCGACATGTGAGCCAGTGTAAGACCATGTCT
GGAACATGGCATCGGCCACATTATGAAAGCC
Found at i:77952360 original size:144 final size:143
Alignment explanation
Indices: 77952100--77952383 Score: 351
Period size: 144 Copynumber: 2.0 Consensus size: 143
77952090 GACATTTGGC
* *
77952100 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCGCCAGCCATGATATAAGAGCCAGTG
1 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCACCAGCCATCATATAAGAGCCAGTG
* * * *
77952165 TAAGACCATGTTTGGAACATGGTATTGCCAATGTTCTGAGAGCCAGTGTAAGACCATGTTTGGGA
66 TAAGACCATGTCTGGAACATGGCATTGCC-ATGTACTGAGAGCCAGTGTAAGACCATGTTTGGAA
77952230 CACGGCATCGGCAT
130 CACGGCATCGGCAT
* * * *
77952244 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGAA-AGCTAG
1 TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCACCAGCCATCA-TAT-AAGAGCCAG
* * * *
77952307 TGTAAGACCATGTCTGGGATATGGCATTGGCC-TCG-ACATGTGAGCCAGTGTAAGACCATTTTT
64 TGTAAGACCATGTCTGGAACATGGCATT-GCCAT-GTAC-TGAGAGCCAGTGTAAGACCATGTTT
*
77952370 GGAACATGGCATCG
126 GGAACACGGCATCG
77952384 ACAATTCACC
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
143 3 0.03
144 112 0.93
145 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (143 bp):
TGATATGTGCACTAGTGTAAGACCATGTCTGGGACATGGCACCAGCCATCATATAAGAGCCAGTG
TAAGACCATGTCTGGAACATGGCATTGCCATGTACTGAGAGCCAGTGTAAGACCATGTTTGGAAC
ACGGCATCGGCAT
Found at i:77956187 original size:39 final size:41
Alignment explanation
Indices: 77956125--77956229 Score: 135
Period size: 39 Copynumber: 2.6 Consensus size: 41
77956115 TGAGAAATTG
*
77956125 AATGATATCCGGGCTAAGCCCCGAAGACAATTATGCT-G-A
1 AATGATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTA
* * *
77956164 AATGATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTA
1 AATGATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTA
**
77956205 GCT-ATATCCGGGCTAAGACCCGAAG
1 AATGATATCCGGGCTAAGACCCGAAG
77956230 GCATTCGTGC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
39 33 0.58
40 22 0.39
41 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (41 bp):
AATGATATCCGGGCTAAGACCCGAAGACAATTATGCTAGTA
Found at i:77956222 original size:40 final size:40
Alignment explanation
Indices: 77956129--77956279 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
77956119 AAATTGAATG
* * * *
77956129 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-G-AAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* *
77956167 GATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 -ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * *
77956208 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCCAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGAT
* *
77956248 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
77956280 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 32 0.33
40 60 0.62
41 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
Found at i:77956294 original size:40 final size:39
Alignment explanation
Indices: 77956127--77956311 Score: 153
Period size: 40 Copynumber: 4.7 Consensus size: 39
77956117 AGAAATTGAA
* *
77956127 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAA--
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * *
77956166 TGATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* **
77956206 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCCAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTG-CAAATG
* *
77956246 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* * *
77956286 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
77956312 CTTGGTGCGG
Statistics
Matches: 117, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
36 2 0.02
37 3 0.03
38 2 0.02
39 27 0.23
40 80 0.68
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:77964300 original size:40 final size:40
Alignment explanation
Indices: 77964207--77964388 Score: 181
Period size: 39 Copynumber: 4.6 Consensus size: 40
77964197 AAATTGAATG
* * * * *
77964207 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
77964246 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
77964286 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
77964325 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
77964365 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
77964389 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 64 0.53
40 56 0.47
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:77974988 original size:32 final size:32
Alignment explanation
Indices: 77974951--77975018 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
77974941 TCTCTGTGTC
77974951 CTTTTCTTCCTTCTTTAAGGTGTATTTATAGG
1 CTTTTCTTCCTTCTTTAAGGTGTATTTATAGG
77974983 CTTTTCTTCCTTCTTTAAGGTGTATTTATAGG
1 CTTTTCTTCCTTCTTTAAGGTGTATTTATAGG
77975015 CTTT
1 CTTT
77975019 GGAATGCCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.15, C:0.16, G:0.15, T:0.54
Consensus pattern (32 bp):
CTTTTCTTCCTTCTTTAAGGTGTATTTATAGG
Found at i:77980240 original size:40 final size:40
Alignment explanation
Indices: 77980028--77980233 Score: 342
Period size: 40 Copynumber: 5.2 Consensus size: 40
77980018 AATCCAAGTA
* *
77980028 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
77980067 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
77980107 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
77980147 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
77980187 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
77980227 CTTTCGG
1 CCTTCGG
77980234 ATCTTAGTCC
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.08
40 144 0.92
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:77983869 original size:48 final size:48
Alignment explanation
Indices: 77983794--77984110 Score: 237
Period size: 48 Copynumber: 6.6 Consensus size: 48
77983784 TTATATGTGC
* * * *
77983794 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACGATATAAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCATGATATGAGA
* * *** * *
77983842 GCTAGTGTAAGACCATGTTTGGAACATGGCATCAAAAATGTTGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCATGATATGAGA
* * * * * *
77983890 GCCAGTGTAAGACCATGTCTAGGACATGGAATC-GGCATTGATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-TGATATGAGA
77983938 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAT-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCATGA-TATGAGA
* ** * * * * * * *
77983986 GCCAGTGTAAGACCATGTCTAAGATATGACAT-TGGCACTGAGACGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-TGATATGAGA
* * * * * *
77984034 GCTACTGTAAGACCATGTCTGGGATATGGTATCGGCC-TCGACATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAT-GATATGAGA
* * * *
77984082 GCCAGTGTAAAACCATGTTTGGAACATGG
1 GCTAGTGTAAGACCATGTCTGGGACATGG
77984111 TATCGGCAAT
Statistics
Matches: 205, Mismatches: 57, Indels: 14
0.74 0.21 0.05
Matches are distributed among these distances:
47 6 0.03
48 193 0.94
49 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCATGATATGAGA
Found at i:77983965 original size:96 final size:96
Alignment explanation
Indices: 77983797--77984006 Score: 278
Period size: 96 Copynumber: 2.2 Consensus size: 96
77983787 TATGTGCGCT
* ** *
77983797 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACGATATAAGAGCTAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTAGGACATGGAATCGGCCACGATATAAGAGCTAGTGTAAGACCATGTCT
* *
77983862 GGAACATGGCATCAAAAATGTTGTGAGAGCC
66 GGAACATGGCATCAAAAATATTATGAGAGCC
* ** *
77983893 AGTGTAAGACCATGTCTAGGACATGGAATCGG-CATTGATATGTGCGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTAGGACATGGAATCGGCCA-CGATATAAGAGCTAGTGTAAGACCATGTC
* ***
77983957 TGGGACATGGCATCAGCCATATTATGAGAGCC
65 TGGAACATGGCATCAAAAATATTATGAGAGCC
77983989 AGTGTAAGACCATGTCTA
1 AGTGTAAGACCATGTCTA
77984007 AGATATGACA
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 2 0.02
96 97 0.98
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTAGGACATGGAATCGGCCACGATATAAGAGCTAGTGTAAGACCATGTCT
GGAACATGGCATCAAAAATATTATGAGAGCC
Found at i:77984043 original size:96 final size:96
Alignment explanation
Indices: 77983797--77984062 Score: 268
Period size: 96 Copynumber: 2.8 Consensus size: 96
77983787 TATGTGCGCT
** ** * *
77983797 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCAC-GATA-TAAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTAAGACATGGAATCGG-CACTGAGACGAA-AGCTAGTGTAAGACCATGT
* * * *
77983860 TTGGAACATGGCATCAAAAATGTTGTGAGAGCC
64 CTGGGACATGGCATCAAAAATATTATGAGAGCC
* * * * ***
77983893 AGTGTAAGACCATGTCTAGGACATGGAATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTAAGACATGGAATCGGCACTGAGACGAAAGCTAGTGTAAGACCATGTCT
***
77983958 GGGACATGGCATCAGCCATATTATGAGAGCC
66 GGGACATGGCATCAAAAATATTATGAGAGCC
* * *
77983989 AGTGTAAGACCATGTCTAAGATAT-GACATTGGCACTGAGACGAAAGCTACTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTAAGACATGGA-ATCGGCACTGAGACGAAAGCTAGTGTAAGACCATGTC
*
77984053 TGGGATATGG
65 TGGGACATGG
77984063 TATCGGCCTC
Statistics
Matches: 141, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
95 4 0.03
96 137 0.97
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTAAGACATGGAATCGGCACTGAGACGAAAGCTAGTGTAAGACCATGTCT
GGGACATGGCATCAAAAATATTATGAGAGCC
Found at i:77985368 original size:21 final size:20
Alignment explanation
Indices: 77985344--77985383 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
77985334 GTTAAGAAGA
*
77985344 CACACGGGCGTGTTGCCCTTC
1 CACACAGGCGTG-TGCCCTTC
*
77985365 CACATAGGCGTGTGCCCTT
1 CACACAGGCGTGTGCCCTT
77985384 ATTAGCTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (20 bp):
CACACAGGCGTGTGCCCTTC
Found at i:77986495 original size:30 final size:30
Alignment explanation
Indices: 77986460--77986517 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
77986450 CTGTGCATTT
* *
77986460 CCACACGGG-TAGGACACACGCCTATGTGTG
1 CCACACGGGCT-GGACACAAGCCCATGTGTG
77986490 CCACACGGGCTGGACACAAGCCCATGTG
1 CCACACGGGCTGGACACAAGCCCATGTG
77986518 CCAGCCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (30 bp):
CCACACGGGCTGGACACAAGCCCATGTGTG
Found at i:77988147 original size:134 final size:135
Alignment explanation
Indices: 77987852--77988302 Score: 430
Period size: 134 Copynumber: 3.3 Consensus size: 135
77987842 TACAATCTGT
* ** *** * ***
77987852 TGATTTAAGATCACAACTAACCTACATAGCATACCAACTTAAGATCATATTTCT-TCTTACAGTC
1 TGATTTAAAATCACGGCTAACCTACATAGCACGTCAATTTAAGATCACGCTTCTATCTTACAGTC
** * *** * * *
77987916 CACTAATTTAAGATCATGGCTAACCTACATAGCACGTTCATTTAAGATGGGGC-TTCTATCTTAC
66 CTTTGATTTAAGATCACAACTAACCTACATAGCACGTTGATTTAAGAT--AGCTTTCTATCTTAT
77987980 AG-CTCAC
129 AGTC-CAC
* * * *
77987987 TGATTTAATATCACGGTTAACTTACATAGCACGTCGATTTAAGATCACGCTTCTATCTT-CAGT-
1 TGATTTAAAATCACGGCTAACCTACATAGCACGTCAATTTAAGATCACGCTTCTATCTTACAGTC
* * *
77988050 CTGTTGCTTTAAGAT-ACAACTAACCTACATAACACGCTGATTTAAGATAGCATTTCTATCTTAT
66 CT-TTGATTTAAGATCACAACTAACCTACATAGCACGTTGATTTAAGATAGC-TTTCTATCTTAT
77988114 AGTCCAC
129 AGTCCAC
* * * * * *
77988121 TGATTTAAGATCTCGGCTAACCTACATAGCATGCCAATTTAAGATCACGCTTTTATCTTATAGTC
1 TGATTTAAAATCACGGCTAACCTACATAGCACGTCAATTTAAGATCACGCTTCTATCTTACAGTC
* * * *
77988186 CTTTGATTTAAGATCACAGCTAACCTACATAGCACATTGATTTAAGATAGCTCATCTATTTTATA
66 CTTTGATTTAAGATCACAACTAACCTACATAGCACGTTGATTTAAGATAGCT-TTCTATCTTATA
**
77988251 GTCCGT
130 GTCCAC
* *
77988257 TGGTTTAAAATCACGAC-AGACCTACATAGCACGTCAATTTAAGATC
1 TGATTTAAAATCACGGCTA-ACCTACATAGCACGTCAATTTAAGATC
77988303 GCATTTTTAT
Statistics
Matches: 257, Mismatches: 49, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
132 2 0.01
134 94 0.37
135 71 0.28
136 90 0.35
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (135 bp):
TGATTTAAAATCACGGCTAACCTACATAGCACGTCAATTTAAGATCACGCTTCTATCTTACAGTC
CTTTGATTTAAGATCACAACTAACCTACATAGCACGTTGATTTAAGATAGCTTTCTATCTTATAG
TCCAC
Found at i:77988195 original size:202 final size:203
Alignment explanation
Indices: 77987833--77988233 Score: 483
Period size: 202 Copynumber: 2.0 Consensus size: 203
77987823 TAAGATTGCA
* *
77987833 CTTCTATCTTACAATCTGTTGATTTAAGATCACAACTAACCTACATAGCATACCAACTTAAGATC
1 CTTCTATCTTACAATCTGTTGATTTAAGATCACAACTAACCTACATAACACACCAACTTAAGATC
* *
77987898 ATATTTCTTCTTACAGTCCACTAATTTAAGATCATGGCTAACCTACATAGCACGTTCATTTAAGA
66 ACATTTCTTCTTACAGTCCACTAATTTAAGATCATGGCTAACCTACATAGCACGTCCATTTAAGA
*** * * * * *
77987963 TGGGGCTTCTATCTTACAGCTCACTGATTTAATATCACGGTTAACTTACATAGCACGTCGATTTA
131 TCACGCTTCTATCTTACAGCTCACTGATTTAAGATCACAGCTAACCTACATAGCACATCGATTTA
77988028 AGATCACG
196 AGATCACG
* * * ** *
77988036 CTTCTATCTT-CAGTCTGTTGCTTTAAGAT-ACAACTAACCTACATAACACGCTGATTTAAGAT-
1 CTTCTATCTTACAATCTGTTGATTTAAGATCACAACTAACCTACATAACACACCAACTTAAGATC
* * *
77988098 AGCATTTCTATCTTATAGTCCACTGATTTAAGATC-TCGGCTAACCTACATAGCATG-CCAATTT
66 A-CATTTCT-TCTTACAGTCCACTAATTTAAGATCAT-GGCTAACCTACATAGCACGTCC-ATTT
* * *
77988161 AAGATCACGCTTTTATCTTATAG-TC-CTTTGATTTAAGATCACAGCTAACCTACATAGCACATT
127 AAGATCACGCTTCTATCTTACAGCTCAC--TGATTTAAGATCACAGCTAACCTACATAGCACATC
77988224 GATTTAAGAT
190 GATTTAAGAT
77988234 AGCTCATCTA
Statistics
Matches: 168, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
200 2 0.01
201 37 0.22
202 119 0.71
203 10 0.06
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (203 bp):
CTTCTATCTTACAATCTGTTGATTTAAGATCACAACTAACCTACATAACACACCAACTTAAGATC
ACATTTCTTCTTACAGTCCACTAATTTAAGATCATGGCTAACCTACATAGCACGTCCATTTAAGA
TCACGCTTCTATCTTACAGCTCACTGATTTAAGATCACAGCTAACCTACATAGCACATCGATTTA
AGATCACG
Found at i:77988314 original size:68 final size:68
Alignment explanation
Indices: 77987820--77988367 Score: 352
Period size: 68 Copynumber: 8.1 Consensus size: 68
77987810 AGAGTTAGCT
* * * * * * **
77987820 ATTTAAGATTGCACTTCTATCTTACAATCTGTTGATTTAAGATCACAACTAACCTACATAGCATA
1 ATTTAAGATAGCATTTCTATCTTATAGTCCGTTGATTTAAGATCACGACTAACCTACATAGCACG
*
77987885 CCA
66 TCA
* * * ** * * *
77987888 ACTTAAGATCA-TATTTCT-TCTTACAGTCCACTAATTTAAGATCATGGCTAACCTACATAGCAC
1 ATTTAAGAT-AGCATTTCTATCTTATAGTCCGTTGATTTAAGATCACGACTAACCTACATAGCAC
77987951 GTTC-
65 G-TCA
* *** * * ** *
77987955 ATTTAAGATGGGGCTTCTATCTTACAGCTCAC--TGATTTAATATCACGGTTAACTTACATAGCA
1 ATTTAAGATAGCATTTCTATCTTATAG-TC-CGTTGATTTAAGATCACGACTAACCTACATAGCA
*
77988018 CGTCG
64 CGTCA
* * * * *
77988023 ATTTAAGATCACGC--TTCTATCTT-CAGTCTGTTGCTTTAAGAT-ACAACTAACCTACATAACA
1 ATTTAAGAT-A-GCATTTCTATCTTATAGTCCGTTGATTTAAGATCACGACTAACCTACATAGCA
*
77988084 CG-CTG
64 CGTC-A
** * * *
77988089 ATTTAAGATAGCATTTCTATCTTATAGTCCACTGATTTAAGATCTCGGCTAACCTACATAGCATG
1 ATTTAAGATAGCATTTCTATCTTATAGTCCGTTGATTTAAGATCACGACTAACCTACATAGCACG
*
77988154 CCA
66 TCA
*
77988157 ATTTAAGATCACGC-TTT-TATCTTATAGTCCTTTGATTTAAGATCAC-AGCTAACCTACATAGC
1 ATTTAAGAT-A-GCATTTCTATCTTATAGTCCGTTGATTTAAGATCACGA-CTAACCTACATAGC
* **
77988219 ACATTG
63 ACGTCA
* * * *
77988225 ATTTAAGATAGC-TCATCTATTTTATAGTCCGTTGGTTTAAAATCACGAC-AGACCTACATAGCA
1 ATTTAAGATAGCAT-TTCTATCTTATAGTCCGTTGATTTAAGATCACGACTA-ACCTACATAGCA
77988288 CGTCA
64 CGTCA
* * * * * * * * * * **
77988293 ATTTAAGATCGCATTTTTATTTTATAGTCCGCTGACTTAATATCACAATTGATCTATGTAGCACG
1 ATTTAAGATAGCATTTCTATCTTATAGTCCGTTGATTTAAGATCACGACTAACCTACATAGCACG
77988358 TCA
66 TCA
77988361 ATTTAAG
1 ATTTAAG
77988368 GCCATGACCT
Statistics
Matches: 378, Mismatches: 76, Indels: 52
0.75 0.15 0.10
Matches are distributed among these distances:
64 2 0.01
65 2 0.01
66 40 0.11
67 79 0.21
68 242 0.64
69 9 0.02
70 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (68 bp):
ATTTAAGATAGCATTTCTATCTTATAGTCCGTTGATTTAAGATCACGACTAACCTACATAGCACG
TCA
Found at i:77988356 original size:136 final size:136
Alignment explanation
Indices: 77987852--77988340 Score: 395
Period size: 136 Copynumber: 3.6 Consensus size: 136
77987842 TACAATCTGT
* * ** * * *
77987852 TGATTTAAGATCACAACTAACCTACATAGCATACCAACTTAAGATCATA-TTTCT-TCTTACAGT
1 TGATTTAAAATCACGACTAACCTACATAGCACGCCAATTTAAGATCACACTTT-TATCTTATAGT
* * * *** * * *
77987915 CCACTAATTTAAGATCATGGCTAACCTACATAGCACGTTCATTTAAGATGGGGC-T-TCTATCTT
65 CCGCTGACTTAAGATCACAACTAACCTACATAGCACATTGATTTAAGAT--AGCATATCTATCTT
*
77987978 ACAG-CTCAC
128 ATAGTC-CAC
* ** * * * * * *
77987987 TGATTTAATATCACGGTTAACTTACATAGCACGTCGATTTAAGATCACGCTTCTATCTT-CAGTC
1 TGATTTAAAATCACGACTAACCTACATAGCACGCCAATTTAAGATCACACTTTTATCTTATAGTC
* * * ** *
77988051 TGTTG-CTTTAAGAT-ACAACTAACCTACATAACACGCTGATTTAAGATAGCATTTCTATCTTAT
66 CGCTGAC-TTAAGATCACAACTAACCTACATAGCACATTGATTTAAGATAGCATATCTATCTTAT
77988114 AGTCCAC
130 AGTCCAC
* * * * *
77988121 TGATTTAAGATCTCGGCTAACCTACATAGCATGCCAATTTAAGATCACGCTTTTATCTTATAGTC
1 TGATTTAAAATCACGACTAACCTACATAGCACGCCAATTTAAGATCACACTTTTATCTTATAGTC
** * * *
77988186 CTTTGATTTAAGATCACAGCTAACCTACATAGCACATTGATTTAAGATAGC-TCATCTATTTTAT
66 CGCTGACTTAAGATCACAACTAACCTACATAGCACATTGATTTAAGATAGCAT-ATCTATCTTAT
**
77988250 AGTCCGT
130 AGTCCAC
* * * * *
77988257 TGGTTTAAAATCACGAC-AGACCTACATAGCACGTCAATTTAAGATCGCATTTTTATTTTATAGT
1 TGATTTAAAATCACGACTA-ACCTACATAGCACGCCAATTTAAGATCACACTTTTATCTTATAGT
*
77988321 CCGCTGACTTAATATCACAA
65 CCGCTGACTTAAGATCACAA
77988341 TTGATCTATG
Statistics
Matches: 282, Mismatches: 61, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
132 2 0.01
133 1 0.00
134 92 0.33
135 68 0.24
136 119 0.42
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (136 bp):
TGATTTAAAATCACGACTAACCTACATAGCACGCCAATTTAAGATCACACTTTTATCTTATAGTC
CGCTGACTTAAGATCACAACTAACCTACATAGCACATTGATTTAAGATAGCATATCTATCTTATA
GTCCAC
Found at i:77994761 original size:25 final size:25
Alignment explanation
Indices: 77994733--77994785 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
77994723 ACATCTTATT
* *
77994733 ACATTTTTTATAAATTCAACTCTCA
1 ACATTTCTTACAAATTCAACTCTCA
*
77994758 ACATTTCTTACAAATTCAACTCTTA
1 ACATTTCTTACAAATTCAACTCTCA
77994783 ACA
1 ACA
77994786 ATTATTCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (25 bp):
ACATTTCTTACAAATTCAACTCTCA
Found at i:77997088 original size:19 final size:19
Alignment explanation
Indices: 77997052--77997088 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77997042 TAATTAGACT
* *
77997052 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
77997071 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
77997089 GAAAAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:77997574 original size:3 final size:3
Alignment explanation
Indices: 77997560--77997642 Score: 54
Period size: 3 Copynumber: 29.0 Consensus size: 3
77997550 AAATAGATAT
* * *
77997560 TTA TTA TAA TTA TTA GTT- TTA -TA TTA -AA TTA TTA -AA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
77997602 TTA -TA TTA -TA TTA TTA -TA GTGTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA
77997643 ACTAATATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
2 12 0.19
3 45 0.73
4 3 0.05
5 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:77997629 original size:16 final size:14
Alignment explanation
Indices: 77997560--77997642 Score: 70
Period size: 13 Copynumber: 6.0 Consensus size: 14
77997550 AAATAGATAT
77997560 TTATTATAATTATTA
1 TTATTAT-ATTATTA
*
77997575 GTT-TTATATTA-AA
1 -TTATTATATTATTA
77997588 TTATTA-A--ATTA
1 TTATTATATTATTA
77997599 TTATTATATTA-TA
1 TTATTATATTATTA
77997612 TTATTATAGTGTATTA
1 TTATTATA-T-TATTA
77997628 TTATTAATATTATTA
1 TTATT-ATATTATTA
77997643 ACTAATATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 19
0.73 0.03 0.25
Matches are distributed among these distances:
10 1 0.02
11 7 0.12
12 4 0.07
13 14 0.25
14 6 0.11
15 11 0.20
16 10 0.18
17 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:77998813 original size:22 final size:22
Alignment explanation
Indices: 77998785--77998841 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
77998775 AAACAGGATC
77998785 ACACGCCCGTGTGGACATAGGG
1 ACACGCCCGTGTGGACATAGGG
77998807 ACACGCCCGTGTGGACATAGGG
1 ACACGCCCGTGTGGACATAGGG
77998829 ACACGCCCGTGTG
1 ACACGCCCGTGTG
77998842 CCTTTGGCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.21, C:0.30, G:0.35, T:0.14
Consensus pattern (22 bp):
ACACGCCCGTGTGGACATAGGG
Found at i:78000838 original size:45 final size:46
Alignment explanation
Indices: 78000731--78000948 Score: 164
Period size: 47 Copynumber: 4.6 Consensus size: 46
78000721 AGGCCAATGC
* * *
78000731 CATGTCCCAAACATGGTCTTACACTAGCTCTCACATAT-CCGT-GCCAATG
1 CATGTCCCAGACAT-GTCTTACACT-G-ACT-ACAT-TCCCGTAGCCGATG
78000780 CTATGTCCCAGACATGGTCTTACACTGAC-ACA-TCCCGTAGCCGATG
1 C-ATGTCCCAGACAT-GTCTTACACTGACTACATTCCCGTAGCCGATG
* * *
78000826 CATGTTCCAGACATGTCTTACACTGGCTTACATTCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGAC-TACATTCCCGTA-GCCGATG
* * * *
78000873 CATGTCCCAGACATGTCTTACACT-AGCT-CTTGTCTC-AATGCCAATG
1 CATGTCCCAGACATGTCTTACACTGA-CTACAT-TCCCGTA-GCCGATG
78000919 TCATGTCCCAGACATGGTCTTACACTGACT
1 -CATGTCCCAGACAT-GTCTTACACTGACT
78000949 CTCATAATGT
Statistics
Matches: 145, Mismatches: 11, Indels: 27
0.79 0.06 0.15
Matches are distributed among these distances:
44 13 0.09
45 18 0.12
46 26 0.18
47 49 0.34
48 13 0.09
49 3 0.02
50 23 0.16
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTACATTCCCGTAGCCGATG
Found at i:78000876 original size:47 final size:45
Alignment explanation
Indices: 78000777--78000993 Score: 179
Period size: 47 Copynumber: 4.7 Consensus size: 45
78000767 ATCCGTGCCA
* * *
78000777 ATGCTATGTCCCAGACATGGTCTTACACTGACACA-TCCCGTA-GCCG
1 ATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCATTCTCG-AGGCCG
*
78000823 ATGCATGTTCCAGACATGTCTTACACTGGCTTACATTCTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGC-T-CATTCTCGAGGCCG
* * * * *
78000870 ATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCAT-TCTCGAGGCCG
* ** *
78000916 ATGTCATGTCCCAGACATGGTCTTACACTGACTCTCATAAT-GTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTG--GCTCATTCTCGAGGCCG
** *
78000964 ATGCATGTCCCAGATGTGTCTGACACTGGC
1 ATGCATGTCCCAGACATGTCTTACACTGGC
78000994 ACACAAATAA
Statistics
Matches: 139, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
44 13 0.09
45 14 0.10
46 29 0.21
47 62 0.45
48 16 0.12
49 1 0.01
50 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCATTCTCGAGGCCG
Found at i:78002125 original size:59 final size:59
Alignment explanation
Indices: 78002062--78002181 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
78002052 AAGCCACCTA
78002062 ATGCACACCAACTTTGACTTTTCAACCTTTTTTTTGTCTCCTTGATCAACCACTAACAT
1 ATGCACACCAACTTTGACTTTTCAACCTTTTTTTTGTCTCCTTGATCAACCACTAACAT
* *
78002121 ATGCACACCAACTTTGACTTTTCAACTTTTTTTTTGTCTCCTTGATCAGCCACTAACAT
1 ATGCACACCAACTTTGACTTTTCAACCTTTTTTTTGTCTCCTTGATCAACCACTAACAT
78002180 AT
1 AT
78002182 TTATGGTCTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.25, C:0.28, G:0.07, T:0.40
Consensus pattern (59 bp):
ATGCACACCAACTTTGACTTTTCAACCTTTTTTTTGTCTCCTTGATCAACCACTAACAT
Found at i:78002862 original size:44 final size:44
Alignment explanation
Indices: 78002762--78002853 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
78002752 TGTTCAGAGA
* * *
78002762 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGCCGTACTGT
1 TACTTCGA-CTTCGAGTCAATGAGGCACCATAAGTGCCGTACTGC
**
78002806 TACTTCGACTTCGAGTCAATGAGGCACCATGTGTGCCGTACTGC
1 TACTTCGACTTCGAGTCAATGAGGCACCATAAGTGCCGTACTGC
78002850 TACT
1 TACT
78002854 GTTACTTCGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCAATGAGGCACCATAAGTGCCGTACTGC
Found at i:78003032 original size:18 final size:18
Alignment explanation
Indices: 78003006--78003088 Score: 112
Period size: 18 Copynumber: 4.6 Consensus size: 18
78002996 TGAATAAAGG
*
78003006 TACTGAATGATTGACTGT
1 TACTGAATGATTGATTGT
*
78003024 TATTGAATGATTGATTGT
1 TACTGAATGATTGATTGT
* * *
78003042 TACTGAATAACTGATTGC
1 TACTGAATGATTGATTGT
*
78003060 TACTGAATAATTGATTGT
1 TACTGAATGATTGATTGT
78003078 TACTGAATGAT
1 TACTGAATGAT
78003089 ACTGATAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (18 bp):
TACTGAATGATTGATTGT
Found at i:78003091 original size:28 final size:28
Alignment explanation
Indices: 78003051--78003104 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
78003041 TTACTGAATA
* *
78003051 ACTGATTGCTACTGA-ATAATTGATTGTT
1 ACTGAATGATACTGATA-AATTGATTGTT
78003079 ACTGAATGATACTGATAAATTGATTG
1 ACTGAATGATACTGATAAATTGATTG
78003105 ATATTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (28 bp):
ACTGAATGATACTGATAAATTGATTGTT
Found at i:78012584 original size:12 final size:12
Alignment explanation
Indices: 78012567--78012591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
78012557 AGCAAAATAG
78012567 GCTTTTAGCGGC
1 GCTTTTAGCGGC
78012579 GCTTTTAGCGGC
1 GCTTTTAGCGGC
78012591 G
1 G
78012592 TTTGGACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.36, T:0.32
Consensus pattern (12 bp):
GCTTTTAGCGGC
Found at i:78013083 original size:155 final size:155
Alignment explanation
Indices: 78012722--78013106 Score: 415
Period size: 155 Copynumber: 2.5 Consensus size: 155
78012712 GCTTATGTAG
* *
78012722 AAAACGCCGCAAAAAATAAAGCATTAGCGGCG--TTTATAAAAGAACGCCGCAATGGCTGACACA
1 AAAACGCCGCAAAAATTCAAGCATTAGCGGCGTTTTTATAAAAG--CGCCGCAATGG-TGACACA
* ** *
78012785 TTAGCGGCGGTTGTCAAAAAACGCCGCAAAAGTGTTGAGCAAAACGGTGCCATATGTTGGTGAGC
63 TTAGCGGCGGTTGTCAAAAAACGCCGCAAAAGTATTGAGCAAAACGACGCCATATGTAGGTGAGC
* *
78012850 TCTTTTGAGGCATTAGCGGCGTTTTACCA
128 -CTATTGAGGCATTAGCGGCATTTTACCA
* * * *
78012879 AAAACGCCGCTATAACTTCAAGCATTAGCGGCG-TTTTACCAAAAACGCCGCAATAGGTGACACA
1 AAAACGCCGC-AAAAATTCAAGCATTAGCGGCGTTTTTA-TAAAAGCGCCGCAAT-GGTGACACA
* * * * *
78012943 TTAGCGGCGGTT-TCTACAAACGTCGCAAAAGTATTGAGCAAAACGACGCCGTGTGTAGGTGAG-
63 TTAGCGGCGGTTGTCAAAAAACGCCGCAAAAGTATTGAGCAAAACGACGCCATATGTAGGTGAGC
**
78013006 CTATTGAGGCATTAGCGGCATTTCT-CGT
128 CTATTGAGGCATTAGCGGCATTT-TACCA
* * * *
78013034 AAAATGCCGCAAAAAGTTCAAGCATTAGCAGCGTTTTTGTAAAAGCGCCGCAATGGGTGA-AGTA
1 AAAACGCCGCAAAAA-TTCAAGCATTAGCGGCGTTTTTATAAAAGCGCCGCAAT-GGTGACA-CA
78013098 TTAGCGGCG
63 TTAGCGGCG
78013107 TTCGGCGTTT
Statistics
Matches: 192, Mismatches: 28, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
154 4 0.02
155 75 0.39
156 5 0.03
157 52 0.27
158 46 0.24
159 6 0.03
160 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (155 bp):
AAAACGCCGCAAAAATTCAAGCATTAGCGGCGTTTTTATAAAAGCGCCGCAATGGTGACACATTA
GCGGCGGTTGTCAAAAAACGCCGCAAAAGTATTGAGCAAAACGACGCCATATGTAGGTGAGCCTA
TTGAGGCATTAGCGGCATTTTACCA
Found at i:78014582 original size:9 final size:10
Alignment explanation
Indices: 78014557--78014581 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
78014547 TTTGCTAAGT
78014557 CATTTTCCCC
1 CATTTTCCCC
78014567 CATTTTCCCC
1 CATTTTCCCC
78014577 CATTT
1 CATTT
78014582 CGTCTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.44, G:0.00, T:0.44
Consensus pattern (10 bp):
CATTTTCCCC
Found at i:78017605 original size:14 final size:13
Alignment explanation
Indices: 78017582--78017611 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
78017572 ATTACTATAA
78017582 TAATTATATGAAG
1 TAATTATATGAAG
78017595 TAATATATATGAAG
1 TAAT-TATATGAAG
78017609 TAA
1 TAA
78017612 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:78017990 original size:183 final size:183
Alignment explanation
Indices: 78017682--78018050 Score: 675
Period size: 183 Copynumber: 2.0 Consensus size: 183
78017672 GATATAGTTT
*
78017682 CATGTGTCTATATTAGTGAATTAATGTTGTATATGTTTCAGTTACTACTTCCTGCTCCTCCTGCA
1 CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTACTTCCTGCTCCTCCTGCA
78017747 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
78017812 GTTTTCATATTTGCTTAAACTGAAATACATTTGGTGCTACTCTTATAATCTTA
131 GTTTTCATATTTGCTTAAACTGAAATACATTTGGTGCTACTCTTATAATCTTA
* * *
78017865 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTACTTCCTGCTCCTCCTGCA
*
78017930 GCTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
* *
78017995 GTTTTCATATTTGCTTAGACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTCATATTTGCTTAAACTGAAATACATTTGGTGCTACTCTTATAATCTTA
78018048 CAT
1 CAT
78018051 CTGTTCTAGG
Statistics
Matches: 179, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 179 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (183 bp):
CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTACTTCCTGCTCCTCCTGCA
ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
GTTTTCATATTTGCTTAAACTGAAATACATTTGGTGCTACTCTTATAATCTTA
Found at i:78018269 original size:15 final size:15
Alignment explanation
Indices: 78018249--78018277 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78018239 GGAGTAGACC
78018249 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
78018264 AGGTACGTTTTATT
1 AGGTACGTTTTATT
78018278 TCAAAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:78019573 original size:547 final size:548
Alignment explanation
Indices: 78018539--78019761 Score: 2299
Period size: 547 Copynumber: 2.2 Consensus size: 548
78018529 CCAACCTTAT
78018539 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
78018604 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
* *
78018669 AAAGACTTGAAAAAAGTTCTATCGAGTTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATGTACTTATA
78018734 AAATTAAACTACGATTTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATG
196 AAATTAAACTACGATTTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATG
78018799 TTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGC
261 TTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGC
* *
78018864 CTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCCCGTATGATGAATC
326 CTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTATAACAACGCCACGTATGATGAATC
*
78018929 TTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGTTCATTTACTATTGAATATTTATTTC
391 TTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTC
*
78018994 TAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTT
456 CAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTT
78019059 TTTATATTAATAATG-TTGATTTTAATA
521 TTTATATTAATAATGTTTGATTTTAATA
78019086 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
78019151 GCAAGATATAATGGATCCTCCTTAGGTGTAACAACGCC-CGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
78019215 AAAGACTTGAAAAAAGTT-TATCGAGCTCATTTACTATTGAATATTTATTTCCACTGTACTTATA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATGTACTTAT-
78019279 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
195 AAAATTAAACTACGATT-TTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
78019344 TGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTT
259 TGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTT
*
78019409 GCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTATAACAACGCCACGTATGATGAA
324 GCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTATAACAACGCCACGTATGATGAA
78019474 TCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATT
389 TCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATT
78019539 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATT
454 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATT
78019604 TTTTTATATTAATAATGTTTGATTTTAATA
519 TTTTTATATTAATAATGTTTGATTTTAATA
*
78019634 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
* *
78019699 GCAAGATATATTGGATCCTCCCTAGGTGTAACAACGCCGCGTATGATGAATCTTAAAAAATTC
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
78019762 TCCGTTTTAT
Statistics
Matches: 660, Mismatches: 12, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
545 42 0.06
546 61 0.09
547 421 0.64
548 112 0.17
549 24 0.04
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (548 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATGTACTTATA
AAATTAAACTACGATTTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAATG
TTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGC
CTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTATAACAACGCCACGTATGATGAATC
TTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTC
CAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTT
TTTATATTAATAATGTTTGATTTTAATA
Found at i:78019617 original size:275 final size:275
Alignment explanation
Indices: 78018539--78019761 Score: 2303
Period size: 273 Copynumber: 4.5 Consensus size: 275
78018529 CCAACCTTAT
78018539 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
78018604 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
78018669 AAAGACTTGAAAAAAGTTCTATCGAGTTCATTTACTATTGAATATTTATTTCCAATTTACTTAT-
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
78018733 AAAATTAAACTACGATT-TTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
78018797 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
78018812 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
78018877 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCCCGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
* *
78018942 AAAGACTTGAAAAAAGTTCTATCGAGTTCATTTACTATTGAATATTTATTTCTAATTTACTTATA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
78019007 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
78019072 TG-TTGATTTTAATA
261 TGTTTGATTTTAATA
78019086 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
78019151 GCAAGATATAATGGATCCTCCTTAGGTGTAACAACGCC-CGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
* *
78019215 AAAGACTTGAAAAAAGTT-TATCGAGCTCATTTACTATTGAATATTTATTTCCACTGTACTTATA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
78019279 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
78019344 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
78019359 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
* *
78019424 GTAAGATATAATGGATCCTCCCTAGGTATAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
78019489 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
78019554 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
78019619 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
*
78019634 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
* *
78019699 GCAAGATATATTGGATCCTCCCTAGGTGTAACAACGCCGCGTATGATGAATCTTAAAAAATTC
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
78019762 TCCGTTTTAT
Statistics
Matches: 928, Mismatches: 17, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
272 109 0.12
273 348 0.38
274 175 0.19
275 296 0.32
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (275 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
TGTTTGATTTTAATA
Found at i:78020015 original size:15 final size:15
Alignment explanation
Indices: 78019971--78020026 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
78019961 AACGACATGT
*
78019971 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
78019987 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
78020000 ATATTATTTAATTAA
1 ATATTATTTAATTAA
78020015 ATATTATTTAAT
1 ATATTATTTAAT
78020027 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:78020172 original size:9 final size:9
Alignment explanation
Indices: 78020130--78020318 Score: 98
Period size: 9 Copynumber: 20.6 Consensus size: 9
78020120 TATTTGATAT
*
78020130 CATAATTTA
1 CATAACTTA
*
78020139 TATAACTTA
1 CATAACTTA
* *
78020148 CAAAACATA
1 CATAACTTA
78020157 CAT-ACTTA
1 CATAACTTA
*
78020165 TATAACTTA
1 CATAACTTA
* *
78020174 GATAA-ATA
1 CATAACTTA
*
78020182 TATAACTTA
1 CATAACTTA
78020191 CATAACTTA
1 CATAACTTA
78020200 CATAATACTTA
1 CAT-A-ACTTA
* *
78020211 AATATATTTTATA
1 CATA-A--CT-TA
*
78020224 TCATAATTTA
1 -CATAACTTA
78020234 CATAACTTA
1 CATAACTTA
78020243 CATAACTTA
1 CATAACTTA
*
78020252 TATAACTTA
1 CATAACTTA
* *
78020261 GATAA-ATA
1 CATAACTTA
* *
78020269 TATAATTTA
1 CATAACTTA
*
78020278 CATAA-ATA
1 CATAACTTA
* * *
78020286 TATATCATA
1 CATAACTTA
78020295 TCATAACTTA
1 -CATAACTTA
78020305 CATAACTTA
1 CATAACTTA
78020314 CATAA
1 CATAA
78020319 TACTTAAATA
Statistics
Matches: 140, Mismatches: 29, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
8 23 0.16
9 89 0.64
10 12 0.09
11 9 0.06
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:78020183 original size:17 final size:17
Alignment explanation
Indices: 78020163--78020318 Score: 93
Period size: 17 Copynumber: 8.9 Consensus size: 17
78020153 CATACATACT
*
78020163 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
78020180 TATATAACTTACATAACT
1 TATATAACTTACATAA-A
* *
78020198 TACATAA--TACTTAAA
1 TATATAACTTACATAAA
** *
78020213 TATAT-TTTATATCATAATT
1 TATATAACT-TA-CATAA-A
* *
78020232 TACATAACTTACATAACT
1 TATATAACTTACATAA-A
*
78020250 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
78020267 TATATAATTTACATAAA
1 TATATAACTTACATAAA
* * *
78020284 TATATATCATATCATAACT
1 TATATAACTTA-CATAA-A
*
78020303 TACATAACTTACATAA
1 TATATAACTTACATAA
78020319 TACTTAAATA
Statistics
Matches: 105, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 40 0.38
18 40 0.38
19 14 0.13
20 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (17 bp):
TATATAACTTACATAAA
Found at i:78020184 original size:43 final size:43
Alignment explanation
Indices: 78020137--78020282 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
78020127 TATCATAATT
* *
78020137 TATATAACTTACAAAACATACATACTTATATAACTTAGATAAA
1 TATATAACTTACATAACTTACATACTTATATAACTTAGATAAA
* * * **
78020180 TATATAACTTACATAACTTACATA-ATACT-TAAATATA-TTTTA
1 TATATAACTTACATAACTTACATACTTA-TATAACT-TAGATAAA
*
78020222 TATCATAATTTACATAACTTACATAACTTATATAACTTAGATAAA
1 TAT-ATAACTTACATAACTTACAT-ACTTATATAACTTAGATAAA
*
78020267 TATATAATTTACATAA
1 TATATAACTTACATAA
78020283 ATATATATCA
Statistics
Matches: 83, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
42 11 0.13
43 44 0.53
44 17 0.20
45 11 0.13
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.38
Consensus pattern (43 bp):
TATATAACTTACATAACTTACATACTTATATAACTTAGATAAA
Found at i:78020204 original size:26 final size:26
Alignment explanation
Indices: 78020126--78020309 Score: 92
Period size: 26 Copynumber: 7.0 Consensus size: 26
78020116 AATATATTTG
*
78020126 ATATCATAATTTATATAACTTACA-AA
1 ATAT-ATAACTTATATAACTTACATAA
* * *
78020152 ACATACATACTTATATAACTTAGATAA
1 ATATATA-ACTTATATAACTTACATAA
*
78020179 ATATATAACTTACATAACTTACAT-A
1 ATATATAACTTATATAACTTACATAA
* **
78020204 ATACT-TAA-ATATAT-TTTATATCATAA
1 ATA-TATAACTTATATAACT-TA-CATAA
* * * *
78020230 TTTACATAACTTACATAACTTATATAA
1 -ATATATAACTTATATAACTTACATAA
* * * *
78020257 CTTAGATAA-ATATATAATTTACATAA
1 -ATATATAACTTATATAACTTACATAA
* *
78020283 ATATATATCATATCATAACTTACATAA
1 ATATATAACTTAT-ATAACTTACATAA
78020310 CTTACATAAT
Statistics
Matches: 117, Mismatches: 29, Indels: 23
0.69 0.17 0.14
Matches are distributed among these distances:
23 1 0.01
24 6 0.05
25 17 0.15
26 51 0.44
27 35 0.30
28 6 0.05
29 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (26 bp):
ATATATAACTTATATAACTTACATAA
Found at i:78025518 original size:13 final size:14
Alignment explanation
Indices: 78025502--78025530 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78025492 TTCTAAATAT
78025502 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
78025515 TTATAATTGTTTAA
1 TTATAATTGTTTAA
78025529 TT
1 TT
78025531 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:78025967 original size:21 final size:21
Alignment explanation
Indices: 78025942--78026003 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
78025932 TTAGAGCGGA
*
78025942 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
78025963 GGCAGCAGCGAGGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
*
78025984 GGCAGCAGCGACGGAGGCAG
1 GGCAGCAGCGAGGGAGGCAG
78026004 AGCATAGGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.52, T:0.00
Consensus pattern (21 bp):
GGCAGCAGCGAGGGAGGCAGC
Found at i:78026512 original size:42 final size:43
Alignment explanation
Indices: 78026376--78026545 Score: 254
Period size: 43 Copynumber: 4.0 Consensus size: 43
78026366 TTTGTGGGAA
* **
78026376 AAACGCCGCTAAAGACCGTGACTTTTAGCGGCGCTTTTTTCTT-
1 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTT-TTC
* *
78026419 AAACGCTGCTAAAGGCCACGACTTGTAGCGGCGCTTTTTTTTC
1 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTTTC
78026462 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCG-TTTTTTTTC
1 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTTTC
* *
78026504 AAACGCCGCTAAAGGCTATGACTTTTAGCGGCGCTTTTTTTT
1 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTTT
78026546 AATAAACGCC
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 42 0.36
43 74 0.64
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTTTC
Found at i:78026537 original size:85 final size:86
Alignment explanation
Indices: 78026376--78026545 Score: 254
Period size: 85 Copynumber: 2.0 Consensus size: 86
78026366 TTTGTGGGAA
** *
78026376 AAACGCCGCTAAAGACCGTGACTTTTAGCGGCGCTTTTTTCTTAAACGCTGCTAAAGGCCACGAC
1 AAACGCCGCTAAAGACCACGACTTTTAGCGGCGCTTTTTTCTTAAACGCCGCTAAAGGCCACGAC
78026441 TTGTAGCGGCGCTTTTTTTTC
66 TTGTAGCGGCGCTTTTTTTTC
* * *
78026462 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCG-TTTTTT-TTCAAACGCCGCTAAAGGCTATGA
1 AAACGCCGCTAAAGACCACGACTTTTAGCGGCGCTTTTTTCTT-AAACGCCGCTAAAGGCCACGA
*
78026525 CTTTTAGCGGCGCTTTTTTTT
65 CTTGTAGCGGCGCTTTTTTTT
78026546 AATAAACGCC
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
84 2 0.03
85 44 0.58
86 30 0.39
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCACGACTTTTAGCGGCGCTTTTTTCTTAAACGCCGCTAAAGGCCACGAC
TTGTAGCGGCGCTTTTTTTTC
Found at i:78027387 original size:21 final size:21
Alignment explanation
Indices: 78027363--78027405 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
78027353 TAGATACTTA
*
78027363 TGCACAAA-TTTAATTTCTAAT
1 TGCA-AAACTTTAATATCTAAT
78027384 TGCAAAACTTTAATATCTAAT
1 TGCAAAACTTTAATATCTAAT
78027405 T
1 T
78027406 TTCAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (21 bp):
TGCAAAACTTTAATATCTAAT
Found at i:78027899 original size:19 final size:19
Alignment explanation
Indices: 78027877--78027913 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78027867 AATATTTAGT
*
78027877 CATTAACAATAGTAAATAA
1 CATTAACAATAATAAATAA
*
78027896 CATTAATAATAATAAATA
1 CATTAACAATAATAAATA
78027914 GTAATAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (19 bp):
CATTAACAATAATAAATAA
Found at i:78030360 original size:27 final size:27
Alignment explanation
Indices: 78030330--78030383 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
78030320 ATGGGTTGTC
*
78030330 GAAGCTTCAAGAAA-CTCAAATATAGAG
1 GAAGCTTCAAGAAATC-CAAAAATAGAG
*
78030357 GAAGTTTCAAGAAATCCAAAAATAGAG
1 GAAGCTTCAAGAAATCCAAAAATAGAG
78030384 CATAATAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.19
Consensus pattern (27 bp):
GAAGCTTCAAGAAATCCAAAAATAGAG
Found at i:78030677 original size:35 final size:35
Alignment explanation
Indices: 78030626--78030701 Score: 143
Period size: 35 Copynumber: 2.1 Consensus size: 35
78030616 AATTTTATCC
78030626 TTTTACTTTAATAAATTTATCAATGTAATACCTATA
1 TTTT-CTTTAATAAATTTATCAATGTAATACCTATA
78030662 TTTTCTTTAATAAATTTATCAATGTAATACCTATA
1 TTTTCTTTAATAAATTTATCAATGTAATACCTATA
78030697 TTTTC
1 TTTTC
78030702 AATTAGTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.50
Consensus pattern (35 bp):
TTTTCTTTAATAAATTTATCAATGTAATACCTATA
Found at i:78031223 original size:15 final size:15
Alignment explanation
Indices: 78031203--78031249 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
78031193 AGGGTTTTAT
78031203 TTTTTTAAAGTAGGG
1 TTTTTTAAAGTAGGG
*
78031218 TTTTTTAAGGATAGGG
1 TTTTTTAAAG-TAGGG
* *
78031234 -TTTATAAAGTATGG
1 TTTTTTAAAGTAGGG
78031248 TT
1 TT
78031250 ATTTGGATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.15
15 17 0.65
16 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (15 bp):
TTTTTTAAAGTAGGG
Found at i:78031244 original size:30 final size:29
Alignment explanation
Indices: 78031208--78031267 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
78031198 TTTATTTTTT
*
78031208 TAAAGTAGGGTTTTTTAAGGA-TAGGGTTTA
1 TAAAGTAGGGTTATTT--GGATTAGGGTTTA
*
78031238 TAAAGTATGGTTATTTGGATTAGGGTTTA
1 TAAAGTAGGGTTATTTGGATTAGGGTTTA
78031267 T
1 T
78031268 GGTTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 10 0.37
30 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (29 bp):
TAAAGTAGGGTTATTTGGATTAGGGTTTA
Found at i:78033673 original size:14 final size:13
Alignment explanation
Indices: 78033650--78033679 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
78033640 ATTACTATAA
78033650 TAATTATATGAAG
1 TAATTATATGAAG
78033663 TAATATATATGAAG
1 TAAT-TATATGAAG
78033677 TAA
1 TAA
78033680 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:78034056 original size:183 final size:183
Alignment explanation
Indices: 78033748--78034116 Score: 668
Period size: 183 Copynumber: 2.0 Consensus size: 183
78033738 GATATAGTTT
*
78033748 CATGTGTCTATATTAGTGAATTAATGTTGTATATGTTTCAGTTACTACTTCCTGCTCCTCCTGCA
1 CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTACTTCCTGCTCCTCCTGCA
78033813 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
78033878 G-TTTTCATATTTGCTTAAACTGAAATACATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTCATATTTGCTT-AACTGAAATACATTTGGTGCTACTCTTATAATCTTA
* * *
78033931 CATGTGTCTGTATTAGTGAATTAATGTTGTATGTATTTCAGTTACTGCTTCCTGCTCCTCCTGCA
1 CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTACTTCCTGCTCCTCCTGCA
*
78033996 GCTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
66 ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
*
78034061 GTTTTTCATATTTGCTTAACTGAAATATATTTGGTGCTACTCTTATAATCTTA
131 GTTTTTCATATTTGCTTAACTGAAATACATTTGGTGCTACTCTTATAATCTTA
78034114 CAT
1 CAT
78034117 CTGTTCTAGG
Statistics
Matches: 179, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 164 0.92
184 15 0.08
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (183 bp):
CATGTGTCTATATTAGTGAATTAATGTTGTATATATTTCAGTTACTACTTCCTGCTCCTCCTGCA
ACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGAATTAATATTTGGTACTGATATAGATAAA
GTTTTTCATATTTGCTTAACTGAAATACATTTGGTGCTACTCTTATAATCTTA
Found at i:78034335 original size:15 final size:15
Alignment explanation
Indices: 78034315--78034343 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78034305 GGAGTAGACC
78034315 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
78034330 AGGTACGTTTTATT
1 AGGTACGTTTTATT
78034344 TCAAAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:78035683 original size:274 final size:275
Alignment explanation
Indices: 78034604--78035819 Score: 2303
Period size: 274 Copynumber: 4.5 Consensus size: 275
78034594 TCCAACCTTT
78034604 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
78034669 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
78034734 AAAGACTTG-AAAAAGTTCTATCGAGCTCATTTACTATTGAATA-TTATTTCCAATTTACTTAT-
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
78034796 AAAATTAAACTACGATT-TTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
78034860 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
78034875 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
78034940 GCAAGATATAATGGATCCT-CCTAGGTGTAACAACGCCCCGTATGATGAATCTTAAAAAATTC-A
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
78035003 AAAGACTTGAAAAAAGTTCTATCGAG-TCATTTACTATTGAATATTTATTT-CAATTTACTTATA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
78035066 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
78035131 TG-TTGATTTTAATA
261 TGTTTGATTTTAATA
78035145 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
78035210 GCAAGATATAATGGATCCT-CCTAGGTGTAACAACGCC-CGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
*
78035273 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATGTACTTATA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
78035338 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
78035403 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
78035418 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
78035483 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
78035548 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAA-TTACTTATA
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
78035612 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
196 AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
78035677 TGTTTGATTTTAATA
261 TGTTTGATTTTAATA
*
78035692 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGATGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
* *
78035757 GCAAGATATATTGGATCCTCCCTAGGTGTAACAACGCCGCGTATGATGAATCTTAAAAAATTC
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
78035820 TCCGTTTTAT
Statistics
Matches: 929, Mismatches: 6, Indels: 17
0.98 0.01 0.02
Matches are distributed among these distances:
269 63 0.07
270 222 0.24
271 157 0.17
272 79 0.09
273 96 0.10
274 231 0.25
275 81 0.09
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (275 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTTCCAATTTACTTATA
AAAATTAAACTACGATTCTTTTTTTATATTATTATATTCAAATTACTATTTTTTTATATTAATAA
TGTTTGATTTTAATA
Found at i:78036073 original size:15 final size:15
Alignment explanation
Indices: 78036029--78036084 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
78036019 AACGACATGT
*
78036029 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
78036045 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
78036058 ATATTATTTAATTAA
1 ATATTATTTAATTAA
78036073 ATATTATTTAAT
1 ATATTATTTAAT
78036085 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:78036230 original size:9 final size:9
Alignment explanation
Indices: 78036188--78036376 Score: 98
Period size: 9 Copynumber: 20.6 Consensus size: 9
78036178 TATTTGATAT
*
78036188 CATAATTTA
1 CATAACTTA
*
78036197 TATAACTTA
1 CATAACTTA
* *
78036206 CAAAACGTA
1 CATAACTTA
78036215 CAT-ACTTA
1 CATAACTTA
*
78036223 TATAACTTA
1 CATAACTTA
* *
78036232 GATAA-ATA
1 CATAACTTA
*
78036240 TATAACTTA
1 CATAACTTA
78036249 CATAACTTA
1 CATAACTTA
78036258 CATAATACTTA
1 CAT-A-ACTTA
* *
78036269 AATATATTTTATA
1 CATA-A--CT-TA
*
78036282 TCATAATTTA
1 -CATAACTTA
78036292 CATAACTTA
1 CATAACTTA
78036301 CATAACTTA
1 CATAACTTA
*
78036310 TATAACTTA
1 CATAACTTA
* *
78036319 GATAA-ATA
1 CATAACTTA
* *
78036327 TATAATTTA
1 CATAACTTA
*
78036336 CATAA-ATA
1 CATAACTTA
* * *
78036344 TATATCATA
1 CATAACTTA
78036353 TCATAACTTA
1 -CATAACTTA
78036363 CATAACTTA
1 CATAACTTA
78036372 CATAA
1 CATAA
78036377 TACTTAAATA
Statistics
Matches: 140, Mismatches: 29, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
8 23 0.16
9 89 0.64
10 12 0.09
11 9 0.06
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:78036241 original size:17 final size:17
Alignment explanation
Indices: 78036221--78036376 Score: 93
Period size: 17 Copynumber: 8.9 Consensus size: 17
78036211 CGTACATACT
*
78036221 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
78036238 TATATAACTTACATAACT
1 TATATAACTTACATAA-A
* *
78036256 TACATAA--TACTTAAA
1 TATATAACTTACATAAA
** *
78036271 TATAT-TTTATATCATAATT
1 TATATAACT-TA-CATAA-A
* *
78036290 TACATAACTTACATAACT
1 TATATAACTTACATAA-A
*
78036308 TATATAACTTAGATAAA
1 TATATAACTTACATAAA
*
78036325 TATATAATTTACATAAA
1 TATATAACTTACATAAA
* * *
78036342 TATATATCATATCATAACT
1 TATATAACTTA-CATAA-A
*
78036361 TACATAACTTACATAA
1 TATATAACTTACATAA
78036377 TACTTAAATA
Statistics
Matches: 105, Mismatches: 25, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 40 0.38
18 40 0.38
19 14 0.13
20 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (17 bp):
TATATAACTTACATAAA
Found at i:78036242 original size:43 final size:43
Alignment explanation
Indices: 78036195--78036340 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
78036185 TATCATAATT
* *
78036195 TATATAACTTACAAAACGTACATACTTATATAACTTAGATAAA
1 TATATAACTTACATAACTTACATACTTATATAACTTAGATAAA
* * * **
78036238 TATATAACTTACATAACTTACATA-ATACT-TAAATATA-TTTTA
1 TATATAACTTACATAACTTACATACTTA-TATAACT-TAGATAAA
*
78036280 TATCATAATTTACATAACTTACATAACTTATATAACTTAGATAAA
1 TAT-ATAACTTACATAACTTACAT-ACTTATATAACTTAGATAAA
*
78036325 TATATAATTTACATAA
1 TATATAACTTACATAA
78036341 ATATATATCA
Statistics
Matches: 83, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
42 11 0.13
43 44 0.53
44 17 0.20
45 11 0.13
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.38
Consensus pattern (43 bp):
TATATAACTTACATAACTTACATACTTATATAACTTAGATAAA
Found at i:78036247 original size:26 final size:26
Alignment explanation
Indices: 78036184--78036367 Score: 85
Period size: 26 Copynumber: 7.0 Consensus size: 26
78036174 AATATATTTG
*
78036184 ATATCATAATTTATATAACTTACA-AA
1 ATAT-ATAACTTATATAACTTACATAA
* *
78036210 ACGTACAT-ACTTATATAACTTAGATAA
1 A--TATATAACTTATATAACTTACATAA
*
78036237 ATATATAACTTACATAACTTACAT-A
1 ATATATAACTTATATAACTTACATAA
* **
78036262 ATACT-TAA-ATATAT-TTTATATCATAA
1 ATA-TATAACTTATATAACT-TA-CATAA
* * * *
78036288 TTTACATAACTTACATAACTTATATAA
1 -ATATATAACTTATATAACTTACATAA
* * * *
78036315 CTTAGATAA-ATATATAATTTACATAA
1 -ATATATAACTTATATAACTTACATAA
* *
78036341 ATATATATCATATCATAACTTACATAA
1 ATATATAACTTAT-ATAACTTACATAA
78036368 CTTACATAAT
Statistics
Matches: 117, Mismatches: 27, Indels: 27
0.68 0.16 0.16
Matches are distributed among these distances:
23 1 0.01
24 6 0.05
25 19 0.16
26 49 0.42
27 33 0.28
28 8 0.07
29 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (26 bp):
ATATATAACTTATATAACTTACATAA
Found at i:78036354 original size:71 final size:69
Alignment explanation
Indices: 78036218--78036376 Score: 194
Period size: 71 Copynumber: 2.3 Consensus size: 69
78036208 AAACGTACAT
* * * * * *
78036218 ACTTATATAACTTAGATAAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATAT
1 ACTTACATAACTTACATAAATATATAACTTACATAACATACATAATACATAAATATATATCATAT
78036283 CATA
66 CATA
* * * *
78036287 ATTTACATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAATATATATCA
1 ACTTACATAACTTACATAA-ATATATAACTTACATAACATACATAA--TACATAAATATATATCA
78036351 TATCATA
63 TATCATA
78036358 ACTTACATAACTTACATAA
1 ACTTACATAACTTACATAA
78036377 TACTTAAATA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 22 0.29
70 15 0.20
71 39 0.51
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (69 bp):
ACTTACATAACTTACATAAATATATAACTTACATAACATACATAATACATAAATATATATCATAT
CATA
Found at i:78041579 original size:13 final size:14
Alignment explanation
Indices: 78041563--78041591 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78041553 TTCTAAATAT
78041563 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
78041576 TTATAATTGTTTAA
1 TTATAATTGTTTAA
78041590 TT
1 TT
78041592 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:78042028 original size:21 final size:21
Alignment explanation
Indices: 78042003--78042064 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
78041993 TTAGAGCGGA
*
78042003 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
78042024 GGCAGCAGCGAGGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
*
78042045 GGCAGCAGCGACGGAGGCAG
1 GGCAGCAGCGAGGGAGGCAG
78042065 AGCATAGGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.52, T:0.00
Consensus pattern (21 bp):
GGCAGCAGCGAGGGAGGCAGC
Found at i:78042533 original size:42 final size:42
Alignment explanation
Indices: 78042437--78042604 Score: 246
Period size: 42 Copynumber: 4.0 Consensus size: 42
78042427 TTTGTGGGAA
* ** *
78042437 AAACGCCGCTAAAGACCGTGACTTTTAGCGGCGCTTTTTTCTT
1 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTT-TC
* *
78042480 AAACGCTGCTAAAGGCCACGACTTGTAGCGGCGCTTTTTTTC
1 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTTC
*
78042522 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGTTTTTTTTC
1 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTTC
* *
78042564 AAACGCCGCTAAAGGCTATGACTTTTAGCGGCGCTTTTTTT
1 AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTT
78042605 TAATAAACGC
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
42 78 0.69
43 35 0.31
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (42 bp):
AAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTTC
Found at i:78043448 original size:21 final size:21
Alignment explanation
Indices: 78043424--78043466 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
78043414 TAGATACTTA
*
78043424 TGCACAAA-TTTAATTTCTAAT
1 TGCA-AAACTTTAATATCTAAT
78043445 TGCAAAACTTTAATATCTAAT
1 TGCAAAACTTTAATATCTAAT
78043466 T
1 T
78043467 TTCAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (21 bp):
TGCAAAACTTTAATATCTAAT
Found at i:78043960 original size:19 final size:19
Alignment explanation
Indices: 78043938--78043974 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78043928 AATATTTAGT
*
78043938 CATTAACAATAGTAAATAA
1 CATTAACAATAATAAATAA
*
78043957 CATTAATAATAATAAATA
1 CATTAACAATAATAAATA
78043975 GTAATAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (19 bp):
CATTAACAATAATAAATAA
Found at i:78046421 original size:27 final size:27
Alignment explanation
Indices: 78046391--78046444 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
78046381 ATGGGTTGTC
*
78046391 GAAGCTTCAAGAAA-CTCAAATATAGAG
1 GAAGCTTCAAGAAATC-CAAAAATAGAG
*
78046418 GAAGTTTCAAGAAATCCAAAAATAGAG
1 GAAGCTTCAAGAAATCCAAAAATAGAG
78046445 CATAATAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.19
Consensus pattern (27 bp):
GAAGCTTCAAGAAATCCAAAAATAGAG
Found at i:78047248 original size:15 final size:15
Alignment explanation
Indices: 78047228--78047274 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
78047218 AGGGTTTTAT
78047228 TTTTTTAAAGTAGGG
1 TTTTTTAAAGTAGGG
*
78047243 TTTTTTAAGGATAGGG
1 TTTTTTAAAG-TAGGG
* *
78047259 -TTTATAAAGTATGG
1 TTTTTTAAAGTAGGG
78047273 TT
1 TT
78047275 ATTTGGATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.15
15 17 0.65
16 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (15 bp):
TTTTTTAAAGTAGGG
Found at i:78047269 original size:30 final size:29
Alignment explanation
Indices: 78047233--78047292 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
78047223 TTTATTTTTT
*
78047233 TAAAGTAGGGTTTTTTAAGGA-TAGGGTTTA
1 TAAAGTAGGGTTATTT--GGATTAGGGTTTA
*
78047263 TAAAGTATGGTTATTTGGATTAGGGTTTA
1 TAAAGTAGGGTTATTTGGATTAGGGTTTA
78047292 T
1 T
78047293 GGTTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 3 0.11
29 10 0.37
30 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (29 bp):
TAAAGTAGGGTTATTTGGATTAGGGTTTA
Found at i:78047739 original size:16 final size:16
Alignment explanation
Indices: 78047702--78047732 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78047692 TGATAGAGCA
*
78047702 TCCAGTTGGAAGCGCG
1 TCCAGCTGGAAGCGCG
78047718 TCCAGCTGGAAGCGC
1 TCCAGCTGGAAGCGC
78047733 TTTCAGCCGA
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:0.19, C:0.29, G:0.35, T:0.16
Consensus pattern (16 bp):
TCCAGCTGGAAGCGCG
Found at i:78052873 original size:7 final size:8
Alignment explanation
Indices: 78052850--78052897 Score: 71
Period size: 8 Copynumber: 6.0 Consensus size: 8
78052840 TACTCTGATT
78052850 CTTTCCCC
1 CTTTCCCC
78052858 CTTTCCCC
1 CTTTCCCC
78052866 CTTTCCCC
1 CTTTCCCC
78052874 CTTT-CCC
1 CTTTCCCC
*
78052881 CTCTCCCC
1 CTTTCCCC
78052889 CTCTTCCCC
1 CT-TTCCCC
78052898 ACCATCCCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
7 6 0.17
8 25 0.69
9 5 0.14
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (8 bp):
CTTTCCCC
Found at i:78055754 original size:21 final size:21
Alignment explanation
Indices: 78055729--78055769 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
78055719 TATGTATTAT
* *
78055729 AAATGGCATAATATATAATAA
1 AAATGACATAATATAAAATAA
78055750 AAATGACATAATATAAAATA
1 AAATGACATAATATAAAATA
78055770 TTACAAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (21 bp):
AAATGACATAATATAAAATAA
Found at i:78056238 original size:3 final size:3
Alignment explanation
Indices: 78056230--78056278 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
78056220 AAGCAAATGT
78056230 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
78056278 A
1 A
78056279 ATAAACTATT
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:78072646 original size:19 final size:19
Alignment explanation
Indices: 78072622--78072664 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
78072612 AGCATTGTTT
78072622 TAAAAAAATA-TTTTTAAGA
1 TAAAAAAATATTTTTTAA-A
78072641 T-AAAAAATATTTTTTAAA
1 TAAAAAAATATTTTTTAAA
78072659 TAAAAA
1 TAAAAA
78072665 TATTATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAAAAATATTTTTTAAA
Found at i:78072647 original size:18 final size:17
Alignment explanation
Indices: 78072624--78072677 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
78072614 CATTGTTTTA
78072624 AAAAAATATTTTTAAGAT
1 AAAAAATATTTTTAA-AT
78072642 AAAAAATATTTTTTAAAT
1 AAAAAATA-TTTTTAAAT
*
78072660 -AAAAATATTATTAAAT
1 AAAAAATATTTTTAAAT
78072676 AA
1 AA
78072678 GATGCATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 8 0.24
17 8 0.24
18 10 0.30
19 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAAAATATTTTTAAAT
Found at i:78072663 original size:17 final size:16
Alignment explanation
Indices: 78072625--78072677 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 16
78072615 ATTGTTTTAA
78072625 AAAAATATTTTTAAGAT
1 AAAAATATTTTTAA-AT
78072642 AAAAAATATTTTTTAAAT
1 -AAAAATA-TTTTTAAAT
*
78072660 AAAAATATTATTAAAT
1 AAAAATATTTTTAAAT
78072676 AA
1 AA
78072678 GATGCATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 10 0.30
17 7 0.21
18 9 0.27
19 7 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AAAAATATTTTTAAAT
Found at i:78073901 original size:20 final size:20
Alignment explanation
Indices: 78073872--78073911 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
78073862 AGATTGTTCT
78073872 AAAAAGATAA-AATAGAGAGA
1 AAAAAGATAACAA-AGAGAGA
*
78073892 AAAAATATAACAAAGAGAGA
1 AAAAAGATAACAAAGAGAGA
78073912 TAAACAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.70, C:0.03, G:0.17, T:0.10
Consensus pattern (20 bp):
AAAAAGATAACAAAGAGAGA
Found at i:78082913 original size:18 final size:17
Alignment explanation
Indices: 78082892--78082951 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
78082882 TACTCATTTA
78082892 TTTACTTTCCCTCAAACT
1 TTTACTTTCCCT-AAACT
*
78082910 TTTACTTT-CCAAAACTT
1 TTTACTTTCCCTAAAC-T
*
78082927 TTTATTTTCCCTAAACT
1 TTTACTTTCCCTAAACT
78082944 TTTA-TTTC
1 TTTACTTTC
78082952 TCACTCTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 8 0.22
17 15 0.41
18 14 0.38
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTACTTTCCCTAAACT
Found at i:78084351 original size:31 final size:28
Alignment explanation
Indices: 78084316--78084372 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 28
78084306 CTGTAGTTCA
*
78084316 TTGGGAGGAAAAACAGCCCAATAATGCATTT
1 TTGGG-GG-AAAA-AGCCCAAGAATGCATTT
*
78084347 TTGGGGGTAAAAGCCCAAGAATGCAT
1 TTGGGGGAAAAAGCCCAAGAATGCAT
78084373 ATGAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.58
29 3 0.12
30 2 0.08
31 5 0.21
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (28 bp):
TTGGGGGAAAAAGCCCAAGAATGCATTT
Found at i:78092506 original size:22 final size:22
Alignment explanation
Indices: 78092475--78092518 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
78092465 CATCGGGAGT
*
78092475 AGTTTGGGACTAA-TCTGAGGAC
1 AGTTTAGGACTAATTC-GAGGAC
78092497 AGTTTAGGACTAATTCGAGGAC
1 AGTTTAGGACTAATTCGAGGAC
78092519 TTTAGAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (22 bp):
AGTTTAGGACTAATTCGAGGAC
Found at i:78095104 original size:46 final size:45
Alignment explanation
Indices: 78095008--78095107 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 45
78094998 TCATCTCGTA
* * *
78095008 GCCGATTCATGTCCCAAACATGTCTTACACTGGCTTACTTCTCTAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGC-TACTTCTCGAG
* *
78095054 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTCGAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTACT--TCTCGAG
78095100 GCCGATGC
1 GCCGATGC
78095108 CGATGCCGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 3 0.06
46 44 0.94
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCTACTTCTCGAG
Found at i:78095105 original size:6 final size:6
Alignment explanation
Indices: 78095096--78095126 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
78095086 GCACTCGTCT
78095096 CGATGC CGATGC CGATGC CGATGC CGATGC C
1 CGATGC CGATGC CGATGC CGATGC CGATGC C
78095127 ATGTCCCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.16
Consensus pattern (6 bp):
CGATGC
Found at i:78098594 original size:43 final size:42
Alignment explanation
Indices: 78098472--78098624 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 42
78098462 ATGTCATATC
* * * * *
78098472 CCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCATTGT
1 CCAGACATGGTCTTACACGTAATCTCAATA-CGATGCCAATGT
* * *
78098514 CCCAGACA-GAGTCTTACACGAAAT-TGATTAACGATGCCAATGT
1 -CCAGACATG-GTCTTACACGTAATCTCAAT-ACGATGCCAATGT
*
78098557 CTCAGACATGGTCTTACACGTAATCTCAATACAATGCCAATGT
1 C-CAGACATGGTCTTACACGTAATCTCAATACGATGCCAATGT
*
78098600 CCTAGACATGGTCTTACATGTAATC
1 CC-AGACATGGTCTTACACGTAATC
78098625 ACATCTCGAT
Statistics
Matches: 90, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
42 3 0.03
43 82 0.91
44 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
CCAGACATGGTCTTACACGTAATCTCAATACGATGCCAATGT
Found at i:78102815 original size:33 final size:33
Alignment explanation
Indices: 78102778--78102841 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
78102768 AGTAAGCTTC
78102778 GCAACCCTTTCTCACATATTTCTAAGCCAATTA
1 GCAACCCTTTCTCACATATTTCTAAGCCAATTA
78102811 GCAACCCTTTCTCACATATTTCTAAGCCAAT
1 GCAACCCTTTCTCACATATTTCTAAGCCAAT
78102842 ATCAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.31, G:0.06, T:0.33
Consensus pattern (33 bp):
GCAACCCTTTCTCACATATTTCTAAGCCAATTA
Found at i:78106912 original size:28 final size:29
Alignment explanation
Indices: 78106848--78106912 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
78106838 TTCACATTTA
* *
78106848 TTTCACAATTTAACCCCTCAATTTACAAT
1 TTTCTCAATTTAACCCCTCAATTGACAAT
* * *
78106877 TTTCTCAATTTAA-TCCTTAATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACAAT
*
78106905 TTTGTCAA
1 TTTCTCAA
78106913 AATTACTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACAAT
Found at i:78109492 original size:40 final size:40
Alignment explanation
Indices: 78109426--78109576 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
78109416 AAATTGAATG
* *
78109426 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
78109465 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
**
78109505 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
78109545 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
78109577 ACATGCTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:78109590 original size:40 final size:39
Alignment explanation
Indices: 78109463--78109592 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
78109453 ATGCTGGAAA
* * *
78109463 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
78109504 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
78109542 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
78109583 TTATATCCGG
1 TTATATCCGG
78109593 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:78117552 original size:40 final size:39
Alignment explanation
Indices: 78117425--78117554 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
78117415 ATGCTGGAAA
* * *
78117425 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
78117466 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
78117504 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
78117545 TTATATCCGG
1 TTATATCCGG
78117555 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:78124991 original size:19 final size:19
Alignment explanation
Indices: 78124960--78125009 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
78124950 GCTCAATCAA
78124960 ATTT-TTTTATTTTT-TTTC
1 ATTTCTTTT-TTTTTATTTC
78124978 -TCTTCTTTTTTTTTATTTC
1 AT-TTCTTTTTTTTTATTTC
78124997 AATTTCTTTTTTT
1 -ATTTCTTTTTTT
78125010 AGAACAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.04
18 7 0.26
19 8 0.30
20 10 0.37
21 1 0.04
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (19 bp):
ATTTCTTTTTTTTTATTTC
Found at i:78142341 original size:10 final size:10
Alignment explanation
Indices: 78142326--78142353 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
78142316 AGATAACCAA
78142326 ACCAAATTTC
1 ACCAAATTTC
78142336 ACCAAATTTC
1 ACCAAATTTC
78142346 ACCAAATT
1 ACCAAATT
78142354 ACCAATCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (10 bp):
ACCAAATTTC
Found at i:78143560 original size:15 final size:15
Alignment explanation
Indices: 78143540--78143569 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
78143530 CCAACCTTTT
*
78143540 AATGCAATTTCCTAA
1 AATGCAATTACCTAA
78143555 AATGCAATTACCTAA
1 AATGCAATTACCTAA
78143570 GTACAGGCAA
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:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (15 bp):
AATGCAATTACCTAA
Found at i:78144809 original size:19 final size:19
Alignment explanation
Indices: 78144785--78144822 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
78144775 GCTTTTGAAG
78144785 GATATGATCATAGAAATGT
1 GATATGATCATAGAAATGT
78144804 GATATGATCATAGAAATGT
1 GATATGATCATAGAAATGT
78144823 TCTTTCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (19 bp):
GATATGATCATAGAAATGT
Found at i:78149328 original size:46 final size:46
Alignment explanation
Indices: 78149178--78149393 Score: 202
Period size: 46 Copynumber: 4.6 Consensus size: 46
78149168 GGGTTACTGT
* * * * * *
78149178 GAGCTAGTGTAAGACATGTTTGGGACGTGCATCGGCCACAATATAA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGA
* ** * *
78149224 GAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGGTATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGA
* *
78149272 GTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATG-
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGA
* *
78149317 GAAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGATGA
1 G-AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGATGA
* * * *
78149364 TAGTCAGTGTAAGACCATGTCTGGTACATG
1 GAGCCAGTGTAAGA-CATGTTTGGGACATG
78149394 GCATTGACAC
Statistics
Matches: 139, Mismatches: 25, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
45 3 0.02
46 75 0.54
47 39 0.28
48 22 0.16
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGA
Found at i:78151297 original size:13 final size:13
Alignment explanation
Indices: 78151264--78151318 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
78151254 TAGCCTATTC
78151264 TAAATTAAT-AAAA
1 TAAA-TAATAAAAA
78151277 TAAA-AATAAAAA
1 TAAATAATAAAAA
*
78151289 TAAATAATAAAAC
1 TAAATAATAAAAA
*
78151302 TAAATAAAACAAAA
1 TAAATAATA-AAAA
78151316 TAA
1 TAA
78151319 TATCTTCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 3 0.08
12 8 0.22
13 19 0.53
14 6 0.17
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:78152347 original size:42 final size:42
Alignment explanation
Indices: 78152267--78152348 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
78152257 TGTTGGTGCT
**
78152267 GATGCCATGTCCCAAACATGGTCTTACACAGGACCTCATACC
1 GATGCCATGTCCCAAACATGGTCTTACACAAAACCTCATACC
* * * *
78152309 GATGCTATGTCCTAGACATGGTCTTACACAAAATCTCATA
1 GATGCCATGTCCCAAACATGGTCTTACACAAAACCTCATA
78152349 TCAACACCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (42 bp):
GATGCCATGTCCCAAACATGGTCTTACACAAAACCTCATACC
Found at i:78152372 original size:42 final size:45
Alignment explanation
Indices: 78152326--78152427 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 45
78152316 TGTCCTAGAC
* *
78152326 ATGGTCTTACACAAAATCTCATATCAA-C-A-CCATATCCCAGAT
1 ATGGTCTTACACAAAATCACATACCAATCGAGCCATATCCCAGAT
**
78152368 ATGGTCTTACATGAAATCACATACCAATGTCGATGCCATATCCCAGAT
1 ATGGTCTTACACAAAATCACATACCAA--TCGA-GCCATATCCCAGAT
78152416 ATGGTCTTACAC
1 ATGGTCTTACAC
78152428 TGGCCCACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 23 0.47
45 1 0.02
46 1 0.02
48 24 0.49
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.27
Consensus pattern (45 bp):
ATGGTCTTACACAAAATCACATACCAATCGAGCCATATCCCAGAT
Found at i:78152411 original size:48 final size:48
Alignment explanation
Indices: 78152355--78152524 Score: 157
Period size: 48 Copynumber: 3.5 Consensus size: 48
78152345 CATATCAACA
* * *
78152355 CCATATCCCAGATATGGTCTTACA-TGAAATCACATACCAATGTCGATG
1 CCATATCCCAGATATGGTCTTACACTG-AACCACATACCAACGCCGATG
** *
78152403 CCATATCCCAGATATGGTCTTACACTGGCCCACATATCAACGCCGATG
1 CCATATCCCAGATATGGTCTTACACTGAACCACATACCAACGCCGATG
* * * * *
78152451 CCATGTCCCAGAAATGGTCTTACACT-AGCTCTCAT-CTCGAACGTCGATG
1 CCATATCCCAGATATGGTCTTACACTGAAC-CACATAC-C-AACGCCGATG
* * *
78152500 CCATGTCCCAAACATGGTCTTACAC
1 CCATATCCCAGATATGGTCTTACAC
78152525 GGGATCTCAT
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
47 1 0.01
48 68 0.66
49 34 0.33
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (48 bp):
CCATATCCCAGATATGGTCTTACACTGAACCACATACCAACGCCGATG
Found at i:78152517 original size:49 final size:47
Alignment explanation
Indices: 78152385--78152524 Score: 163
Period size: 48 Copynumber: 2.9 Consensus size: 47
78152375 TACATGAAAT
* * * * *
78152385 CACATACCAATGTCGATGCCATATCCCAGATATGGTCTTACACTGGCC
1 CACATATCAACGTCGATGCCATGTCCCA-AAATGGTCTTACACTAGCC
* *
78152433 CACATATCAACGCCGATGCCATGTCCCAGAAATGGTCTTACACTAGCT
1 CACATATCAACGTCGATGCCATGTCCCA-AAATGGTCTTACACTAGCC
* *
78152481 CTCATCTCGAACGTCGATGCCATGTCCCAAACATGGTCTTACAC
1 CACATATC-AACGTCGATGCCATGTCCCAAA-ATGGTCTTACAC
78152525 GGGATCTCAT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
48 49 0.61
49 31 0.39
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (47 bp):
CACATATCAACGTCGATGCCATGTCCCAAAATGGTCTTACACTAGCC
Found at i:78161323 original size:30 final size:32
Alignment explanation
Indices: 78161259--78161324 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
78161249 CGAGTCCTTA
* ** *
78161259 AAAATAATTTAGAAACAATTTAGGATTAATTT
1 AAAATAATTCAGAAACAATTTAGGAAAAAGTT
78161291 AAAATAATTCA-AAA-AATTTAGGAAAAAGTT
1 AAAATAATTCAGAAACAATTTAGGAAAAAGTT
78161321 AAAA
1 AAAA
78161325 ATTTTGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 17 0.57
31 3 0.10
32 10 0.33
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (32 bp):
AAAATAATTCAGAAACAATTTAGGAAAAAGTT
Found at i:78164192 original size:17 final size:18
Alignment explanation
Indices: 78164158--78164193 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
78164148 CATGTGGCCT
78164158 GCCCGTGTTGGCCCACAC
1 GCCCGTGTTGGCCCACAC
*
78164176 GCCCGTG-TGGCCTACAC
1 GCCCGTGTTGGCCCACAC
78164193 G
1 G
78164194 GCCTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.11, C:0.42, G:0.31, T:0.17
Consensus pattern (18 bp):
GCCCGTGTTGGCCCACAC
Done.