Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 138 of 433
Found at i:42507964 original size:71 final size:70
Alignment explanation
Indices: 42507764--42507960 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
42507754 CGATTTGTCT
* * * *
42507764 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
42507828 CTTTCA
65 CTTTCA
* * * *
42507834 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
42507899 CTTTCA
65 CTTTCA
* *
42507905 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
42507961 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 53 0.45
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:42515421 original size:70 final size:71
Alignment explanation
Indices: 42515338--42515500 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
42515328 CGATTTGTCT
42515338 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
42515402 CTTTCA
66 CTTTCA
42515408 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
42515473 CTTTCA
66 CTTTCA
42515479 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
42515501 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:42515538 original size:71 final size:70
Alignment explanation
Indices: 42515338--42515534 Score: 267
Period size: 70 Copynumber: 2.8 Consensus size: 70
42515328 CGATTTGTCT
* * *
42515338 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
42515402 CTTTCA
65 CTTTCA
* * *
42515408 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
42515473 CTTTCA
65 CTTTCA
* *
42515479 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
42515535 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 53 0.44
71 43 0.36
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:42524301 original size:49 final size:48
Alignment explanation
Indices: 42524229--42524400 Score: 159
Period size: 49 Copynumber: 3.5 Consensus size: 48
42524219 CTTGTTGTGT
* *
42524229 CAGTGTAAGACCTGTTTGGGACATGGCATCGACACCAATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCAATAGATGAAAGC
* * * * *
42524278 CAGTGTAAGACCTGTCTGGGACATGGTATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACC-CAATAGATGAAAGC
* ** ** **
42524327 CAGTGCAAGACCTGTCTGGGACACAGCATCGACTTTAAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCAATAGATGAAAGC
*
42524374 CAGTGTAAGACCATGTCTAGGACATGG
1 CAGTGTAAGACC-TGTCTGGGACATGG
42524401 GGTCGACATT
Statistics
Matches: 97, Mismatches: 23, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
47 15 0.15
48 12 0.12
49 70 0.72
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCCAATAGATGAAAGC
Found at i:42525587 original size:21 final size:20
Alignment explanation
Indices: 42525563--42525602 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
42525553 GTCATGATGG
42525563 CCACACGAGCGTGT-TGCCCTT
1 CCACACG-G-GTGTGTGCCCTT
42525584 CCACACGGGTGTGTGCCCT
1 CCACACGGGTGTGTGCCCT
42525603 ACTTCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGGGTGTGTGCCCTT
Found at i:42527608 original size:39 final size:39
Alignment explanation
Indices: 42527553--42527677 Score: 139
Period size: 39 Copynumber: 3.2 Consensus size: 39
42527543 GACTTCGGGG
42527553 CCGCA-GCTATGTGCTGGAATTATATCTGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATATCTGGACTTAAGGT
*
42527591 CCGCAGGCTATGTGCTGGAATTATAAT-AGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTAT-ATCTGGACTTAAGGT
* ** * * * *
42527630 CCGAAGGCTACATGCTGGAAATATGTCTGGGC-TAAAGT
1 CCGCAGGCTATGTGCTGGAATTATATCTGGACTTAAGGT
42527668 CCCGCAGGCT
1 -CCGCAGGCT
42527678 TCGAGTTGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
38 11 0.15
39 60 0.82
40 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGCAGGCTATGTGCTGGAATTATATCTGGACTTAAGGT
Found at i:42529489 original size:21 final size:19
Alignment explanation
Indices: 42529464--42529503 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
42529454 ATTATTCAGC
*
42529464 TTTCATAGCAATTCAATACAT
1 TTTCATAACAA-TCAA-ACAT
42529485 TTTCATAACAATCAAACAT
1 TTTCATAACAATCAAACAT
42529504 ATATTATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (19 bp):
TTTCATAACAATCAAACAT
Found at i:42539194 original size:23 final size:22
Alignment explanation
Indices: 42539162--42539206 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
42539152 AGGGAAACTT
42539162 CATCCCATGAC-TTTACCATGCC
1 CATCCCATGACATTT-CCATGCC
42539184 CATCCTCATGACATTTCCATGCC
1 CATCC-CATGACATTTCCATGCC
42539207 AATGTCTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 13 0.62
24 3 0.14
ACGTcount: A:0.22, C:0.40, G:0.09, T:0.29
Consensus pattern (22 bp):
CATCCCATGACATTTCCATGCC
Found at i:42541503 original size:40 final size:40
Alignment explanation
Indices: 42541404--42541671 Score: 375
Period size: 39 Copynumber: 6.8 Consensus size: 40
42541394 TGGATGATAA
* ** * * **
42541404 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
42541444 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
42541483 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
42541523 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
42541562 CCGGGCTAAGTCCCGAAGGCATTTG-GCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
42541601 CCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
42541641 CCGGGCTATGTCCC-AAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
42541672 AGCTATATCC
Statistics
Matches: 209, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
39 123 0.59
40 84 0.40
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:42541548 original size:79 final size:78
Alignment explanation
Indices: 42541404--42541671 Score: 355
Period size: 79 Copynumber: 3.4 Consensus size: 78
42541394 TGGATGATAA
* * * **
42541404 CCGGGCTAAGTCCCGAAGGC-ATCTGCACTAGTGACTAGTTCCGGGC-AAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCAAT-TG-GCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCA-TT
42541467 GTGCGAGTTACTAAAT
63 GTGCGAGTTACTAAAT
42541483 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCAATTG-GCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGT
42541548 GCGAGTTACTAAAT
65 GCGAGTTACTAAAT
* *
42541562 CCGGGCTAAGTCCCGAAGGCATTTGGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGTCCCGAAGGCAATTGGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGC-ATTGT
*
42541627 GCGAGTTACTCTAA-
65 GCGAGTTACT-AAAT
* *
42541641 CCGGGCTATGTCCC-AAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCAATTG-GCGAGT
42541672 AGCTATATCC
Statistics
Matches: 174, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
78 43 0.25
79 113 0.65
80 18 0.10
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCAATTGGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTGTG
CGAGTTACTAAAT
Found at i:42541682 original size:118 final size:118
Alignment explanation
Indices: 42541401--42541683 Score: 391
Period size: 118 Copynumber: 2.4 Consensus size: 118
42541391 ATTTGGATGA
* *
42541401 TAACCGGGCTAAGTCCCGAAGGCATCTGCA-CTAGT-GACTAGT-TCCGGGCAAGTCCCGAAGGC
1 TAACCGGGCTAAGTCCCGAAGGCATTTG-AGCGAGTAG-CTA-TATCCGGGCAAGTCCCGAAGGC
*
42541463 ATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
63 ATTTGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
42541519 AAATCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTA-CTAAATCCGGGCTAAGTCCCGAAGGC
1 TAA-CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGGGC-AAGTCCCGAAGGC
42541582 ATTTG-GCGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
63 ATTTGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
42541637 CTAACCGGGCTATGTCCC-AAGGCATTTGAGCGAGTAGCTATATCCGG
1 -TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGG
42541684 TTAAATTCCG
Statistics
Matches: 146, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
117 8 0.05
118 96 0.66
119 42 0.29
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (118 bp):
TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGGCAAGTCCCGAAGGCATT
TGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:42546342 original size:39 final size:39
Alignment explanation
Indices: 42546288--42546439 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
42546278 AATGTTCGAG
42546288 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
42546327 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGTGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
42546366 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
42546405 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
42546440 GGTTACCATA
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 87 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:42546455 original size:78 final size:78
Alignment explanation
Indices: 42546295--42546468 Score: 224
Period size: 78 Copynumber: 2.2 Consensus size: 78
42546285 GAGTGATATC
*
42546295 CGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGT
1 CGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGC
** *
42546360 GAGCTATGATACC
66 GAGCTACCATACA
* * * *
42546373 CGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 CGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAG-CCCGAAGGCAATTGTG
* *
42546438 CGGGTTACCATA-A
65 CGAGCTACCATACA
*
42546451 CGGGCTATGTCCCGAAGG
1 CGGGCTAAG-CCCGAAGG
42546469 TGTTTTGAAC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 53 0.64
79 30 0.36
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (78 bp):
CGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGC
GAGCTACCATACA
Found at i:42554323 original size:39 final size:39
Alignment explanation
Indices: 42554269--42554418 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
42554259 AATGTTCGAG
42554269 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
42554308 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
42554347 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
42554386 TGATAT-CGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
42554419 GGTTACCATA
Statistics
Matches: 105, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
38 16 0.15
39 89 0.85
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:42559059 original size:29 final size:29
Alignment explanation
Indices: 42559026--42559099 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
42559016 CCTTCGAGCT
42559026 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
42559055 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
42559084 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
42559100 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:42559060 original size:58 final size:58
Alignment explanation
Indices: 42558967--42559099 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
42558957 ATACTCGATT
* * * * *
42558967 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
42559025 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
42559083 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
42559100 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:42571166 original size:132 final size:132
Alignment explanation
Indices: 42571016--42571261 Score: 386
Period size: 132 Copynumber: 1.9 Consensus size: 132
42571006 ATGGAATCTC
* *
42571016 GAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
* * *
42571081 GCGAATTGCTACATATCAAA-CTTTGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAG
66 GCGAATTGCCAAATATCAAATC-TCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAG
42571145 TTT
130 TTT
* * * *
42571148 GAAGGGATATTCGATTATTTCGAGCAAACGCGAAATTGCAACCCAACATGTTAGGGCACTATTCT
1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
*
42571213 GCGAATTGCCAAATATCAAATCTCGTCTTCGTTTTAAAGAATTTTTAAA
66 GCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAA
42571262 TGAATACTTG
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
132 102 0.99
133 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (132 bp):
GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCC
GCGAATTGCCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGT
TT
Found at i:42577618 original size:6 final size:6
Alignment explanation
Indices: 42577580--42577618 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
42577570 AATAAAATTG
* *
42577580 AAATGA AAATAA AAAGAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
42577619 GATAAGAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:42584170 original size:21 final size:22
Alignment explanation
Indices: 42584146--42584190 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
42584136 AACCGGATTA
*
42584146 ATAGCACCAAA-ATCCATAAAT
1 ATAGCAACAAACATCCATAAAT
* *
42584167 ATAGTAATAAACATCCATAAAT
1 ATAGCAACAAACATCCATAAAT
42584189 AT
1 AT
42584191 GCTAGGTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.24
Consensus pattern (22 bp):
ATAGCAACAAACATCCATAAAT
Found at i:42589528 original size:64 final size:64
Alignment explanation
Indices: 42589448--42589631 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
42589438 AGACATTATG
* * *
42589448 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
42589512 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
42589577 AA
63 AA
* ** *
42589579 AT-TGGCTAGGTTACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
42589632 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:42590721 original size:2 final size:2
Alignment explanation
Indices: 42590714--42590746 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
42590704 TCATGACATG
42590714 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42590747 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42596921 original size:47 final size:47
Alignment explanation
Indices: 42596803--42596930 Score: 158
Period size: 46 Copynumber: 2.7 Consensus size: 47
42596793 GGATGGTTGA
*
42596803 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
42596851 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
42596894 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
42596931 TCGTTGAGTT
Statistics
Matches: 70, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 29 0.41
48 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:42604420 original size:46 final size:47
Alignment explanation
Indices: 42604369--42604592 Score: 225
Period size: 47 Copynumber: 4.8 Consensus size: 47
42604359 ATGGTTGAGC
42604369 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAG
* * *
42604416 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTA-G
* * *
42604461 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTA-G
42604508 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC--G
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAG
* *
42604556 CT-CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
42604593 GCGGGTTACA
Statistics
Matches: 159, Mismatches: 9, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 3 0.02
46 62 0.39
47 77 0.48
48 3 0.02
50 4 0.03
51 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAG
Found at i:42604485 original size:47 final size:47
Alignment explanation
Indices: 42604367--42604538 Score: 246
Period size: 47 Copynumber: 3.7 Consensus size: 47
42604357 GGATGGTTGA
* * *
42604367 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
42604415 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
42604460 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
42604507 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
42604539 ACTTATGGAT
Statistics
Matches: 116, Mismatches: 3, Indels: 11
0.89 0.02 0.08
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 29 0.25
47 76 0.66
48 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42607968 original size:29 final size:29
Alignment explanation
Indices: 42607925--42607999 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
42607915 CATGAATATG
* *
42607925 AATGTGA-CTGGGCCTAACGGGGCACATA
1 AATGTGATTTGGGCCTAACGGGCCACATA
* *
42607953 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAACGGGCCACATA
* *
42607982 CAGGTGATTTGGGCCTAA
1 AATGTGATTTGGGCCTAA
42608000 TAGGCCATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 7 0.17
29 33 0.82
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAACGGGCCACATA
Found at i:42608000 original size:29 final size:29
Alignment explanation
Indices: 42607933--42608043 Score: 100
Period size: 29 Copynumber: 3.9 Consensus size: 29
42607923 TGAATGTGAC
* * * * *
42607933 TGGGCCTAACGGGGCACATAAATGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
42607962 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
* **
42607991 TGGGCCTAATAGGCCATATGA-ATATGA-T
1 TGGGCCTAATGGGCCATAT-ACAGGTGATT
* * *
42608019 TAGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAATGGGCCATATACAGGT
42608044 ATGTGAAATT
Statistics
Matches: 66, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
27 1 0.02
28 18 0.27
29 46 0.70
30 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAGGTGATT
Found at i:42614058 original size:8 final size:8
Alignment explanation
Indices: 42614032--42614080 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
42614022 AGTTGTAACG
42614032 AATCTCGA
1 AATCTCGA
*
42614040 AATC-CAAA
1 AATCTC-GA
*
42614048 AATCTTGA
1 AATCTCGA
42614056 AATCTCGA
1 AATCTCGA
*
42614064 ATTCTCGA
1 AATCTCGA
42614072 AATCTCGA
1 AATCTCGA
42614080 A
1 A
42614081 TTTTTTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 1 0.03
8 32 0.97
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (8 bp):
AATCTCGA
Found at i:42615333 original size:24 final size:24
Alignment explanation
Indices: 42615303--42615353 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
42615293 ATGTATCGGC
*
42615303 AAAAGCTGAAATGCCGAAAAGCCA
1 AAAAGCTAAAATGCCGAAAAGCCA
*
42615327 AAAAGCTAAAATGTCGAAAAGCCA
1 AAAAGCTAAAATGCCGAAAAGCCA
42615351 AAA
1 AAA
42615354 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.18, G:0.18, T:0.10
Consensus pattern (24 bp):
AAAAGCTAAAATGCCGAAAAGCCA
Found at i:42615649 original size:58 final size:57
Alignment explanation
Indices: 42615577--42615687 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
42615567 TGAATGTGAC
* *
42615577 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
42615635 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCTAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGT
42615688 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:42615674 original size:28 final size:29
Alignment explanation
Indices: 42615564--42615676 Score: 142
Period size: 29 Copynumber: 4.0 Consensus size: 29
42615554 GTGAGCATGA
* *
42615564 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
42615592 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
42615621 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
42615650 ATATGAATATGA-TTGGGCTTAATGGGC
1 ATATGAATGTGATTTGGGCCTAATGGGC
42615677 TAGATACAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:42621839 original size:46 final size:46
Alignment explanation
Indices: 42621772--42621993 Score: 254
Period size: 46 Copynumber: 4.8 Consensus size: 46
42621762 TGTAACTCGC
***
42621772 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
42621818 CCATAAATGAACTTGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
42621864 ACATCTCTCGAACTCTGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
42621911 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCT-CGGACATTCGCAT
*
42621957 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
42621994 TGCCCAAACA
Statistics
Matches: 150, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 1 0.01
46 109 0.73
47 31 0.21
49 4 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:42627255 original size:40 final size:40
Alignment explanation
Indices: 42627188--42627324 Score: 215
Period size: 40 Copynumber: 3.5 Consensus size: 40
42627178 ACCCAAGTAT
*
42627188 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
42627227 CTTCGGGTCCTAGCCCGGATACAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
42627267 CTTTGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
42627307 CTTCGGGTCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
42627325 TTATCATCCA
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 78 0.88
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:42629709 original size:40 final size:38
Alignment explanation
Indices: 42629678--42629777 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 38
42629668 CGGACTAGGA
42629678 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCC-GGCTAAG
* * * * * *
42629717 CCCGAAGGCATTTGTGCAAGTTACTAAACCCGTGTTAAG
1 TCCGAAGGCATTCGTGCGAGTTAATAAATCCG-GCTAAG
42629756 TCCCGAAGGCATTCGTGCGAGT
1 T-CCGAAGGCATTCGTGCGAGT
42629778 CACTATAACC
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
38 1 0.02
39 31 0.62
40 18 0.36
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (38 bp):
TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGCTAAG
Found at i:42629766 original size:79 final size:82
Alignment explanation
Indices: 42629626--42629810 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
42629616 TCGAATGATG
* * *
42629626 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
42629690 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* *
42629706 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGTG-TTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCG-GACTAAGAT-CCGAAGGCA
*
42629767 TTCGTGCGAGTCACTATAA
64 TTCGTGCGAGTCAATATAA
**
42629786 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42629811 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 55 0.60
80 35 0.38
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:42629799 original size:40 final size:40
Alignment explanation
Indices: 42629679--42629818 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
42629669 GGACTAGGAT
* * * *
42629679 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTCACTAAACCCGGGCTTAGTC
* * * *
42629718 CCGAAGGCATTTGTGCAAGTTACTAAACCCGTG-TTAAGTC
1 CCGAAGGCATTCGTGCGAGTCACTAAACCCGGGCTT-AGTC
*
42629758 CCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTCACTA-AACCCGGGCTTAGTC
* *
42629798 CCGAAGGCATTTGAGCGAGTC
1 CCGAAGGCATTCGTGCGAGTC
42629819 GTTATATCCG
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 30 0.36
40 49 0.58
41 4 0.05
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTCACTAAACCCGGGCTTAGTC
Found at i:42629841 original size:79 final size:79
Alignment explanation
Indices: 42629678--42629843 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
42629668 CGGACTAGGA
* * *
42629678 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
*
42629743 AACCCGTGTTAAGT
66 AACCCGTGTTAAAT
* * ** * **
42629757 CCCGAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGT
1 TCCGAAGGCATTCGTGCGAGTCAATA-AATCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCAC
* *
42629821 TATATCCG-GTTAAAT
64 TAAACCCGTGTTAAAT
42629836 TCCGAAGG
1 TCCGAAGG
42629844 TACGTGATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 44 0.62
80 27 0.38
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
AACCCGTGTTAAAT
Found at i:42633929 original size:39 final size:39
Alignment explanation
Indices: 42633871--42634012 Score: 142
Period size: 40 Copynumber: 3.6 Consensus size: 39
42633861 CCGCACCAAG
* * * *
42633871 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACAACTTGCACAAAT
* * *
42633911 GCCTTC-GGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACAACTTGCACAAAT
* * * * *
42633950 GCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CAACTTGCACAAAT
42633990 GCCTTCGGGTCTTAACCCGGATA
1 GCCTTCGGGTCTTAACCCGGATA
42634013 AATTTCCAGC
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 33 0.39
40 52 0.61
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGTCTTAACCCGGATATACAACTTGCACAAAT
Found at i:42641771 original size:40 final size:40
Alignment explanation
Indices: 42641727--42641838 Score: 161
Period size: 40 Copynumber: 2.8 Consensus size: 40
42641717 ATATCACGAT
*
42641727 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAACAAC
* * *
42641767 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAACAAC
* * *
42641807 TAGCACAATTGCCTTCGGGTCTTAACCCGGAT
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
42641839 AAATTTCCAG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (40 bp):
TTGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAACAAC
Found at i:42649464 original size:40 final size:40
Alignment explanation
Indices: 42649399--42649575 Score: 286
Period size: 40 Copynumber: 4.5 Consensus size: 40
42649389 ACCCAAGTAT
42649399 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
42649438 CTTCGGGTCCTAGCCCGGATACAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
42649478 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
42649518 CTTCGGGTCTTAGCCCGGATATAGCAGCTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
42649558 CTTCGGGTCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
42649576 TTATCATCCG
Statistics
Matches: 130, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 119 0.92
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:42652377 original size:21 final size:20
Alignment explanation
Indices: 42652340--42652379 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
42652330 CCCTTGAAAC
* *
42652340 AGGGCACACGCCTGTGTGGA
1 AGGGCACACACCCGTGTGGA
42652360 AGGGCAACACACCCGTGTGG
1 AGGGC-ACACACCCGTGTGG
42652380 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGGA
Found at i:42654582 original size:13 final size:13
Alignment explanation
Indices: 42654564--42654590 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42654554 GCTCGACAGG
42654564 GACACGCCCGTGT
1 GACACGCCCGTGT
42654577 GACACGCCCGTGT
1 GACACGCCCGTGT
42654590 G
1 G
42654591 CAATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:42655116 original size:48 final size:47
Alignment explanation
Indices: 42655045--42655213 Score: 207
Period size: 48 Copynumber: 3.6 Consensus size: 47
42655035 AAGCTAACGC
* * *
42655045 CATGTCCCAGACAGGTCTTACACTAGCTTGTATCTCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-AATCTCTCGAGGCCGATG
* * *
42655093 CATGTCCCAGACATGTCTTACACTAGCTCTCA-C-CTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TAATCTCTCGAGGCCGATG
* * * *
42655139 CATGTTCCAAACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-AATCTCTCGAGGCCGATG
42655187 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
42655214 ACACAAATGA
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 36 0.35
47 1 0.01
48 63 0.62
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAATCTCTCGAGGCCGATG
Found at i:42661570 original size:48 final size:48
Alignment explanation
Indices: 42661515--42661943 Score: 804
Period size: 48 Copynumber: 8.9 Consensus size: 48
42661505 TATATATGTG
*
42661515 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
*
42661563 TGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
42661611 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
42661659 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
42661707 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
42661755 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
42661803 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
* *
42661851 TGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
* *
42661899 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGATGTGT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGT
42661944 GTATATTGTG
Statistics
Matches: 372, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 372 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGTGTATA
Found at i:42662130 original size:37 final size:37
Alignment explanation
Indices: 42662080--42662219 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
42662070 GGAAATATAT
42662080 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
42662117 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
42662154 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
42662191 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
42662220 GGACTATTCA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:42664778 original size:21 final size:20
Alignment explanation
Indices: 42664747--42664786 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
42664737 CCCTTGAAAC
*
42664747 AGGGCACACGCCTGTGTGGA
1 AGGGCACACGCCCGTGTGGA
42664767 AGGGCAACACGCCCGTGTGG
1 AGGGC-ACACGCCCGTGTGG
42664787 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:42666234 original size:93 final size:94
Alignment explanation
Indices: 42666064--42666277 Score: 256
Period size: 93 Copynumber: 2.3 Consensus size: 94
42666054 AAGCTGACGC
** *
42666064 CATGTCCCAGAC-TGGTCTTACACTAGCTTGTATCTCGCGAGGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAGACATGT
*
42666128 CTTACACTAGCTCTTGC-TTCAAT-GCCGAAG
65 CTTACACTAGCTC-T-CATACAATGGCCGAAG
* * * *
42666158 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGG-CGATGCATGTCGCAGATATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAGACATGTC
* ** * *
42666222 TTACACTGGCTCTCATACTGTGGCTGATG
66 TTACACTAGCTCTCATACAATGGCCGAAG
42666251 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
42666278 ACATAAATGA
Statistics
Matches: 103, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
91 1 0.01
92 4 0.04
93 62 0.60
94 35 0.34
95 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATACAATGGCCGAAG
Found at i:42666268 original size:46 final size:46
Alignment explanation
Indices: 42666107--42666274 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
42666097 CTCGCGAGGC
* * * ** *
42666107 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGC-TTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTC-TACATACTGTGG
* * *
42666153 CGAAGCATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCGAGG
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATA-CT-GTGG
* *
42666200 CGATGCATGTCGCAGATATGTCTTACACTGGCTCT-CATACTGTGG
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATACTGTGG
42666245 CTGATGCATGTCCCAGACATGTCTTACACT
1 C-GATGCATGTCCCAGACATGTCTTACACT
42666275 AGCACATAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
44 1 0.01
45 5 0.05
46 60 0.59
47 34 0.34
48 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTACATACTGTGG
Found at i:42672194 original size:94 final size:90
Alignment explanation
Indices: 42672061--42672275 Score: 236
Period size: 94 Copynumber: 2.3 Consensus size: 90
42672051 TATGTGGGCC
* *
42672061 AGTGTTAGACATGTCTGAGACATGCATCAGCCACAAAATGAGAGCCAATGTAAGAACATGCCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAAATGAGAGCCAATGTAAG-ACATGCCTGG
42672126 GACATGGCATCGGCATTGA-GACGA-GTGCT
65 GACAT-GCATCGGC--T-ACGA-GATGTGCT
* ** * * ** * * *
42672155 AGTGTAAGACTTGTCTGGGACATGCATTGGCCTCGAAATGTTAGCCAGTGTCAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAAATGAGAGCCAATGTAAGACATGCCTGGG
* *
42672220 ACATGCGTTGGCTACGAGATGTGCT
66 ACATGCATCGGCTACGAGATGTGCT
42672245 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
42672276 ACGGTTACAT
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
89 3 0.03
90 36 0.35
92 6 0.06
93 14 0.14
94 43 0.42
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAAATGAGAGCCAATGTAAGACATGCCTGGG
ACATGCATCGGCTACGAGATGTGCT
Found at i:42672216 original size:46 final size:44
Alignment explanation
Indices: 42672150--42672312 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 44
42672140 ATTGAGACGA
* *
42672150 GTGCTAGTGTAAGACTTGTCTGGGACATGCATTGGCCT-CGAAAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATTGG-CTACGAAAT
* * *
42672194 GTTAGCCAGTGTCAGACATGTCTGGGACATGCGTTGGCTACGAGAT
1 G-T-GCCAGTGTAAGACATGTCTGGGACATGCATTGGCTACGAAAT
* ** *
42672240 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC-ACGGTTACAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTAC-G--AAAT
* *
42672286 GTGTCAGTGTAAGACCTGTCTGGGACA
1 GTGCCAGTGTAAGACATGTCTGGGACA
42672313 CGGCATTGAC
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
43 2 0.02
44 31 0.31
45 4 0.04
46 62 0.63
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTACGAAAT
Found at i:42672264 original size:44 final size:44
Alignment explanation
Indices: 42672150--42672271 Score: 165
Period size: 46 Copynumber: 2.7 Consensus size: 44
42672140 ATTGAGACGA
*
42672150 GTGCTAGTGTAAGACTTGTCTGGGACATGCATTGGCCTCGAAAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAAAT
* * * *
42672194 GTTAGCCAGTGTCAGACATGTCTGGGACATGCGTTGG-CTACGAGAT
1 G-T-GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCT-CGAAAT
42672240 GTGCTAGTGTAAGACATGTCTGGGACATGCAT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCAT
42672272 CAGCACGGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
44 28 0.42
45 4 0.06
46 35 0.52
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (44 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAAAT
Found at i:42677419 original size:22 final size:24
Alignment explanation
Indices: 42677374--42677422 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
42677364 CAAGCCCAAC
42677374 CCACCTATAACCAACCGCTACACT
1 CCACCTATAACCAACCGCTACACT
*
42677398 CCACCTGT-ACCAACC-CTACACT
1 CCACCTATAACCAACCGCTACACT
42677420 CCA
1 CCA
42677423 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.42
23 7 0.29
24 7 0.29
ACGTcount: A:0.31, C:0.49, G:0.04, T:0.16
Consensus pattern (24 bp):
CCACCTATAACCAACCGCTACACT
Found at i:42677669 original size:65 final size:65
Alignment explanation
Indices: 42677565--42677695 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
42677555 AGTCCCATGC
*
42677565 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTTAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
*
42677630 ATCAGATAATAATAACATGGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
42677695 A
1 A
42677696 ACACTAGGGG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:42677754 original size:27 final size:26
Alignment explanation
Indices: 42677699--42677754 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
42677689 AACCTTAACA
* * *
42677699 CTAGGGGTATATCAGTAATTTTGCTC
1 CTAGGGGTAAATCAGTAATTTTCCAC
*
42677725 CTAGGGGTAAATCTGTAAATTTTCCAC
1 CTAGGGGTAAATCAGT-AATTTTCCAC
42677752 CTA
1 CTA
42677755 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (26 bp):
CTAGGGGTAAATCAGTAATTTTCCAC
Found at i:42682765 original size:21 final size:21
Alignment explanation
Indices: 42682722--42682766 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
42682712 ACTGATTTAA
* *
42682722 AACAACCCTCTAACAGAATCT
1 AACAACACTCTAACAGAACCT
* *
42682743 AACAACACTCTAATAGAGCCT
1 AACAACACTCTAACAGAACCT
42682764 AAC
1 AAC
42682767 TGAGACAGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.31, G:0.07, T:0.18
Consensus pattern (21 bp):
AACAACACTCTAACAGAACCT
Found at i:42689329 original size:12 final size:12
Alignment explanation
Indices: 42689312--42689342 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
42689302 CTTTTAAGGA
42689312 TTGTTACGACAT
1 TTGTTACGACAT
42689324 TTGTTACGACAT
1 TTGTTACGACAT
*
42689336 TTATTAC
1 TTGTTAC
42689343 TTCTTCCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTGTTACGACAT
Found at i:42693274 original size:215 final size:215
Alignment explanation
Indices: 42692883--42693360 Score: 636
Period size: 215 Copynumber: 2.2 Consensus size: 215
42692873 ATCAGATCAG
* * * ** * *
42692883 ATATACAAGTGATGAAAATAATAAAATGTGCACGATAAATTGAAATGTATAAAAAAAAAATCAAA
1 ATATACAATTGATGGAAGTAATAAAATGTGCATAATAAATTAAAATGTATAAAAAAAAAAACAAA
* * * * *
42692948 ATGAAGCTTTGATGCAATACTAAAGTACTCTTAAACAATATAATTTATTTTAAATACAAAAGCAT
66 ATCAAGCTTTGATACAATACTAAAGTACTCTCAAACAATATAACTTATTTTAAATACAAAAGAAT
* *
42693013 ATCAAAGTAATTTTCCTAACCAAGTTGGTGCCTGGTTCACTTGTGACACCAACTCAGTCAGGGGT
131 ATCAAAGTAATTTTCCTAACCAAGTTGGTGCCTGGTTAAATTGTGACACCAACTCAGTCAGGGGT
* *
42693078 TTAAATAATAGTAAATATAG
196 TTAAACAATAGTAAATATAA
** *
42693098 ATATGTAATTGATGGAAGTAATAAAATGTGCATAATAGATTAAAATGTATAAAAAAAAAAACAAA
1 ATATACAATTGATGGAAGTAATAAAATGTGCATAATAAATTAAAATGTATAAAAAAAAAAACAAA
* * *
42693163 ATCAGGCTTTGATACAATACTAAAGTA-TCCTCAAATAATATAACTTATTTTAAATACGAAAGAA
66 ATCAAGCTTTGATACAATACTAAAGTACT-CTCAAACAATATAACTTATTTTAAATACAAAAGAA
* ** * * *
42693227 TATCAAAGTAATTTTCTTAACCGTGTTGGTAG-CTTGTTAAATTGTGACACCAACTTAGTTAGGG
130 TATCAAAGTAATTTTCCTAACCAAGTTGGT-GCCTGGTTAAATTGTGACACCAACTCAGTCAGGG
*
42693291 GTTTAAACAATAGTAAGTATAA
194 GTTTAAACAATAGTAAATATAA
*
42693313 ATATACAATTGATGGAGGTAATAAAATGTGCATATAATAAATTAAAAT
1 ATATACAATTGATGGAAGTAATAAAATGTGC--ATAATAAATTAAAAT
42693361 ATTTTAAAAA
Statistics
Matches: 226, Mismatches: 33, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
214 1 0.00
215 210 0.93
216 1 0.00
217 14 0.06
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (215 bp):
ATATACAATTGATGGAAGTAATAAAATGTGCATAATAAATTAAAATGTATAAAAAAAAAAACAAA
ATCAAGCTTTGATACAATACTAAAGTACTCTCAAACAATATAACTTATTTTAAATACAAAAGAAT
ATCAAAGTAATTTTCCTAACCAAGTTGGTGCCTGGTTAAATTGTGACACCAACTCAGTCAGGGGT
TTAAACAATAGTAAATATAA
Found at i:42694530 original size:28 final size:29
Alignment explanation
Indices: 42694475--42694530 Score: 87
Period size: 28 Copynumber: 1.9 Consensus size: 29
42694465 GCAGTGGTTT
*
42694475 TCACACTGCCTAGACACACGCTCGTGTCCC
1 TCACACAGCCTAGA-ACACGCTCGTGTCCC
42694505 TCACACAGCCTAG-ACACGCTCGTGTC
1 TCACACAGCCTAGAACACGCTCGTGTC
42694531 GTCGCCTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 13 0.52
30 12 0.48
ACGTcount: A:0.21, C:0.41, G:0.18, T:0.20
Consensus pattern (29 bp):
TCACACAGCCTAGAACACGCTCGTGTCCC
Found at i:42695639 original size:56 final size:54
Alignment explanation
Indices: 42695520--42695676 Score: 172
Period size: 56 Copynumber: 2.8 Consensus size: 54
42695510 CATGACATAG
* * * *
42695520 CATGCCTCTCAACGGGGCTACATATGAGCACCCGGACCTAGCATGCATCACATTAC
1 CATGCCTCTCAACAGGGCTACATA--AGCTCCCGGACCTAGCATGTACCACATTAC
* * *
42695576 CACGCCTCTCAACAAGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTA-
1 CATGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCAC---ATTAC
* * *
42695632 CATGCCTCTCAACAGGGCTATACAAGCTCCCAGACCTAGCATGTA
1 CATGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTA
42695677 TCATGTCATC
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 21 0.25
56 60 0.71
57 4 0.05
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.20
Consensus pattern (54 bp):
CATGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCATGTACCACATTAC
Found at i:42696060 original size:23 final size:23
Alignment explanation
Indices: 42696028--42696085 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
42696018 CGTACACTTT
* *
42696028 GTTCTTGTCTTTATCAAGACTCG
1 GTTCTCGTCTTTATCAAGACTAG
42696051 GTTCTCGTCTTTATCAAGACTAG
1 GTTCTCGTCTTTATCAAGACTAG
*
42696074 ATTCTCGTCTTT
1 GTTCTCGTCTTT
42696086 CTTGATCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (23 bp):
GTTCTCGTCTTTATCAAGACTAG
Found at i:42697584 original size:18 final size:19
Alignment explanation
Indices: 42697544--42697584 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
42697534 TCACTTTTAA
*
42697544 ATTTTATCTATAAAATAAC
1 ATTTTATCTAAAAAATAAC
*
42697563 -TTTTAT-TAAAAAATCAC
1 ATTTTATCTAAAAAATAAC
42697580 ATTTT
1 ATTTT
42697585 TACATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTATCTAAAAAATAAC
Found at i:42698149 original size:8 final size:8
Alignment explanation
Indices: 42698136--42698171 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
42698126 CAATTATTTT
42698136 TAAAATTA
1 TAAAATTA
*
42698144 TAAAATAA
1 TAAAATTA
42698152 TAAAATTA
1 TAAAATTA
42698160 TAAAATTA
1 TAAAATTA
42698168 TAAA
1 TAAA
42698172 CCAACAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TAAAATTA
Found at i:42701432 original size:105 final size:105
Alignment explanation
Indices: 42701194--42701415 Score: 313
Period size: 105 Copynumber: 2.1 Consensus size: 105
42701184 CATTCACAAC
* * * * *
42701194 TGATTTAAGATCGCAACCTAAATTTATTCAAGTTAGTTGATTTAAGTTCGCAACTCTTACACAGC
1 TGATTTAAGATCGCAACCTAAATTTATTTAAGTTACTTGATTTAAGTTCGCAAATCCTACACAAC
* *
42701259 TCGCTGACCTACGTTCACAGTTAATTTTATTAAGGTTAGT
66 TCGCTAACCTACGTTCACAGCTAATTTTATTAAGGTTAGT
*
42701299 TGATTTAAGATCGCAACCTAAATTTATTTGAGTTAACTTG-TTTAAGATT-GCAAATCCTACACA
1 TGATTTAAGATCGCAACCTAAATTTATTTAAGTT-ACTTGATTTAAG-TTCGCAAATCCTACACA
* * *
42701362 ACTCGCTAACCTATGTTCATAGCTGATTTTATTAAGGTTAGT
64 ACTCGCTAACCTACGTTCACAGCTAATTTTATTAAGGTTAGT
42701404 TGATTTAAGATC
1 TGATTTAAGATC
42701416 ATAACATAAG
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
105 98 0.94
106 6 0.06
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (105 bp):
TGATTTAAGATCGCAACCTAAATTTATTTAAGTTACTTGATTTAAGTTCGCAAATCCTACACAAC
TCGCTAACCTACGTTCACAGCTAATTTTATTAAGGTTAGT
Found at i:42701711 original size:106 final size:106
Alignment explanation
Indices: 42701579--42701925 Score: 304
Period size: 106 Copynumber: 3.3 Consensus size: 106
42701569 ATCGGATCTA
* * * * * * * *
42701579 ATTTTATT-AAGGTTAGTTTATTTAAGATTGTAACTTAAATTTATTTGAGTTAGTTGATTTAAGA
1 ATTTTATTAAAGGTTAGTTGATTTAAGATCGCAACCTAAATCTATTCGAGTTAGCTAATTTAAGA
* * *
42701643 TCATAACTCCTCCACAGCTCGCTGACCTACATTTACAGTTG
66 TCACAACTCCTCCACAGCTCACTGACCTACATTCACAGTTG
42701684 ATTTTATTAAAGGTTAGTTGATTTAAGATCGCAACCTAAATCTATTCGAGTTAGCTAATTTAAGA
1 ATTTTATTAAAGGTTAGTTGATTTAAGATCGCAACCTAAATCTATTCGAGTTAGCTAATTTAAGA
** * * * * *
42701749 TTGCAACTTCTGCACAGCTCACTGACTTACGTTCATAGTTG
66 TCACAACTCCTCCACAGCTCACTGACCTACATTCACAGTTG
* * * * * * * * * *
42701790 ATTTTATT-AAGGGTAGCTAATTTAATATAGCAAACCTAATTTTTTTCAAGTTAGCTTATTTAAG
1 ATTTTATTAAAGGTTAGTTGATTTAAGATCGC-AACCTAAATCTATTCGAGTTAGCTAATTTAAG
* * * * * ** * *
42701854 ATTACAATTTCTACATAGCTCACTGACCTACGCTCATAGCTG
65 ATCACAACTCCTCCACAGCTCACTGACCTACATTCACAGTTG
** *
42701896 ATAATACT-AAGGTTAGTTGATTTAAGATCG
1 ATTTTATTAAAGGTTAGTTGATTTAAGATCG
42701926 TAGCCTCCGA
Statistics
Matches: 197, Mismatches: 43, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
105 26 0.13
106 171 0.87
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (106 bp):
ATTTTATTAAAGGTTAGTTGATTTAAGATCGCAACCTAAATCTATTCGAGTTAGCTAATTTAAGA
TCACAACTCCTCCACAGCTCACTGACCTACATTCACAGTTG
Found at i:42703430 original size:17 final size:17
Alignment explanation
Indices: 42703388--42703489 Score: 64
Period size: 17 Copynumber: 5.7 Consensus size: 17
42703378 AAATATTTTC
42703388 AAAAATATAATAATAAATTT
1 AAAAATAT-ATAA-AAA-TT
*
42703408 AAAAATATATAAAAATA
1 AAAAATATATAAAAATT
* **
42703425 AAAAATTTGGCAAGAAA-T
1 AAAAATAT-ATAA-AAATT
* *
42703443 AATAATATATAAAATTT
1 AAAAATATATAAAAATT
*
42703460 AAACATATATAAAAATGT
1 AAAAATATATAAAAAT-T
42703478 ATAAAAT-TATAA
1 A-AAAATATATAA
42703490 TAATAACATT
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
16 2 0.03
17 24 0.38
18 18 0.29
19 11 0.17
20 8 0.13
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
AAAAATATATAAAAATT
Found at i:42703430 original size:25 final size:25
Alignment explanation
Indices: 42703396--42703475 Score: 74
Period size: 25 Copynumber: 3.1 Consensus size: 25
42703386 TCAAAAATAT
*
42703396 AATAATAAATTTAAAAATATATAAA
1 AATAAAAAATTTAAAAATATATAAA
42703421 AATAAAAAATTTGGCAAGAAATA-AT-AA
1 AATAAAAAATTT---AA-AAATATATAAA
* * *
42703448 TATATAAAATTTAAACATATATAAA
1 AATAAAAAATTTAAAAATATATAAA
42703473 AAT
1 AAT
42703476 GTATAAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
23 4 0.09
24 4 0.09
25 15 0.34
27 12 0.27
28 4 0.09
29 5 0.11
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (25 bp):
AATAAAAAATTTAAAAATATATAAA
Found at i:42703852 original size:25 final size:24
Alignment explanation
Indices: 42703813--42703864 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
42703803 GGGAGGGATT
* *
42703813 TTTTGTATTTAATATTATTATAAATA
1 TTTTGTATATAATA-TAATATAAA-A
42703839 TTTT-TATATAATATAATATAAAA
1 TTTTGTATATAATATAATATAAAA
42703862 TTT
1 TTT
42703865 AAATTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.17
24 8 0.33
25 8 0.33
26 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTGTATATAATATAATATAAAA
Found at i:42703909 original size:30 final size:28
Alignment explanation
Indices: 42703870--42703934 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 28
42703860 AATTTAAATT
*
42703870 TATTATTATATTTTTCTGAAAATATTTATG
1 TATTATTATATTTTT-T-AAAAAATTTATG
*
42703900 TATTTTTATATTTTTTAAAAAATTTA--
1 TATTATTATATTTTTTAAAAAATTTATG
42703926 TATTATTAT
1 TATTATTAT
42703935 TTCTTGTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.25
28 9 0.28
29 1 0.03
30 14 0.44
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (28 bp):
TATTATTATATTTTTTAAAAAATTTATG
Found at i:42703979 original size:21 final size:21
Alignment explanation
Indices: 42703950--42704001 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
42703940 GTCAACAATC
*
42703950 TTTTT-ATTTTATTTTATATA
1 TTTTTAATTTTATTATATATA
*
42703970 TTTTTAATTTTATTATATATC
1 TTTTTAATTTTATTATATATA
42703991 TTTTTATATTT
1 TTTTTA-ATTT
42704002 CTTTAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 5 0.18
21 19 0.68
22 4 0.14
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTAATTTTATTATATATA
Found at i:42703985 original size:19 final size:19
Alignment explanation
Indices: 42703950--42704015 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 19
42703940 GTCAACAATC
42703950 TTTTTATTTTATTTTATATA
1 TTTTTATTTTA-TTTATATA
*
42703970 TTTTTAATTTTATTATATATC
1 TTTTT-ATTTTATT-TATATA
* *
42703991 TTTTTATATTTCTTTA-ATT
1 TTTTTAT-TTTATTTATATA
42704010 TTTTTA
1 TTTTTA
42704016 GAATTACGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 8 0.20
20 11 0.28
21 21 0.52
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTATTTTATTTATATA
Found at i:42705396 original size:55 final size:55
Alignment explanation
Indices: 42705330--42705437 Score: 207
Period size: 55 Copynumber: 2.0 Consensus size: 55
42705320 ACACTGAGAT
42705330 TTGAGACGAAGAGCTAAATAGAACAAAAGAGATTTACACCTGTTACAAAATGTAA
1 TTGAGACGAAGAGCTAAATAGAACAAAAGAGATTTACACCTGTTACAAAATGTAA
*
42705385 TTGAGACGAAGAGCTAAATAGAACAAAAGAGATTTACACTTGTTACAAAATGT
1 TTGAGACGAAGAGCTAAATAGAACAAAAGAGATTTACACCTGTTACAAAATGT
42705438 TATTATAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (55 bp):
TTGAGACGAAGAGCTAAATAGAACAAAAGAGATTTACACCTGTTACAAAATGTAA
Found at i:42706005 original size:12 final size:11
Alignment explanation
Indices: 42705989--42706018 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
42705979 TTTTTCCACA
42705989 ATTTTTTTTTC
1 ATTTTTTTTTC
42706000 ATTTTTTTTTC
1 ATTTTTTTTTC
42706011 ATTTTTTT
1 ATTTTTTT
42706019 CCTTTTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (11 bp):
ATTTTTTTTTC
Found at i:42707638 original size:6 final size:6
Alignment explanation
Indices: 42707620--42707685 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
42707610 AAGAAACATT
* *
42707620 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
42707669 ATCAGT ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAG
42707686 GTAACATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
5 2 0.04
6 44 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:42707887 original size:27 final size:26
Alignment explanation
Indices: 42707845--42707946 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
42707835 GCTCAGTTAT
* * *
42707845 CAGATATTGTGACAGAGTCGCCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
42707872 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
42707898 CAGATATTAGTGGCATAGCCACCAGAAA
1 CAGATATT-GTGGCAGAGCCACCAG-AA
* *
42707926 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
42707947 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 9 0.13
27 49 0.73
28 9 0.13
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:42708654 original size:27 final size:27
Alignment explanation
Indices: 42708596--42708836 Score: 326
Period size: 27 Copynumber: 9.0 Consensus size: 27
42708586 GAGGCAAAAT
* * *
42708596 GGTAATTTTACCCTACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42708622 GATAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42708649 GGTAATTCTACCCTACA-GGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42708675 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42708702 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42708729 GGTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
42708756 GGTAATTCTACCCTACAGGGG-ATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
42708782 AGTAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42708809 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42708836 G
1 G
42708837 ATATTTTTCA
Statistics
Matches: 188, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
26 60 0.32
27 128 0.68
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:42708661 original size:53 final size:53
Alignment explanation
Indices: 42708596--42708839 Score: 328
Period size: 53 Copynumber: 4.6 Consensus size: 53
42708586 GAGGCAAAAT
* * * *
42708596 GGTAATTTTACCCTACAAGGTATCTCGATAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* *
42708649 GGTAATTCTACCCTACAGGGTATTGCGATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * * *
42708702 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACA-GGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * *
42708756 GGTAATTCTACCCTACAGGGGATTTC-AGTAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTC
*
42708809 GATAATTCTACCCTACAGGGGTATTTCGATA
1 GGTAATTCTACCCTACA-GGGTATTTCGATA
42708840 TTTTTCAAAT
Statistics
Matches: 166, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
53 108 0.65
54 57 0.34
55 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (53 bp):
GGTAATTCTACCCTACAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
Found at i:42708730 original size:80 final size:80
Alignment explanation
Indices: 42708598--42708839 Score: 317
Period size: 80 Copynumber: 3.0 Consensus size: 80
42708588 GGCAAAATGG
* * * * *
42708598 TAATTTTACCCTACAAGGTATCTC-GATAATTCCACCCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGATTTCAG-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
*
42708662 TACA-GGGTATTGCGA
65 TACAGGGGTATTTCGA
* * * *
42708677 TAATTCTACCCTATAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCGGTAATTTTACCC
1 TAATTCTACCCTACAGGGG-ATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
* *
42708742 TACAGGGGTATTTTGG
65 TACAGGGGTATTTCGA
* * *
42708758 TAATTCTACCCTACAGGGGATTTCAGTAATTCTACCCTATAGGGGTATTCCGATAATTCTACCCT
1 TAATTCTACCCTACAGGGGATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
42708823 ACAGGGGTATTTCGA
66 ACAGGGGTATTTCGA
42708838 TA
1 TA
42708840 TTTTTCAAAT
Statistics
Matches: 140, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 15 0.11
80 98 0.70
81 27 0.19
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (80 bp):
TAATTCTACCCTACAGGGGATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT
ACAGGGGTATTTCGA
Found at i:42708788 original size:107 final size:107
Alignment explanation
Indices: 42708596--42708839 Score: 366
Period size: 107 Copynumber: 2.3 Consensus size: 107
42708586 GAGGCAAAAT
* *
42708596 GGTAATTTTACCCTACA-AGGTATCTCGATAATTCCACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTTTACCCTACAGGGGTATTTCGATAATTCCACCCTACAGGGGTATTTCGGTAATTCTAC
* *
42708660 CCTACAGGGTATTGCGATAATTCTACCCTATAGGGGTATTTC
66 CCTACAGGGGATTGCGATAATTCTACCCTATAGGGGTATTCC
* ** *
42708702 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTTGGTAATTCTAC
1 GGTAATTTTACCCTACAGGGGTATTTCGATAATTCCACCCTACAGGGGTATTTCGGTAATTCTAC
*
42708767 CCTACAGGGGATTTC-AGTAATTCTACCCTATAGGGGTATTCC
66 CCTACAGGGGATTGCGA-TAATTCTACCCTATAGGGGTATTCC
* *
42708809 GATAATTCTACCCTACAGGGGTATTTCGATA
1 GGTAATTTTACCCTACAGGGGTATTTCGATA
42708840 TTTTTCAAAT
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
106 18 0.15
107 106 0.85
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (107 bp):
GGTAATTTTACCCTACAGGGGTATTTCGATAATTCCACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAGGGGATTGCGATAATTCTACCCTATAGGGGTATTCC
Found at i:42708868 original size:80 final size:80
Alignment explanation
Indices: 42708622--42708868 Score: 216
Period size: 80 Copynumber: 3.1 Consensus size: 80
42708612 AAGGTATCTC
* * *
42708622 GATAATTCCACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTGCGATAATTCTAC
1 GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT-ATT-TAT
** * *
42708686 CCTATAG-GGGTATTTC
64 CAAATCGAGGGTATTTT
* * * * * *
42708702 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTTGGTAATTCTAC
1 GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT-ATT-TAT
** *
42708767 CCTA-C-AGGGGA-TTT
64 CAAATCGAGGGTATTTT
* * * * *
42708781 CAGTAATTCTACCCTATAGGGGTATTCCGATAATTCTACCCTACAGGGGTATTTCGATATTTTTC
1 GA-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTATC
*
42708846 AAATCGAGAGTATTTT
65 AAATCGAGGGTATTTT
42708862 GATAATT
1 GATAATT
42708869 TCACAAATCA
Statistics
Matches: 135, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
78 3 0.02
79 6 0.04
80 101 0.75
81 25 0.19
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (80 bp):
GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATATTTATCA
AATCGAGGGTATTTT
Found at i:42708877 original size:27 final size:27
Alignment explanation
Indices: 42708839--42709005 Score: 199
Period size: 27 Copynumber: 6.2 Consensus size: 27
42708829 GTATTTCGAT
* * * *
42708839 ATTTTTCAAATCGAGAGTATTTTGATA
1 ATTTTACAAATCAAGGGTATTTTGGTA
* *
42708866 ATTTCACAAATCAGGGGTATTTTGGTA
1 ATTTTACAAATCAAGGGTATTTTGGTA
* *
42708893 ATTTTACAAGTCAAGGATATTTTGGTA
1 ATTTTACAAATCAAGGGTATTTTGGTA
* *
42708920 ATTTTAGAAATCAAGGGTATTTTAGTA
1 ATTTTACAAATCAAGGGTATTTTGGTA
* *
42708947 ATTTTACAAACCAGGGGTATTTTGGTA
1 ATTTTACAAATCAAGGGTATTTTGGTA
** *
42708974 ATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAATCAAGGGTATTTTGGTA
42709001 ATTTT
1 ATTTT
42709006 GTAAACTAAG
Statistics
Matches: 117, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACAAATCAAGGGTATTTTGGTA
Found at i:42709017 original size:27 final size:27
Alignment explanation
Indices: 42708880--42709037 Score: 101
Period size: 27 Copynumber: 5.9 Consensus size: 27
42708870 CACAAATCAG
*
42708880 GGGTATTTTGGTAA-TTT-TACAAGTCAA
1 GGGTATTTTGGTAATTTTGTA-AACT-AA
*
42708907 GGATATTTTGGTAATTTTAG-AAA-TCAA
1 GGGTATTTTGGTAATTTT-GTAAACT-AA
* ** * *
42708934 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACTAA
* * * *
42708961 GGGTATTTTGGTAATTTTACTGATC-GA
1 GGGTATTTTGGTAATTTT-GTAAACTAA
42708988 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
* ***
42709015 GGGGATTTCAATAATTTTGTAAA
1 GGGTATTTTGGTAATTTTGTAAA
42709038 TCGAGGATAA
Statistics
Matches: 103, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
26 3 0.03
27 92 0.89
28 7 0.07
29 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAACTAA
Found at i:42709017 original size:81 final size:81
Alignment explanation
Indices: 42708846--42709005 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 81
42708836 GATATTTTTC
* * * *
42708846 AAATCGAGAGTATTTT-GATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGTCAAGGA
1 AAATCAAGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAGTCAAGGA
42708910 TATTTTGGTAATTTTAG
65 TATTTTGGTAATTTTAG
* * *
42708927 AAATCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC-TGATCGAGGG
1 AAATCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAG-TCAAGGA
42708991 TATTTTGGTAATTTT
65 TATTTTGGTAATTTT
42709006 GTAAACTAAG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.01
81 68 0.97
82 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (81 bp):
AAATCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAGTCAAGGAT
ATTTTGGTAATTTTAG
Found at i:42709030 original size:81 final size:81
Alignment explanation
Indices: 42708863--42709032 Score: 220
Period size: 81 Copynumber: 2.1 Consensus size: 81
42708853 GAGTATTTTG
* *
42708863 ATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGTCAAGGATATTTTGGTAATTTTAGA
1 ATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAGTCAAGGATATTTTGGTAATTTTAGA
* *
42708928 AATCAAGGGTATTTTA
66 AATCAAGGGGATTTCA
* * * *
42708944 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC-TGATCGAGGGTATTTTGGTAATTTT-G
1 ATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAG-TCAAGGATATTTTGGTAATTTTAG
42709007 TAAA-CTAAGGGGATTTCA
65 -AAATC-AAGGGGATTTCA
42709025 ATAATTTT
1 ATAATTTT
42709033 GTAAATCGAG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
80 3 0.04
81 74 0.96
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
ATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAGTCAAGGATATTTTGGTAATTTTAGA
AATCAAGGGGATTTCA
Found at i:42709056 original size:27 final size:26
Alignment explanation
Indices: 42709034--42709167 Score: 169
Period size: 27 Copynumber: 5.0 Consensus size: 26
42709024 AATAATTTTG
* * *
42709034 TAAATCGAGGATAATATGGTAATTCTG
1 TAAATCGAGG-TAAAACGGTAATTCTA
42709061 TAAATCGATGGTAAAACGGTAATTCTA
1 TAAATCGA-GGTAAAACGGTAATTCTA
*
42709088 TAAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCGA-GGTAAAACGGTAATTCTA
*
42709115 TAAATCGAAGGTAAAACGATAATTCTA
1 TAAATCG-AGGTAAAACGGTAATTCTA
*
42709142 TAAATCGAGGGTAAAATGGTAATTCT
1 TAAATCGA-GGTAAAACGGTAATTCT
42709168 CTCTTATTTC
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
26 1 0.01
27 91 0.96
28 3 0.03
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (26 bp):
TAAATCGAGGTAAAACGGTAATTCTA
Found at i:42709084 original size:54 final size:54
Alignment explanation
Indices: 42709025--42709167 Score: 205
Period size: 54 Copynumber: 2.6 Consensus size: 54
42709015 GGGGATTTCA
* * * * * *
42709025 ATAATTTTGTAAATCGAGGATAATATGGTAATTCTGTAAATCGATGGTAAAACG
1 ATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACG
* **
42709079 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAAGGTAAAACG
1 ATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACG
42709133 ATAATTCTATAAATCGAGGGTAAAATGGTAATTCT
1 ATAATTCTATAAATCGAGGGTAAAATGGTAATTCT
42709168 CTCTTATTTC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (54 bp):
ATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACG
Found at i:42709212 original size:27 final size:26
Alignment explanation
Indices: 42709182--42709265 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 26
42709172 TATTTCAGTG
*
42709182 ATTTTACAAATCGAGGATATTTGGGTA
1 ATTTTACAAATCGAGGGTATTT-GGTA
* *
42709209 ATTTTATAAATTG-GGGTACTTTGGTA
1 ATTTTACAAATCGAGGGTA-TTTGGTA
* *
42709235 ATTTTACAAGTCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTT-GGTA
42709262 ATTT
1 ATTT
42709266 GGTAAACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
26 21 0.45
27 26 0.55
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTTACAAATCGAGGGTATTTGGTA
Found at i:42723954 original size:40 final size:40
Alignment explanation
Indices: 42723897--42724060 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
42723887 TGAATGATAC
* * * *
42723897 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
**
42723937 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGGGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
42723977 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
42724017 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
42724057 CCGG
1 CCGG
42724061 TTGAATCCCG
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.03
40 92 0.92
41 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:42725874 original size:38 final size:38
Alignment explanation
Indices: 42725832--42726029 Score: 229
Period size: 38 Copynumber: 5.2 Consensus size: 38
42725822 GCGGGCTATA
* *
42725832 TGCTGGAATTATATCCGGATTAAATCCCGCAGGCTTTG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
42725870 TGCTGGTAA-TATATCCGGGTTAAATCCCACAGGCTTTG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
42725908 TGTTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
42725946 TGCTGGTATTATATCCGGGTTAAATCCCGCAAGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
42725984 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGAATTATATCCG-GGTTAAA-TCCCGCAGGCTTCG
42726024 TGCTGG
1 TGCTGG
42726030 TGTTATGTTT
Statistics
Matches: 140, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
37 1 0.01
38 115 0.82
39 8 0.06
40 16 0.11
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:42725931 original size:76 final size:76
Alignment explanation
Indices: 42725832--42726030 Score: 256
Period size: 76 Copynumber: 2.6 Consensus size: 76
42725822 GCGGGCTATA
*
42725832 TGCTGG-AATTATATCCGGATTAAATCCCGCAGGCTTTGTGCTGGTAATATATCCGGGTTAAATC
1 TGCTGGTAA-TATATCCGGATTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATC
* * *
42725896 CCACAGGCTTTG
65 CCACAAGCCTAG
* * *
42725908 TGTTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCC
1 TGCTGGTAATATATCCGGATTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
*
42725973 CGCAAGCCTAG
66 CACAAGCCTAG
* * * *
42725984 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 TGCTGGTAATATATCCG-GATTAAA-TCCCGCAGGCTTCGTGCTGGT
42726031 GTTATGTTTG
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
76 79 0.74
77 8 0.07
78 20 0.19
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (76 bp):
TGCTGGTAATATATCCGGATTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCC
CACAAGCCTAG
Found at i:42730033 original size:2 final size:2
Alignment explanation
Indices: 42730026--42730064 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
42730016 CAAAAAGGAA
42730026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42730065 GGGATTAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:42731624 original size:23 final size:24
Alignment explanation
Indices: 42731598--42731678 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 24
42731588 TTACTATAAT
42731598 TTGAA-TTTAATTATTATTAATTG
1 TTGAAGTTTAATTATTATTAATTG
* *
42731621 TTGAATTTTAATTAATA-TACA-TG
1 TTGAAGTTTAATTATTATTA-ATTG
*
42731644 GT-AAGTATTAATTATTATTAATTG
1 TTGAAGT-TTAATTATTATTAATTG
*
42731668 TTGAATTTTAA
1 TTGAAGTTTAA
42731679 GTTAATATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
22 3 0.07
23 20 0.43
24 20 0.43
25 3 0.07
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.52
Consensus pattern (24 bp):
TTGAAGTTTAATTATTATTAATTG
Found at i:42731673 original size:47 final size:48
Alignment explanation
Indices: 42731604--42731701 Score: 189
Period size: 47 Copynumber: 2.1 Consensus size: 48
42731594 TAATTTGAAT
42731604 TTAATTATTATTAATTGTTGAATTTTAA-TTAATATACATGGTAAGTA
1 TTAATTATTATTAATTGTTGAATTTTAAGTTAATATACATGGTAAGTA
42731651 TTAATTATTATTAATTGTTGAATTTTAAGTTAATATACATGGTAAGTA
1 TTAATTATTATTAATTGTTGAATTTTAAGTTAATATACATGGTAAGTA
42731699 TTA
1 TTA
42731702 GTATTAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 28 0.56
48 22 0.44
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (48 bp):
TTAATTATTATTAATTGTTGAATTTTAAGTTAATATACATGGTAAGTA
Found at i:42732055 original size:38 final size:38
Alignment explanation
Indices: 42732003--42732089 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
42731993 TTGATGAGGT
* *
42732003 ACTGGGTACC-ACTTTACTTC-AGCTAGGCCGATGAGAC
1 ACTGGGTGCCAACTTTACTTCAAACTA-GCCGATGAGAC
* * *
42732040 ATTGGGTGCCAACTTTACTTCAAACTATCCGATGAGGC
1 ACTGGGTGCCAACTTTACTTCAAACTAGCCGATGAGAC
42732078 ACTGGGTGCCAA
1 ACTGGGTGCCAA
42732090 ATTGGTGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
37 8 0.19
38 30 0.71
39 4 0.10
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (38 bp):
ACTGGGTGCCAACTTTACTTCAAACTAGCCGATGAGAC
Found at i:42740633 original size:40 final size:40
Alignment explanation
Indices: 42740578--42740781 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
42740568 TGGATGATAA
* * * *
42740578 CCGGGCTAAGTCCCGAAAGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-TAT
* *
42740618 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* *
42740658 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
*
42740698 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* * *
42740738 CCGGGCTATGCCCCGAAGGCATTCG-AGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTA-CTATAT
42740778 CCGG
1 CCGG
42740782 TTAAATCCTG
Statistics
Matches: 147, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 4 0.03
40 143 0.97
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
Found at i:42742250 original size:14 final size:12
Alignment explanation
Indices: 42742231--42742265 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
42742221 ATAAAGAAAC
42742231 AAAGAAACAAATCA
1 AAAGAAACAAA--A
42742245 AAAGAAACAAAA
1 AAAGAAACAAAA
42742257 AAAGAAACA
1 AAAGAAACA
42742266 GAGAGCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
14 11 0.52
ACGTcount: A:0.77, C:0.11, G:0.09, T:0.03
Consensus pattern (12 bp):
AAAGAAACAAAA
Found at i:42745274 original size:46 final size:46
Alignment explanation
Indices: 42745147--42745959 Score: 1189
Period size: 46 Copynumber: 17.3 Consensus size: 46
42745137 AGATAAATAT
* **
42745147 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATACATGAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42745193 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
42745241 ATATGTGTGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42745287 ATATGTATGTGGTAAAGCCGAATGGCTAGTGTGAGATATGTATGAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
42745333 ATATGTATATGTGGTAAAGCCGAATGGC-AAGTGTGAAATATGTATGAG
1 ATATG--TATGTGGTAAAGCCGAATGGCTAA-TGTGAAATATGTATGAG
* * *
42745381 ATATGTGTGTGGTAAAGCCGAACGGCTAATGTGAAATATATATGAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42745427 ATATGTATATTTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42745475 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42745521 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAGATATGTATGAG
1 ATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42745569 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42745617 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42745663 ATATGTATATTTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
42745711 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA-ATATATGAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42745756 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42745804 ATATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42745852 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42745898 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
42745944 ATATGTGTGTGGTAAA
1 ATATGTATGTGGTAAA
42745960 TGAGATATGT
Statistics
Matches: 703, Mismatches: 49, Indels: 30
0.90 0.06 0.04
Matches are distributed among these distances:
45 13 0.02
46 342 0.49
47 32 0.05
48 316 0.45
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.31
Consensus pattern (46 bp):
ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:42745346 original size:94 final size:92
Alignment explanation
Indices: 42745147--42745959 Score: 1207
Period size: 94 Copynumber: 8.7 Consensus size: 92
42745137 AGATAAATAT
* **
42745147 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATACATGAGATATGTATATGTGGTAAAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG--TATGTGGTAAAG
42745212 CCGAATGGCTAGTGTGAAATATGTATGAG
64 CCGAATGGCTAGTGTGAAATATGTATGAG
* * *
42745241 ATATGTGTGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAGATATGTATGTGGTAAAGCC
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGGTAAAGCC
*
42745306 GAATGGCTAGTGTGAGATATGTATGAG
66 GAATGGCTAGTGTGAAATATGTATGAG
*
42745333 ATATGTATATGTGGTAAAGCCGAATGGC-AAGTGTGAAATATGTATGAGATATGTGTGTGGTAAA
1 ATATG--TATGTGGTAAAGCCGAATGGCTAA-TGTGAAATATGTATGAGATATGTATGTGGTAAA
* * *
42745397 GCCGAACGGCTAATGTGAAATATATATGAG
63 GCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
42745427 ATATGTATATTTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTGTGTGGTAAAG
1 ATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGGTAAAG
* *
42745492 CCGAATGGCTAATGTGAAATATATATGAG
64 CCGAATGGCTAGTGTGAAATATGTATGAG
* *
42745521 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAGATATGTATGAGATATGTATATGTGGTAA
1 ATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG--TATGTGGTAA
42745586 AGCCGAATGGCTAGTGTGAAATATGTATGAG
62 AGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
42745617 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATTTGGTAAAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG--TATGTGGTAAAG
42745682 CCGAATGGCTAGTGTGAAATATGTATGAG
64 CCGAATGGCTAGTGTGAAATATGTATGAG
* *
42745711 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA-ATATATGAGATATGTATATGTGGTAAAG
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG--TATGTGGTAAAG
42745775 CCGAATGGCTAGTGTGAAATATGTATGAG
64 CCGAATGGCTAGTGTGAAATATGTATGAG
* *
42745804 ATATGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTGTGTGGTAAAG
1 ATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGGTAAAG
*
42745869 CCGAATGGCTAATGTGAAATATGTATGAG
64 CCGAATGGCTAGTGTGAAATATGTATGAG
* *
42745898 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTGTGTGGTAAA
1 ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGGTAAA
42745960 TGAGATATGT
Statistics
Matches: 678, Mismatches: 32, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
92 100 0.15
93 63 0.09
94 429 0.63
95 30 0.04
96 56 0.08
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.31
Consensus pattern (92 bp):
ATATGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATGTGGTAAAGCC
GAATGGCTAGTGTGAAATATGTATGAG
Found at i:42745979 original size:22 final size:20
Alignment explanation
Indices: 42745939--42745981 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
42745929 TGAAATATGT
*
42745939 ATGAGATATGTGTGTGGTAA
1 ATGAGATATGTATGTGGTAA
42745959 ATGAGATATGTATATGTGGTAA
1 ATGAGATATG--TATGTGGTAA
42745981 A
1 A
42745982 GCCGAATGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (20 bp):
ATGAGATATGTATGTGGTAA
Found at i:42746011 original size:48 final size:48
Alignment explanation
Indices: 42745959--42746157 Score: 371
Period size: 48 Copynumber: 4.1 Consensus size: 48
42745949 TGTGTGGTAA
*
42745959 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
42746007 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
*
42746055 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATAT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
42746103 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
1 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
*
42746151 AGGAGAT
1 ATGAGAT
42746158 GTGTGTATAT
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 147 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGT
Found at i:42746350 original size:36 final size:37
Alignment explanation
Indices: 42746298--42746398 Score: 152
Period size: 36 Copynumber: 2.8 Consensus size: 37
42746288 GGAAATATAT
*
42746298 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
42746335 -CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
42746371 TTCGGGTAAGA-CCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
42746399 GGACTATTCG
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
36 50 0.85
37 9 0.15
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:42747724 original size:40 final size:40
Alignment explanation
Indices: 42747669--42747947 Score: 490
Period size: 40 Copynumber: 7.0 Consensus size: 40
42747659 AGAATTGAGA
*
42747669 GTTATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
42747709 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
42747749 GTTATATCC-GGCTAAGTCCCGAAGAGCATTCGTGCTGAT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
42747788 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
42747828 GTTATAT-CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
42747867 GTTATATCCGGGCTAAGTCCCGAAGAGCATCCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * *
42747907 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
42747947 G
1 G
42747948 ATGTGCATTC
Statistics
Matches: 229, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 77 0.34
40 152 0.66
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:42747801 original size:79 final size:80
Alignment explanation
Indices: 42747669--42747947 Score: 490
Period size: 79 Copynumber: 3.5 Consensus size: 80
42747659 AGAATTGAGA
*
42747669 GTTATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
42747734 AGCATTCGTGCTGGT
66 AGCATTCGTGCTGGT
*
42747749 GTTATATCC-GGCTAAGTCCCGAAGAGCATTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
42747813 AGCATTCGTGCTGGT
66 AGCATTCGTGCTGGT
42747828 GTTATAT-CGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
*
42747892 AGCATCCGTGCTGGT
66 AGCATTCGTGCTGGT
* * *
42747907 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
42747948 ATGTGCATTC
Statistics
Matches: 190, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
78 1 0.01
79 151 0.79
80 38 0.20
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (80 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
AGCATTCGTGCTGGT
Found at i:42747881 original size:119 final size:119
Alignment explanation
Indices: 42747669--42747947 Score: 488
Period size: 119 Copynumber: 2.3 Consensus size: 119
42747659 AGAATTGAGA
*
42747669 GTTATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
*
42747734 AGCATTCGTGCTGGTGTTATATCCGGCTAAGTCCCGAAGAGCATTCGTGCTGAT
66 AGCATTCGTGCTGGTGTTATATCCGGCTAAGTCCCGAAGAGCATCCGTGCTGAT
42747788 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATAT-CGGGCTAAGTCCCGAAG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
*
42747852 AGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATCCGTGCTGGT
66 AGCATTCGTGCTGGTGTTATATCC-GGCTAAGTCCCGAAGAGCATCCGTGCTGAT
* * *
42747907 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
42747948 ATGTGCATTC
Statistics
Matches: 153, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
118 41 0.27
119 112 0.73
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (119 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
AGCATTCGTGCTGGTGTTATATCCGGCTAAGTCCCGAAGAGCATCCGTGCTGAT
Found at i:42748160 original size:25 final size:24
Alignment explanation
Indices: 42748111--42748160 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
42748101 TGTGTAACAA
*
42748111 CAAATGAATAGGGCACTATATGTG
1 CAAATGAATAGGGCACTAGATGTG
*
42748135 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAG-GGCACT-AGATGTG
42748160 C
1 C
42748161 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 10 0.45
25 10 0.45
26 2 0.09
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (24 bp):
CAAATGAATAGGGCACTAGATGTG
Found at i:42751220 original size:48 final size:48
Alignment explanation
Indices: 42751155--42752188 Score: 1630
Period size: 48 Copynumber: 21.9 Consensus size: 48
42751145 AATATATGTG
* * **
42751155 TGTGGTAAAGCCTAATGGCTAATGTGAAATATACATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
42751203 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATAAGATATG--TG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
42751249 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
42751297 TGTGGTAAAGCCGAATGGCTAGTGTG-AATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
42751344 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * * *
42751390 TGTGGTAAAGTCGAACGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
42751438 TTTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
42751484 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
42751532 TGTGGTAAAGCCGAATGGCTAGTGTGAGATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
42751580 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
42751626 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
42751674 TTTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* * *
42751720 TGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
42751768 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
42751816 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
42751862 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
42751910 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
42751956 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
42752004 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
42752052 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
42752100 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
42752148 TGTGGTAAAGCCGATTGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
42752189 GTGTGTATAT
Statistics
Matches: 904, Mismatches: 67, Indels: 30
0.90 0.07 0.03
Matches are distributed among these distances:
46 295 0.33
47 46 0.05
48 563 0.62
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:42751300 original size:94 final size:95
Alignment explanation
Indices: 42751155--42752188 Score: 1588
Period size: 94 Copynumber: 10.9 Consensus size: 95
42751145 AATATATGTG
* * **
42751155 TGTGGTAAAGCCTAATGGCTAATGTGAAATATACATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
* *
42751220 GCTAGTGTGAAATATGTATAAGATATG-TG
66 GCTAGTGTGAAATATGTATGAGATATGATA
* *
42751249 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
42751314 GCTAGTGTG-AATATGTATGAGATATGTATA
66 GCTAGTGTGAAATATGTATGAGATATG-ATA
* * *
42751344 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TGTGTGGTAAAGTCGAACG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
* *
42751407 GCTAATGTGAAATATATATGAGATATGTATA
66 GCTAGTGTGAAATATGTATGAGATATG-ATA
* *
42751438 TTTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TGTGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
* * *
42751501 GCTAATGTGAAATATATATGAGATATGTATT
66 GCTAGTGTGAAATATGTATGAGATATG-ATA
*
42751532 TGTGGTAAAGCCGAATGGCTAGTGTGAGATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
*
42751597 GCTAGTGTGAAATATGTATGAGATATG-TG
66 GCTAGTGTGAAATATGTATGAGATATGATA
* * *
42751626 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATTTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
*
42751691 GCTAGTGTGAAATATGTATGAGATATG-TG
66 GCTAGTGTGAAATATGTATGAGATATGATA
* * *
42751720 TGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
42751785 GCTAGTGTGAAATATGTATGAGATATGTATA
66 GCTAGTGTGAAATATGTATGAGATATG-ATA
*
42751816 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TGTGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
* *
42751879 GCTAATGTGAAATATATATGAGATATGTATA
66 GCTAGTGTGAAATATGTATGAGATATG-ATA
*
42751910 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG--TGTGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
* *
42751973 GCTAATGTGAAATATATATGAGATATGTATA
66 GCTAGTGTGAAATATGTATGAGATATG-ATA
42752004 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
*
42752069 GCTAATGTGAAATATGTATGAGATATGTATA
66 GCTAGTGTGAAATATGTATGAGATATG-ATA
* *
42752100 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGATTG
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
*
42752165 GCTAGTGTGAAATATGTAGGAGAT
66 GCTAGTGTGAAATATGTATGAGAT
42752189 GTGTGTATAT
Statistics
Matches: 891, Mismatches: 40, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
93 40 0.04
94 590 0.66
95 43 0.05
96 218 0.24
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (95 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
GCTAGTGTGAAATATGTATGAGATATGATA
Found at i:42751682 original size:236 final size:236
Alignment explanation
Indices: 42751148--42752194 Score: 1925
Period size: 236 Copynumber: 4.4 Consensus size: 236
42751138 CAAGATAAAT
* *
42751148 ATATGTGTGTGGTAAAGCCTAATGGCTAATGTGAAATATACATGAGATATGTATATGTGGTAAAG
1 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAG
*
42751213 CCGAATGGCTAGTGTGAAATATGTATAAGATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA
66 CCGAATGGCTAGTGTGAAATATGTATGAGATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA
42751278 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AATATGTATGAGATATGTA
131 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
42751342 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
196 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
42751383 ATATGTGTGTGGTAAAGTCGAACGGCTAATGTGAAATATATATGAGATATGTATATTTGGTAAAG
1 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAG
42751448 CCGAATGGCTAGTGTGAAATATGTATGAGATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA
66 CCGAATGGCTAGTGTGAAATATGTATGAGATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA
* *
42751513 TATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAGTGTGAGATATGTATGAGATATGTA
131 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
42751578 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
196 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
42751619 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATTTGGTAAAG
1 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAG
42751684 CCGAATGGCTAGTGTGAAATATGTATGAGATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA
66 CCGAATGGCTAGTGTGAAATATGTATGAGATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA
*
42751749 AATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
131 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
42751814 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
196 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
42751855 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAG
1 ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAG
42751920 CCGAATGGCTAGTGTGAAATATGTATGAGATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA
66 CCGAATGGCTAGTGTGAAATATGTATGAGATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA
42751985 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
131 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
*
42752050 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
196 TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
42752091 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAA
1 ATATG--TGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
* * *
42752156 AGCCGATTGGCTAGTGTGAAATATGTAGGAGATGTGTGT
64 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTGT
42752195 ATATTGTGGC
Statistics
Matches: 788, Mismatches: 21, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
235 168 0.21
236 528 0.67
238 92 0.12
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (236 bp):
ATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAG
CCGAATGGCTAGTGTGAAATATGTATGAGATATGTGTGTGGTAAAGCCGAATGGCTAATGTGAAA
TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
TATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:42752384 original size:37 final size:37
Alignment explanation
Indices: 42752329--42752431 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
42752319 GGAAATATAT
42752329 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
42752366 TCCGTGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
42752403 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
42752432 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:42757435 original size:12 final size:12
Alignment explanation
Indices: 42757420--42757451 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
42757410 AATAGGTAAT
42757420 TCAAAGATTATG
1 TCAAAGATTATG
42757432 TCAAAGATTATG
1 TCAAAGATTATG
42757444 TCAAAGAT
1 TCAAAGAT
42757452 GTGAAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (12 bp):
TCAAAGATTATG
Found at i:42762815 original size:39 final size:39
Alignment explanation
Indices: 42762761--42762923 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
42762751 TGTGTATGAA
*
42762761 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
42762800 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42762839 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42762878 TGTGCGAGTTGTGATATCCTGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
42762918 TGTGCG
1 TGTGCG
42762924 GGTTACCATA
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 96 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42762948 original size:40 final size:39
Alignment explanation
Indices: 42762761--42762954 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
42762751 TGTGTATGAA
* *
42762761 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
42762800 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42762839 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
42762878 TGTGCGAGTTGTGATATCCTGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
42762918 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
42762955 GTTTGAACGA
Statistics
Matches: 136, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 96 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42764923 original size:44 final size:46
Alignment explanation
Indices: 42764875--42764993 Score: 170
Period size: 44 Copynumber: 2.6 Consensus size: 46
42764865 TATCCGTGCT
**
42764875 GATGCATGTCCCAGACATGTCTTACACTAGCACATC-TCGTA-ATC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCATAATAGATC
** *
42764919 GATGCATGTCCCAGACATGTCTTACACTAGCATTTCATAATATGGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCATAATA-GATC
42764966 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
42764994 GGCTCACATA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
44 34 0.51
45 3 0.04
47 30 0.45
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCATAATAGATC
Found at i:42773078 original size:20 final size:20
Alignment explanation
Indices: 42773031--42773083 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
42773021 TATAAAGATA
42773031 TTTATT-TTAAATTTATTTT
1 TTTATTCTTAAATTTATTTT
42773050 TTTAATTCTTAAATTTACTTTT
1 TTT-ATTCTTAAATTTA-TTTT
42773072 TTT-TTCTTAAAT
1 TTTATTCTTAAAT
42773084 CATTCTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.10
20 12 0.39
21 9 0.29
22 7 0.23
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATTCTTAAATTTATTTT
Found at i:42777270 original size:17 final size:16
Alignment explanation
Indices: 42777258--42777289 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
42777248 ATAAAAATTA
42777258 AAAAATTAAAAAAAAT
1 AAAAATTAAAAAAAAT
42777274 AAAAATTAAATAAAAA
1 AAAAATTAAA-AAAAA
42777290 GCTAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATTAAAAAAAAT
Found at i:42786711 original size:84 final size:85
Alignment explanation
Indices: 42786570--42786747 Score: 259
Period size: 84 Copynumber: 2.1 Consensus size: 85
42786560 ACGACTGTTG
* * * * * *
42786570 ATTTGCAGTTACTGTCACTTGTTGTGGGTGCAAAACATATTTGTAGATTAGACAAAATGCCACTT
1 ATTTGCAGTTACTGCCACTTGTTGTGAGAGCAAAACATATTTGCAAATTAAACAAAATGCCACTT
* *
42786635 GGTTCAT-ATCAAACCACAT
66 AGTTCATAATCAAACCACAC
* *
42786654 ATTTGCAGTTGCTGCCACTTGTTGTGAGAGCACAACATATTTGCAAATTAAACAAAATGCCACTT
1 ATTTGCAGTTACTGCCACTTGTTGTGAGAGCAAAACATATTTGCAAATTAAACAAAATGCCACTT
42786719 AGTTCATAATCAAACCACAC
66 AGTTCATAATCAAACCACAC
42786739 ATTTGCAGT
1 ATTTGCAGT
42786748 CACACATTTG
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 63 0.76
85 20 0.24
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (85 bp):
ATTTGCAGTTACTGCCACTTGTTGTGAGAGCAAAACATATTTGCAAATTAAACAAAATGCCACTT
AGTTCATAATCAAACCACAC
Found at i:42786753 original size:14 final size:14
Alignment explanation
Indices: 42786734--42786761 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42786724 ATAATCAAAC
42786734 CACACATTTGCAGT
1 CACACATTTGCAGT
42786748 CACACATTTGCAGT
1 CACACATTTGCAGT
42786762 TACCGCCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (14 bp):
CACACATTTGCAGT
Found at i:42786778 original size:99 final size:100
Alignment explanation
Indices: 42786649--42786845 Score: 249
Period size: 99 Copynumber: 2.0 Consensus size: 100
42786639 CATATCAAAC
* * * * *
42786649 CACATATTTGCAGTTGCTGCCACTTGTTGTGAGAGCACAACATATTTGCAAATTAAACAAA-ATG
1 CACACATTTGCAGTTACCGCCACTTCTTGTGAGAGCACAACATATTTGCAAATTAAACAAACA-A
42786713 CCACTTAG-TTCATAATCA-AACCACAC-ATTTGCAGT
65 CCACTT-GCTTCATAAT-AGAACCACACTATTTGCAGT
* * * * *
42786748 CACACATTTGCAGTTACCGCCACTTCTTGTGAGTGCATAATATATTTGTAGATTAAACAAACAAC
1 CACACATTTGCAGTTACCGCCACTTCTTGTGAGAGCACAACATATTTGCAAATTAAACAAACAAC
42786813 CACTTGCTTCATAATAGAACCACACTATTTGCA
66 CACTTGCTTCATAATAGAACCACACTATTTGCA
42786846 AATTAAACTA
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
98 2 0.02
99 74 0.88
100 8 0.10
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (100 bp):
CACACATTTGCAGTTACCGCCACTTCTTGTGAGAGCACAACATATTTGCAAATTAAACAAACAAC
CACTTGCTTCATAATAGAACCACACTATTTGCAGT
Found at i:42787412 original size:28 final size:29
Alignment explanation
Indices: 42787352--42787545 Score: 150
Period size: 29 Copynumber: 6.8 Consensus size: 29
42787342 ATTTTAGGTC
* * * *
42787352 AAAATTGTAAAATTTGAAAAA-TAGGGGAC
1 AAAATTGTAAAATCTAAAAAATTAAGGG-T
* * * *
42787381 AAAACTATAAAATCTAAAAAATTTAGGGA
1 AAAATTGTAAAATCTAAAAAATTAAGGGT
42787410 AAAATTGTAAAATCTAAAAAATTAAGGGT
1 AAAATTGTAAAATCTAAAAAATTAAGGGT
* *
42787439 AAATTTGTAAAATCT-AAAAATCAAGGGT
1 AAAATTGTAAAATCTAAAAAATTAAGGGT
* *
42787467 AAAATTAG-AAATATATAAAAAA-TAA-GGA
1 AAAATT-GTAAA-ATCTAAAAAATTAAGGGT
* * *
42787495 AAAATTTTAAAATTTTAAAAAA-T-AGGAGC
1 AAAATTGTAAAA-TCTAAAAAATTAAGG-GT
*
42787524 AAAACTGTAAAATCTAAAAAAT
1 AAAATTGTAAAATCTAAAAAAT
42787546 AAGAGACACG
Statistics
Matches: 133, Mismatches: 23, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
27 2 0.02
28 49 0.37
29 73 0.55
30 9 0.07
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.26
Consensus pattern (29 bp):
AAAATTGTAAAATCTAAAAAATTAAGGGT
Found at i:42787493 original size:57 final size:57
Alignment explanation
Indices: 42787352--42787545 Score: 148
Period size: 57 Copynumber: 3.4 Consensus size: 57
42787342 ATTTTAGGTC
* * * * * **
42787352 AAAATTGTAAAATTTGAAAAA-TAGGGGACAAAACTATAAAATCTAAAAAATTTAGGGA
1 AAAATTGTAAAATATAAAAAATTA-AGGA-AAAATTTTAAAATCTAAAAAATCAAGGGA
* ** *
42787410 AAAATTGTAAAATCTAAAAAATTAAGGGTAAATTTGTAAAATCT-AAAAATCAAGGGT
1 AAAATTGTAAAATATAAAAAATTAAGGAAAAATTT-TAAAATCTAAAAAATCAAGGGA
* *
42787467 AAAATTAG-AAATATATAAAAAA-TAAGGAAAAATTTTAAAATTTTAAAAAAT--AGGAGC
1 AAAATT-GTAAA-ATATAAAAAATTAAGGAAAAATTTTAAAA-TCTAAAAAATCAAGG-GA
* *
42787524 AAAACTGTAAAATCTAAAAAAT
1 AAAATTGTAAAATATAAAAAAT
42787546 AAGAGACACG
Statistics
Matches: 110, Mismatches: 17, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
56 18 0.16
57 45 0.41
58 45 0.41
59 2 0.02
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.26
Consensus pattern (57 bp):
AAAATTGTAAAATATAAAAAATTAAGGAAAAATTTTAAAATCTAAAAAATCAAGGGA
Found at i:42789611 original size:48 final size:46
Alignment explanation
Indices: 42789545--42789667 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 46
42789535 AAGCTGACGC
* **
42789545 CATGTCCCAGACAGGTCTTACACTAGCT-T-GTATATCCCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTAT-T---AAGGCCAATG
* *
42789593 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTATTAAGGCCAATG
*
42789639 CATGTCCCAGACATGTCTTACACTGGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
42789668 ACATACCACT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
46 35 0.52
48 27 0.40
49 2 0.03
50 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTATTAAGGCCAATG
Found at i:42791192 original size:50 final size:50
Alignment explanation
Indices: 42791126--42791225 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
42791116 ATTTACGAGT
42791126 TCTTACAAATCAAAACAAGAATACTTACCTAAATTTTGATGAAAATACAA
1 TCTTACAAATCAAAACAAGAATACTTACCTAAATTTTGATGAAAATACAA
42791176 TCTTACAAATCAAAACAAGAATACTTACCTAAATTTTGATGAAAATACAA
1 TCTTACAAATCAAAACAAGAATACTTACCTAAATTTTGATGAAAATACAA
42791226 GATGTGATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (50 bp):
TCTTACAAATCAAAACAAGAATACTTACCTAAATTTTGATGAAAATACAA
Done.