Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 140 of 295
Found at i:47633925 original size:16 final size:16
Alignment explanation
Indices: 47633904--47633972 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
47633894 TTTGGTTCGC
47633904 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47633920 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47633936 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
*
47633953 TGTATTGGATTAGTGG
1 TGTATTGGATTAGAGG
47633969 TGTA
1 TGTA
47633973 ATAGCTAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:47633950 original size:33 final size:32
Alignment explanation
Indices: 47633904--47633972 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
47633894 TTTGGTTCGC
47633904 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
*
47633936 TGTATTGGGATTAGAGGTGTATTGGATTAGTGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
47633969 TGTA
1 TGTA
47633973 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.39
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:47640482 original size:26 final size:26
Alignment explanation
Indices: 47640433--47640515 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
47640423 CATGAAATTC
47640433 TTATCATGAAACA-TTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
47640458 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
47640484 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
47640510 TTATCA
1 TTATCA
47640516 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 13 0.24
26 42 0.76
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:47646085 original size:48 final size:48
Alignment explanation
Indices: 47646029--47646297 Score: 143
Period size: 46 Copynumber: 5.7 Consensus size: 48
47646019 GCCACACTAT
47646029 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
* * * * * *
47646077 GAGAGCTAGTGTAAGA-CATTTCAGGGACAT-GCATCGGCCTCGCGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
* * * * * *
47646123 GTA-AGCTAGTATAAGA-CATGTCTGAGATAT-GCATCGGC--T-ACAA
1 G-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
* * *
47646166 GATGTG-TCAGTGTAAGACCATGTCTAGGACATGGCATCGGTACGTAT-AGA-
1 GA-GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACAT-TGAGAC
* * * * ** * *
47646216 G-GTG-TCAGTATAAGACCATGTCT-GGACATTGCATCGCCACGGATAAGT
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA-GA-C
*
47646264 GAGAGCTAGTGTAAGACCATGTCTAGGACATGGC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
47646298 GTCGGCCTCA
Statistics
Matches: 171, Mismatches: 32, Indels: 34
0.72 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 9 0.05
45 13 0.08
46 50 0.29
47 25 0.15
48 39 0.23
49 18 0.11
50 10 0.06
51 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
Found at i:47646132 original size:46 final size:46
Alignment explanation
Indices: 47645987--47646160 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
47645977 TTTTTTGTGT
* * * * *
47645987 GCTAGTGTAAGACATGTCTA-GGACATGCATCAGCCACACTATGAGA
1 GCTAGTGTAAGACATGTC-AGGGACATGCATCGGCCTCGCGACGAGA
* * * * *
47646033 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCAGGGACAT-GCATCGGCCTCGCGACGAGA
*
47646081 GCTAGTGTAAGACATTTCAGGGACATGCATCGGCCTCGCGACGTA-A
1 GCTAGTGTAAGACATGTCAGGGACATGCATCGGCCTCGCGACG-AGA
* * * *
47646127 GCTAGTATAAGACATGTCTGAGATATGCATCGGC
1 GCTAGTGTAAGACATGTCAGGGACATGCATCGGC
47646161 TACAAGATGT
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 55 0.53
47 25 0.24
48 23 0.22
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCAGGGACATGCATCGGCCTCGCGACGAGA
Found at i:47646286 original size:49 final size:48
Alignment explanation
Indices: 47646171--47646349 Score: 150
Period size: 49 Copynumber: 3.7 Consensus size: 48
47646161 TACAAGATGT
** * *
47646171 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGTACGTATAGAGGT
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGCCACGGATAGAGGA
* *
47646219 GTCAGTATAAGACCATGTCT-GGACATTGCATCGCCACGGATA-AGTGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGCCACGGATAGAG-GA
* * * * * *
47646266 GAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTC-AATTTCGA-TA
1 G-TC-AGTGTAAGACCATGTCTAGGACATGGCATC-GCCACGGA--TAGAGGA
* *
47646317 TTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATC
47646350 AGCATTATAC
Statistics
Matches: 105, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
46 2 0.02
47 20 0.19
48 20 0.19
49 44 0.42
50 12 0.11
51 5 0.05
52 1 0.01
53 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGCCACGGATAGAGGA
Found at i:47649779 original size:15 final size:15
Alignment explanation
Indices: 47649743--47649781 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
47649733 CATATTATAC
*
47649743 TTTACTAGTGCATTA
1 TTTACTGGTGCATTA
47649758 TTTACTGGTGCATTA
1 TTTACTGGTGCATTA
47649773 TTTACTGGT
1 TTTACTGGT
47649782 TAATTTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.49
Consensus pattern (15 bp):
TTTACTGGTGCATTA
Found at i:47650259 original size:22 final size:22
Alignment explanation
Indices: 47650228--47650281 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
47650218 GCCGTGTGGC
*
47650228 TCACACGGCCAAGTGACATAGG
1 TCACACGGCCAAGTGACACAGG
*
47650250 TCACATGGCCAAGTGACACAGG
1 TCACACGGCCAAGTGACACAGG
47650272 TCACACGGCC
1 TCACACGGCC
47650282 GTGTCCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.31, G:0.26, T:0.13
Consensus pattern (22 bp):
TCACACGGCCAAGTGACACAGG
Found at i:47652128 original size:20 final size:20
Alignment explanation
Indices: 47652102--47652154 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
47652092 CAGTATTTGA
*
47652102 CACAAAGCCATGAGTAGCAG
1 CACAAAGCCATCAGTAGCAG
* **
47652122 TACAAAGCCATCAGTAGTGG
1 CACAAAGCCATCAGTAGCAG
47652142 CACAAAGCCATCA
1 CACAAAGCCATCA
47652155 ATAATGGTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.13
Consensus pattern (20 bp):
CACAAAGCCATCAGTAGCAG
Found at i:47652168 original size:21 final size:20
Alignment explanation
Indices: 47652123--47652171 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
47652113 GAGTAGCAGT
* *
47652123 ACAAAGCCATCAGTAGTGGC
1 ACAAAGCCATCAATAATGGC
47652143 ACAAAGCCATCAATAATGGTC
1 ACAAAGCCATCAATAATGG-C
47652164 ACAAAGCC
1 ACAAAGCC
47652172 TTCAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.41, C:0.27, G:0.18, T:0.14
Consensus pattern (20 bp):
ACAAAGCCATCAATAATGGC
Found at i:47654142 original size:27 final size:27
Alignment explanation
Indices: 47654111--47654288 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47654101 TAAATTGTAC
47654111 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47654138 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47654164 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47654192 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47654220 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47654247 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47654274 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47654289 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47654225 original size:82 final size:81
Alignment explanation
Indices: 47654112--47654267 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47654102 AAATTGTACA
* *
47654112 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
47654176 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47654193 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
47654258 TGCGAGTTGA
65 TGCGAATTGA
47654268 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47654279 original size:82 final size:81
Alignment explanation
Indices: 47654108--47654288 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
47654098 GATTAAATTG
* *
47654108 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
47654173 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
47654189 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
47654253 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47654271 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47654289 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47663665 original size:22 final size:22
Alignment explanation
Indices: 47663637--47663758 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
47663627 TTCCACATCC
47663637 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
47663659 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
47663683 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
47663706 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
47663730 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
47663753 ATCACA
1 ATCACA
47663759 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:47663672 original size:47 final size:47
Alignment explanation
Indices: 47663609--47663954 Score: 500
Period size: 47 Copynumber: 7.3 Consensus size: 47
47663599 CCCTTCGGGA
* * *
47663609 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
47663656 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
47663703 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
47663750 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
47663797 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
47663844 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
47663891 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
47663940 CCTATCACATATATA
1 CTTATCACATATATA
47663955 TACTTGTACA
Statistics
Matches: 281, Mismatches: 14, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 239 0.85
49 40 0.14
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:47667167 original size:48 final size:48
Alignment explanation
Indices: 47667114--47667499 Score: 610
Period size: 48 Copynumber: 8.0 Consensus size: 48
47667104 CAAGACAAAT
* * *
47667114 ATATATATGTGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
47667162 ATATATATATGTGGTAAAGCCGTATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
47667210 ATATATATATGTGGTAAAGCCGTATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
47667258 ATATGTATATGTGGTAAAGTCGATTGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
47667306 ATATGTATATGTGGTAAAGCCGTATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
47667354 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
47667402 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * * *
47667450 ATATGTATATTTGGTAAAGCCAAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
47667498 AT
1 AT
47667500 GTGTGTATAT
Statistics
Matches: 317, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 317 1.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:47667690 original size:37 final size:37
Alignment explanation
Indices: 47667640--47667742 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
47667630 GGAAATATAT
47667640 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
47667677 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
47667714 TCCGGGTAAGACCCGATAACTACGAGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
47667743 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:47672611 original size:14 final size:14
Alignment explanation
Indices: 47672592--47672640 Score: 89
Period size: 14 Copynumber: 3.5 Consensus size: 14
47672582 TGAAATTATC
*
47672592 TTTACCCATGATGT
1 TTTACCCATGGTGT
47672606 TTTACCCATGGTGT
1 TTTACCCATGGTGT
47672620 TTTACCCATGGTGT
1 TTTACCCATGGTGT
47672634 TTTACCC
1 TTTACCC
47672641 TTTTCTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.43
Consensus pattern (14 bp):
TTTACCCATGGTGT
Found at i:47672984 original size:27 final size:27
Alignment explanation
Indices: 47672937--47672990 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
47672927 TAAAAGAGAA
* * *
47672937 TTGTAATTCCAATAGAGTGTAATTACT
1 TTGTAATTACAAGAGAATGTAATTACT
47672964 TTGTAATTACAAGAGAATGTAATTACT
1 TTGTAATTACAAGAGAATGTAATTACT
47672991 ATCCCAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (27 bp):
TTGTAATTACAAGAGAATGTAATTACT
Found at i:47680948 original size:28 final size:29
Alignment explanation
Indices: 47680915--47681015 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
47680905 TATAGTAAGT
* * *
47680915 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
47680943 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
47680972 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
47681001 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
47681016 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:47686197 original size:28 final size:28
Alignment explanation
Indices: 47686157--47686213 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
47686147 TATGACACTC
47686157 CTGTGTGTCTTAACCGTGTGGCACAATG
1 CTGTGTGTCTTAACCGTGTGGCACAATG
47686185 CTGTGTGTCTTAACCGTGTGGCACAATG
1 CTGTGTGTCTTAACCGTGTGGCACAATG
47686213 C
1 C
47686214 AGGCTTCGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.32
Consensus pattern (28 bp):
CTGTGTGTCTTAACCGTGTGGCACAATG
Found at i:47687390 original size:13 final size:13
Alignment explanation
Indices: 47687355--47687391 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
47687345 GCCGAACCTA
47687355 CCATCTC-TTCTT
1 CCATCTCTTTCTT
47687367 CCATC-CTTTCTT
1 CCATCTCTTTCTT
*
47687379 CCTTCTCTTTCTT
1 CCATCTCTTTCTT
47687392 TCAAACCAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 1 0.05
12 14 0.64
13 7 0.32
ACGTcount: A:0.05, C:0.41, G:0.00, T:0.54
Consensus pattern (13 bp):
CCATCTCTTTCTT
Found at i:47688501 original size:25 final size:25
Alignment explanation
Indices: 47688454--47688501 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
47688444 TTATAACATG
* * *
47688454 AAAATGACCGTTTTGCCCATAGGTA
1 AAAATGACCATTATACCCATAGGTA
*
47688479 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCATAGG
47688502 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCATAGGTA
Found at i:47688585 original size:11 final size:11
Alignment explanation
Indices: 47688549--47688604 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
47688539 CATGGTATGT
47688549 ATGATATGCAC
1 ATGATATGCAC
* *
47688560 ATGACATG--T
1 ATGATATGCAC
47688569 ATGATATGCAC
1 ATGATATGCAC
*
47688580 ATGATATG--T
1 ATGATATGCAC
47688589 ATGATATGCAC
1 ATGATATGCAC
47688600 ATGAT
1 ATGAT
47688605 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:47688604 original size:20 final size:20
Alignment explanation
Indices: 47688538--47688604 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
47688528 ATTTTGATAA
*
47688538 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
47688558 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
47688578 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
47688598 ACATGAT
1 ACATGAT
47688605 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:47688710 original size:24 final size:24
Alignment explanation
Indices: 47688654--47688772 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
47688644 GAGGAAGCGA
47688654 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47688678 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47688701 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
47688725 AAAAGGGTTTTTTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
47688749 CAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
47688773 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
23 23 0.27
24 51 0.61
25 10 0.12
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:47689001 original size:31 final size:31
Alignment explanation
Indices: 47688966--47689029 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
47688956 CGTTTACAGT
47688966 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
47688997 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
47689028 AA
1 AA
47689030 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:47692922 original size:24 final size:25
Alignment explanation
Indices: 47692867--47692935 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
47692857 GAGTCATGAT
* * *
47692867 CGGTAAGCTCCTCCTGAGCTGATAAA
1 CGGTAAGCT-CTACTGAGCTCAAAAA
*
47692893 CAGTAAGCTCTACTGAGC-CAAAAA
1 CGGTAAGCTCTACTGAGCTCAAAAA
* *
47692917 CGGTAAACTCTATTGAGCT
1 CGGTAAGCTCTACTGAGCT
47692936 AAACAGTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
24 19 0.54
25 8 0.23
26 8 0.23
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (25 bp):
CGGTAAGCTCTACTGAGCTCAAAAA
Found at i:47692944 original size:22 final size:22
Alignment explanation
Indices: 47692889--47692957 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
47692879 CCTGAGCTGA
* *
47692889 TAAACAGTAAGCTCTACTGAGCC
1 TAAACAGTAAACTCTATTGAG-C
* *
47692912 AAAAACGGTAAACTCTATTGAGC
1 -TAAACAGTAAACTCTATTGAGC
*
47692935 TAAACAGTAATCTCT-TTAGAGC
1 TAAACAGTAAACTCTATT-GAGC
47692957 T
1 T
47692958 GAATCGATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 2 0.05
22 17 0.46
23 1 0.03
24 17 0.46
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (22 bp):
TAAACAGTAAACTCTATTGAGC
Found at i:47695307 original size:27 final size:27
Alignment explanation
Indices: 47695276--47695328 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
47695266 ATTTAAAATA
47695276 ATTAATAAACATAATAACCCTAATATC
1 ATTAATAAACATAATAACCCTAATATC
* * *
47695303 ATTAATAAAGATAGTAATCCTAATAT
1 ATTAATAAACATAATAACCCTAATAT
47695329 GAACTTACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (27 bp):
ATTAATAAACATAATAACCCTAATATC
Found at i:47700567 original size:16 final size:17
Alignment explanation
Indices: 47700546--47700579 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47700536 ATCAAGGTAT
47700546 AGGATGG-TGAAATGAA
1 AGGATGGATGAAATGAA
*
47700562 AGGATGGATGGAATGAA
1 AGGATGGATGAAATGAA
47700579 A
1 A
47700580 TGAGATGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.38, T:0.18
Consensus pattern (17 bp):
AGGATGGATGAAATGAA
Found at i:47700739 original size:45 final size:45
Alignment explanation
Indices: 47700646--47700749 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
47700636 AAGCCTAAAC
* *
47700646 ATGAGTAAGACCATGGCTGAAAGACACCATGGCATCCCACTATCG
1 ATGAGTAAGACCATAGCTGAAAGACACCATGGCATCCCACTATAG
** * **
47700691 ATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCGTGA-TATAG
1 ATGAGTAAGACCATAGCTGAAAGACACCATGGCATC-CCACTATAG
*
47700736 ATGAGTAAGGCCAT
1 ATGAGTAAGACCAT
47700750 GATTGAAAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
45 49 0.98
46 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTGAAAGACACCATGGCATCCCACTATAG
Found at i:47705099 original size:43 final size:43
Alignment explanation
Indices: 47705052--47705304 Score: 296
Period size: 43 Copynumber: 5.9 Consensus size: 43
47705042 GTTACTGAGA
* * *
47705052 TGTGATTACATGTAAGAGCATGTCTCATACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
*
47705095 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
* * *
47705138 TGCGATTACGTGTAAGACCATGTCTGAGACATTGGCATCAT-TAA
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCAT--TGTAT
** * * * * * *
47705182 T-CAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
* *
47705223 ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 -TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
*
47705267 TGTGATTACGTGTAAGACCATGTCTGAGACATTGGCAT
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCAT
47705305 CGTTAATCAA
Statistics
Matches: 178, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 170 0.96
44 5 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
Found at i:47705286 original size:129 final size:129
Alignment explanation
Indices: 47705095--47705381 Score: 529
Period size: 129 Copynumber: 2.2 Consensus size: 129
47705085 GGCATTGTAT
*
47705095 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGCGATTACGTGTAAGACCATG
1 TGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGCGATTACGTGTAAGACCATG
47705160 TCTGAGACATTGGCATCATTAATCAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
66 TCTGAGACATTGGCATCATTAATCAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
*
47705224 TGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTGTAAGACCATG
1 TGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGCGATTACGTGTAAGACCATG
*
47705289 TCTGAGACATTGGCATCGTTAATCAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
66 TCTGAGACATTGGCATCATTAATCAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
* *
47705353 TGTGATAACATGTAAGAGCATATCTGGGA
1 TGTGATAACATGTAAGACCATGTCTGGGA
47705382 TATGGCACTG
Statistics
Matches: 153, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 153 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (129 bp):
TGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGCGATTACGTGTAAGACCATG
TCTGAGACATTGGCATCATTAATCAATTACGTGTAAGACCCTATCTGGGACAGTGGCATCGATA
Found at i:47705318 original size:43 final size:43
Alignment explanation
Indices: 47705055--47705381 Score: 293
Period size: 43 Copynumber: 7.6 Consensus size: 43
47705045 ACTGAGATGT
* * *** * * *
47705055 GATTACATGTAAGAGCATGTCTCATACATTGGCATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
* * *
47705098 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGC
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
* *
47705141 GATTACGTGTAAGACCATGTCTGAGACATTGGCATCATTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATC-GTAATGC
* * * * *
47705184 AATTACGTGTAAGACCCTATCTGGGACAGTGGCATCG-ATATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA-ATGC
* * * * *
47705227 GATAACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
*
47705270 GATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGC
* * * * *
47705313 AATTACGTGTAAGACCCTATCTGGGACAGTGGCATCG-ATATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA-ATGC
* * * *
47705356 GATAACATGTAAGAGCATATCTGGGA
1 GATTACGTGTAAGACCATGTCTGGGA
47705382 TATGGCACTG
Statistics
Matches: 235, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.01
42 4 0.02
43 222 0.94
44 7 0.03
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
Found at i:47709204 original size:26 final size:29
Alignment explanation
Indices: 47709151--47709206 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
47709141 ATGTTTCCAT
*
47709151 TGATGAATCTTGTGAATTTTGATGTTATA
1 TGATGAATCTTGTGAATGTTGATGTTATA
47709180 TGATGAAT-TTG-GAATGTTGAT-TTATA
1 TGATGAATCTTGTGAATGTTGATGTTATA
47709206 T
1 T
47709207 TTAAAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.23
27 9 0.35
28 3 0.12
29 8 0.31
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (29 bp):
TGATGAATCTTGTGAATGTTGATGTTATA
Found at i:47709891 original size:42 final size:42
Alignment explanation
Indices: 47709693--47709891 Score: 271
Period size: 42 Copynumber: 4.8 Consensus size: 42
47709683 TCGATGAAAA
* * ** *
47709693 TTCGGCTATGTA-TGG-ATTTAGTGTGCAAGAATCGAGATA-C
1 TTCGGCTATGTATTGGCACTTAGTGTGCGAG-ATTAAAATAGC
* ** *
47709733 TTCGGCTATGTA-TGGCACTTAGTGTGTGAGATCGAGATAGC
1 TTCGGCTATGTATTGGCACTTAGTGTGCGAGATTAAAATAGC
*
47709774 TTCGGCCATGTATTGGCACTTAGTGTGCGAGATTAAAATAGC
1 TTCGGCTATGTATTGGCACTTAGTGTGCGAGATTAAAATAGC
47709816 TTCGGCTATGTATTGGCACTTAGTGTGCGAGATTAAAATAGC
1 TTCGGCTATGTATTGGCACTTAGTGTGCGAGATTAAAATAGC
47709858 TTCGGCTATGTATTGGCACTTAGTGTGCGAGATT
1 TTCGGCTATGTATTGGCACTTAGTGTGCGAGATT
47709892 CCTAGTATCT
Statistics
Matches: 147, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
40 24 0.16
41 23 0.16
42 100 0.68
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (42 bp):
TTCGGCTATGTATTGGCACTTAGTGTGCGAGATTAAAATAGC
Found at i:47716227 original size:24 final size:24
Alignment explanation
Indices: 47716195--47716244 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
47716185 ATAAGCAAAG
47716195 TAAGCTTCACAACCTTTTCTCACA
1 TAAGCTTCACAACCTTTTCTCACA
47716219 TAAGCTTCACAACCTTTTCTCACA
1 TAAGCTTCACAACCTTTTCTCACA
47716243 TA
1 TA
47716245 CTTCTAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.32, G:0.04, T:0.34
Consensus pattern (24 bp):
TAAGCTTCACAACCTTTTCTCACA
Found at i:47722521 original size:40 final size:38
Alignment explanation
Indices: 47722399--47722509 Score: 114
Period size: 38 Copynumber: 2.9 Consensus size: 38
47722389 GCAGGCTATA
* * * * * * * *
47722399 TGCTGGAAATATATTCGGGTTAAATCCTGCAGGCTTCG
1 TGCTGGTATTATATCCGAGTTAAATCCCGCAAGCCTAG
*
47722437 TGCTGGTATTATATCCGAGTTAAATCCCGCAGGCCTAG
1 TGCTGGTATTATATCCGAGTTAAATCCCGCAAGCCTAG
*
47722475 TGCTGGTATTATATCTGAGCTTAAAGTCCCGCAAG
1 TGCTGGTATTATATCCGAG-TTAAA-TCCCGCAAG
47722510 TTTTGTGCTG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 49 0.79
39 5 0.08
40 8 0.13
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (38 bp):
TGCTGGTATTATATCCGAGTTAAATCCCGCAAGCCTAG
Found at i:47730051 original size:38 final size:38
Alignment explanation
Indices: 47730009--47730118 Score: 105
Period size: 38 Copynumber: 2.8 Consensus size: 38
47729999 CAGGCTATAA
* * *
47730009 GCTGGAAATATAT-TCGGGTTAAATCTTGCAGGCTTCGT
1 GCTGGAAATATATCT-GGGTTAAATCCTGCAGGCCTAGT
* *
47730047 GCTGGTATTATATCTGGGTTAAATCCTGCAGGCCTAGT
1 GCTGGAAATATATCTGGGTTAAATCCTGCAGGCCTAGT
* * * *
47730085 GCTGGTATTATATCTGAGCTTAAAGTCCCGCAGG
1 GCTGGAAATATATCTG-GGTTAAA-TCCTGCAGG
47730119 TTTTGTGCTG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 47 0.76
39 7 0.11
40 8 0.13
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (38 bp):
GCTGGAAATATATCTGGGTTAAATCCTGCAGGCCTAGT
Found at i:47730129 original size:40 final size:38
Alignment explanation
Indices: 47730027--47730130 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
47730017 TATATTCGGG
** * *
47730027 TTAAATCTTGCAGGCTTCGTGCTGGTATTATATCTGGG
1 TTAAATCCCGCAGGCTTAGTGCTGGTATTATATCTGGC
* *
47730065 TTAAATCCTGCAGGCCTAGTGCTGGTATTATATCTGAGC
1 TTAAATCCCGCAGGCTTAGTGCTGGTATTATATCTG-GC
* *
47730104 TTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TTAAA-TCCCGCAGGCTTAGTGCTGGT
47730131 GATTGGATTC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 33 0.59
39 6 0.11
40 17 0.30
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (38 bp):
TTAAATCCCGCAGGCTTAGTGCTGGTATTATATCTGGC
Found at i:47732486 original size:16 final size:16
Alignment explanation
Indices: 47732467--47732501 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
47732457 TAGTAATTTT
47732467 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
47732483 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
47732499 AAT
1 AAT
47732502 TACAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:47741123 original size:49 final size:49
Alignment explanation
Indices: 47741070--47741244 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
47741060 CTGGTACGCA
*
47741070 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* *** * * * *
47741119 TAGTAGCCTACACTTAGTACTACACACATGATCGAATTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
**
47741170 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
47741219 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
47741245 CATGACCTCA
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 62 0.58
50 6 0.06
51 38 0.36
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:47741174 original size:51 final size:49
Alignment explanation
Indices: 47741057--47741251 Score: 228
Period size: 49 Copynumber: 3.9 Consensus size: 49
47741047 TAGCCAAAGC
* * **
47741057 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACACGACCAAT
* * * * *
47741106 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACATGATCGAATT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACACGA-CCAA-T
* * **
47741157 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACACGACCAAT
* * *
47741206 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACACGACC
47741252 TCACAATAGA
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 76 0.63
50 6 0.05
51 38 0.32
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACACGACCAAT
Found at i:47741235 original size:100 final size:100
Alignment explanation
Indices: 47741057--47741249 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
47741047 TAGCCAAAGC
* * *
47741057 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
47741122 TAGCCTACACTTAGTACTACACACATGATCGAATT
66 TAGCCTACACTTAGTACTACACACATGATCGAATT
*
47741157 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
*
47741222 TAGCCTGCACTTAGTACTACACACATGA
66 TAGCCTACACTTAGTACTACACACATGA
47741250 CCTCACAATA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
TAGCCTACACTTAGTACTACACACATGATCGAATT
Found at i:47744595 original size:12 final size:12
Alignment explanation
Indices: 47744578--47744604 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47744568 ATTCCGAAAT
47744578 ATATATATATAC
1 ATATATATATAC
47744590 ATATATATATAC
1 ATATATATATAC
47744602 ATA
1 ATA
47744605 AGTATGTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:47745137 original size:27 final size:28
Alignment explanation
Indices: 47745053--47745177 Score: 173
Period size: 27 Copynumber: 4.5 Consensus size: 28
47745043 CATGAGATTG
* * * *
47745053 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
47745082 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
47745110 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
47745137 GCACTAAGTGTACGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
47745164 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
47745178 GACTTAATAT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 49 0.55
28 22 0.25
29 18 0.20
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:47745189 original size:54 final size:55
Alignment explanation
Indices: 47745081--47745190 Score: 161
Period size: 54 Copynumber: 2.0 Consensus size: 55
47745071 TAAATTGTAC
* * *
47745081 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTACGAGTTTGATTATATAGCACTAAGTGTGCGACTTGAATATAT
*
47745136 AGCACTAAGTGTACGAG-TTGATTATATAGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTACGAGTTTGATTATATAGCACTAAGTGTGC-GACTTGAATATAT
47745190 A
1 A
47745191 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
54 30 0.60
55 20 0.40
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (55 bp):
AGCACTAAGTGTACGAGTTTGATTATATAGCACTAAGTGTGCGACTTGAATATAT
Found at i:47752932 original size:23 final size:23
Alignment explanation
Indices: 47752906--47752950 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
47752896 ATAAAATATG
*
47752906 TTAATGTAAATCATATCTTTCAT
1 TTAATCTAAATCATATCTTTCAT
47752929 TTAATCTAAATCATATCTTTCA
1 TTAATCTAAATCATATCTTTCA
47752951 GTTTTCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAATCTAAATCATATCTTTCAT
Found at i:47754735 original size:28 final size:29
Alignment explanation
Indices: 47754703--47754817 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
47754693 TACTTGTATC
* *
47754703 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
47754731 TGGCCCATTAGGCCCAAACCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
47754760 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
47754789 TGGCCCGTTATGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
47754817 T
1 T
47754818 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:47758817 original size:27 final size:26
Alignment explanation
Indices: 47758759--47758871 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
47758749 AGGAAGCATC
* *
47758759 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
47758787 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
47758814 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
47758842 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
47758868 CTGG
1 CTGG
47758872 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.49
28 32 0.42
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:47758844 original size:55 final size:54
Alignment explanation
Indices: 47758759--47758871 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
47758749 AGGAAGCATC
*
47758759 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
47758814 CTGGTGGCTCTGCCAC-GATTATCTATATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCT-GATCTGGTGACTCTGCCACATTATCTGTT
47758868 CTGG
1 CTGG
47758872 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 19 0.37
55 33 0.63
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:47766671 original size:27 final size:26
Alignment explanation
Indices: 47766614--47766725 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 26
47766604 GGAAGCGTCT
*
47766614 TGGTGGCTATGCCACAAATTATCTGATC
1 TGGTGGCTATGCCAC--ATTATCTGTTC
47766642 TGGTGGCTATGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAT-TATCTGTTC
*
47766669 TGGTGGCTCTGCCACGATTATCTGTATC
1 TGGTGGCTATGCCAC-ATTATCTGT-TC
* * *
47766697 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACATTATCTGTTC
47766723 TGG
1 TGG
47766726 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.49
28 32 0.42
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
TGGTGGCTATGCCACATTATCTGTTC
Found at i:47766698 original size:55 final size:54
Alignment explanation
Indices: 47766614--47766725 Score: 154
Period size: 55 Copynumber: 2.1 Consensus size: 54
47766604 GGAAGCGTCT
*
47766614 TGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTATGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAAATTATCTGATCTGGTGACTATGCCACAT-TATCTGTTC
* * * *
47766669 TGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTATGCCACATTATCTGTTC
47766723 TGG
1 TGG
47766726 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
54 20 0.39
55 31 0.61
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATTATCTGATCTGGTGACTATGCCACATTATCTGTTC
Found at i:47768873 original size:17 final size:16
Alignment explanation
Indices: 47768831--47768882 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
47768821 CTAATCGAAA
*
47768831 AAGAAG-AAAACGAAG
1 AAGAAGAAAAACAAAG
*
47768846 GAGAAGAAAAACAAAG
1 AAGAAGAAAAACAAAG
*
47768862 AAGAAG-GAAA-AAAG
1 AAGAAGAAAAACAAAG
47768876 AAGAAGA
1 AAGAAGA
47768883 GAAGTTCGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 10 0.32
15 8 0.26
16 13 0.42
ACGTcount: A:0.69, C:0.04, G:0.27, T:0.00
Consensus pattern (16 bp):
AAGAAGAAAAACAAAG
Found at i:47775071 original size:79 final size:81
Alignment explanation
Indices: 47774935--47775117 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
47774925 TTGAATGATG
* *
47774935 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
47774999 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
47775014 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
47775076 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
47775094 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47775118 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:47775133 original size:40 final size:40
Alignment explanation
Indices: 47774936--47775119 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
47774926 TGAATGATGT
* * * *
47774936 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
47774976 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
47775016 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47775054 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47775095 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47775120 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:47775141 original size:79 final size:79
Alignment explanation
Indices: 47774988--47775152 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
47774978 GGACTAAGAT
* **
47774988 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
47775053 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
47775067 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
47775130 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
47775146 CCGAAGG
1 CCGAAGG
47775153 TATGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:47776904 original size:22 final size:22
Alignment explanation
Indices: 47776876--47776917 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47776866 TTACTCAATT
*
47776876 ATAAGTTTAATTAATATATTCA
1 ATAAGTTAAATTAATATATTCA
*
47776898 ATAAGTTAAATTAGTATATT
1 ATAAGTTAAATTAATATATT
47776918 TTATATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (22 bp):
ATAAGTTAAATTAATATATTCA
Found at i:47780109 original size:90 final size:90
Alignment explanation
Indices: 47779956--47780121 Score: 235
Period size: 90 Copynumber: 1.8 Consensus size: 90
47779946 AATGCCAAAA
* * * * * * *
47779956 CCATGTCCCAGACATGGTCTTACATGGGTCTACATATGGATGCCATATCCTAGATATGGTCTTAT
1 CCATGTCCCAAACATGGTCTTACACGGGCCTACACATCGATGCCATATCCTAGACATGGTCTTAC
47780021 ACGAAATCTCACGTCAGTGCAGATG
66 ACGAAATCTCACGTCAGTGCAGATG
* *
47780046 CCATGTCCCAAACATGGTCTTACACGGGACCT-CACATCGATGCTATGTCCTAGACATGGTCTTA
1 CCATGTCCCAAACATGGTCTTACACGGG-CCTACACATCGATGCCATATCCTAGACATGGTCTTA
47780110 CACGAAATCTCA
65 CACGAAATCTCA
47780122 TATCAACGCC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
90 64 0.97
91 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (90 bp):
CCATGTCCCAAACATGGTCTTACACGGGCCTACACATCGATGCCATATCCTAGACATGGTCTTAC
ACGAAATCTCACGTCAGTGCAGATG
Found at i:47780139 original size:42 final size:42
Alignment explanation
Indices: 47779995--47780153 Score: 138
Period size: 42 Copynumber: 3.6 Consensus size: 42
47779985 CTACATATGG
* *
47779995 ATGCCATATCCTAGATATGGTCTTATACGAAATCTCACGTCAGTGCA
1 ATGCCATATCCTAGACATGGTCTTACACGAAATCTCA--T-A-T-CA
* * * ** * * *
47780042 GATGCCATGTCCCAAACATGGTCTTACACGGGACCTCACATCG
1 -ATGCCATATCCTAGACATGGTCTTACACGAAATCTCATATCA
* *
47780085 ATGCTATGTCCTAGACATGGTCTTACACGAAATCTCATATCA
1 ATGCCATATCCTAGACATGGTCTTACACGAAATCTCATATCA
* *
47780127 ACGCCATATCCTAGATATGGTCTTACA
1 ATGCCATATCCTAGACATGGTCTTACA
47780154 TTAATTCACA
Statistics
Matches: 89, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 57 0.64
43 1 0.01
44 1 0.01
45 1 0.01
48 29 0.33
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCTAGACATGGTCTTACACGAAATCTCATATCA
Found at i:47780213 original size:48 final size:49
Alignment explanation
Indices: 47780129--47780254 Score: 116
Period size: 48 Copynumber: 2.6 Consensus size: 49
47780119 TCATATCAAC
* ** *
47780129 GCCATATCCTAGATATGGTCTTACAT-TAATTCACATACCGAGG-CTGAT
1 GCCATATCCCAGATATGGTCTTACATGGCATTCACATACCAAGGTC-GAT
* *
47780177 GCCATATCCCAGATATGGTCTTACAGTGGCA-T-ACATATCAATGTCGAT
1 GCCATATCCCAGATATGGTCTTACA-TGGCATTCACATACCAAGGTCGAT
* * *
47780225 GCCATGTCCCAAACATGGTCTTACACTGGC
1 GCCATATCCCAGATATGGTCTTACA-TGGC
47780255 TATCATATCA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
48 61 0.94
49 3 0.05
50 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
GCCATATCCCAGATATGGTCTTACATGGCATTCACATACCAAGGTCGAT
Found at i:47780262 original size:48 final size:49
Alignment explanation
Indices: 47780174--47780303 Score: 174
Period size: 48 Copynumber: 2.7 Consensus size: 49
47780164 TACCGAGGCT
* * * * ***
47780174 GATGCCATATCCCAGATATGGTCTTACAGTGGC-ATACATATCAATGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTATACATATCAACACC
47780222 GATGCCATGTCCCAAACATGGTCTTACACTGGCTAT-CATATCAACACC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTATACATATCAACACC
*
47780270 GATGCCATGTCCCAAACATGGTCTTACATTGGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCT
47780304 CTAATTAATC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 71 0.97
49 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTATACATATCAACACC
Found at i:47781246 original size:69 final size:67
Alignment explanation
Indices: 47781171--47781310 Score: 181
Period size: 67 Copynumber: 2.1 Consensus size: 67
47781161 TCACCAGATA
* * * *
47781171 CAGATATTGCGGCTAGGCCACCAGAACAAATATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
1 CAGATATTGCGACGAAGCCACCAGAAC--AGATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
47781236 CTAC
64 CTAC
* * * *
47781240 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACTAGATTGCAGCGAGGCT
1 CAGATATTGCGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
*
47781305 GC
66 AC
47781307 CAGA
1 CAGA
47781311 ATGCTTCCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 40 0.65
69 22 0.35
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
CAGATATTGCGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
AC
Found at i:47787549 original size:9 final size:9
Alignment explanation
Indices: 47787535--47787563 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
47787525 AAAGCCAAGC
47787535 AAATCGACT
1 AAATCGACT
47787544 AAATCGACT
1 AAATCGACT
47787553 AAATCGACT
1 AAATCGACT
47787562 AA
1 AA
47787564 TCGCCATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (9 bp):
AAATCGACT
Found at i:47795028 original size:15 final size:15
Alignment explanation
Indices: 47795010--47795066 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
47795000 TATCTGTTTT
47795010 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
47795025 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
47795040 ATTGAATTTATATTG
1 ATTGAATTTATATTG
47795055 ATTGAA-TTATAT
1 ATTGAATTTATAT
47795067 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:47795045 original size:30 final size:28
Alignment explanation
Indices: 47795006--47795064 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
47794996 TGAATATCTG
47795006 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
47795035 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
47795064 T
1 T
47795065 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:47795485 original size:21 final size:21
Alignment explanation
Indices: 47795450--47795545 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
47795440 AGGCACTTTA
47795450 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
47795473 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
47795494 TGTGTCGTATCAGGCATCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
47795515 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
47795536 TGTGTCGTAT
1 TGTGTCGTAT
47795546 ACTGATCAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
21 56 0.86
23 9 0.14
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:47795728 original size:18 final size:19
Alignment explanation
Indices: 47795707--47795747 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
47795697 AATGAAATGA
47795707 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
47795725 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
47795744 GAAA
1 GAAA
47795748 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:47798696 original size:47 final size:45
Alignment explanation
Indices: 47798628--47798843 Score: 126
Period size: 47 Copynumber: 4.7 Consensus size: 45
47798618 TATGAGGGCC
* *
47798628 AGTGTAAGCCTATTTCTGGGACATGGCATCGGCATCAAGACGAATGCT
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCATCAAGACG-A-GCT
* *
47798676 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATCAAGACG--AGCT
* * *
47798722 GGTGT---A-A-GTCTGGGACAT-GCATCGGC-TACGAGATGATAG-T
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCAT-CAAGACG--AGCT
* * * * *
47798762 CAGTGTAAGACCATGTCTAGGACATGGCATCGACATGAGATATGAGCT
1 -AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCA-AGACGAGCT
* * *
47798810 AGTGTAAGACCGTTTCTGGGACATGGCATTGGCA
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
47798844 CCTTACCCAG
Statistics
Matches: 134, Mismatches: 21, Indels: 27
0.74 0.12 0.15
Matches are distributed among these distances:
40 1 0.01
41 30 0.22
42 1 0.01
43 1 0.01
44 1 0.01
46 23 0.17
47 55 0.41
48 17 0.13
49 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCATCAAGACGAGCT
Found at i:47798770 original size:41 final size:41
Alignment explanation
Indices: 47798642--47798747 Score: 115
Period size: 46 Copynumber: 2.4 Consensus size: 41
47798632 TAAGCCTATT
* *
47798642 TCTGGGACATGGCATCGGCATCAAGACG-AATGCTAGTGTAAGACATG
1 TCTGGGACAT-GCATCGGCCTCAAGACGTAA-GCCAGTGT---A-A-G
*
47798689 TCTGGGACATGCATCGGCCTCAAGACGTAAGCCGGTGTAAG
1 TCTGGGACATGCATCGGCCTCAAGACGTAAGCCAGTGTAAG
47798730 TCTGGGACATGCATCGGC
1 TCTGGGACATGCATCGGC
47798748 TACGAGATGA
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
41 19 0.35
42 1 0.02
43 1 0.02
46 22 0.40
47 12 0.22
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (41 bp):
TCTGGGACATGCATCGGCCTCAAGACGTAAGCCAGTGTAAG
Found at i:47801746 original size:45 final size:45
Alignment explanation
Indices: 47801694--47801818 Score: 155
Period size: 45 Copynumber: 2.8 Consensus size: 45
47801684 TACGATGTTG
* *
47801694 ATGTCCCAGACATGGTCTTACAC-ATAACCACATATAGC-GATGCCA
1 ATGTCCCAGACGTGGTCTTACACGA-AAACACATATAGCAGA-GCCA
*
47801739 ATGTCCCAGACGTGGTCTTACACGAAAACACATATATCAGAGCCA
1 ATGTCCCAGACGTGGTCTTACACGAAAACACATATAGCAGAGCCA
** * *
47801784 ACATCCCAGACGTGGTCTTACTCGAAAATACATAT
1 ATGTCCCAGACGTGGTCTTACACGAAAACACATAT
47801819 CAAAATCCTA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
45 68 0.96
46 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (45 bp):
ATGTCCCAGACGTGGTCTTACACGAAAACACATATAGCAGAGCCA
Found at i:47804058 original size:27 final size:27
Alignment explanation
Indices: 47804021--47804117 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
47804011 TAAACTTCGA
* *
47804021 CAAA-CACATCTGCAAACATAATTCAC
1 CAAATCACATCTGCGAACATAGTTCAC
*
47804047 CAAATCACATCTGCGAACATAGTTCGC
1 CAAATCACATCTGCGAACATAGTTCAC
*
47804074 CAAATCGCATCTGCGAACATAGTT-AGC
1 CAAATCACATCTGCGAACATAGTTCA-C
*
47804101 CAAATCGCATCTGCGAA
1 CAAATCACATCTGCGAA
47804118 TACAGCTCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.06
27 60 0.94
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.21
Consensus pattern (27 bp):
CAAATCACATCTGCGAACATAGTTCAC
Found at i:47806409 original size:53 final size:53
Alignment explanation
Indices: 47806337--47806446 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
47806327 ACAACAAGGA
* *
47806337 GTTCTCCTTCTGTGATATTTCTACTTCACTTTAATCATCTAATGGTGACATAG
1 GTTCTCCTTCTGTGATATTTCTACTTCACTTTAATAATCTAATGGTAACATAG
47806390 GTTCTCCTTCTGTGATATTTCTACTTCACTTTAATAATCTAATGGTAACATAG
1 GTTCTCCTTCTGTGATATTTCTACTTCACTTTAATAATCTAATGGTAACATAG
47806443 GTTC
1 GTTC
47806447 ATACTAATTC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.44
Consensus pattern (53 bp):
GTTCTCCTTCTGTGATATTTCTACTTCACTTTAATAATCTAATGGTAACATAG
Found at i:47812294 original size:37 final size:37
Alignment explanation
Indices: 47812244--47812322 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
47812234 TTATTACGAA
* *
47812244 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
47812281 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
47812318 GTCTT
1 GTCTT
47812323 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:47812519 original size:47 final size:47
Alignment explanation
Indices: 47812441--47812608 Score: 246
Period size: 47 Copynumber: 3.6 Consensus size: 47
47812431 CCCTTCGGGA
* * * * * * *
47812441 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47812488 CCTGTCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47812535 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47812582 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
47812609 ACCAACCCTT
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47812950 original size:39 final size:40
Alignment explanation
Indices: 47812833--47813014 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
47812823 GCTACTCGTT
* * *
47812833 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
47812873 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
47812913 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
47812952 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
47812993 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
47813015 AGACATCATT
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 74 0.61
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:47812954 original size:79 final size:81
Alignment explanation
Indices: 47812833--47813014 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 81
47812823 GCTACTCGTT
* * *
47812833 CAAATGCCTTCGGGACATAGCCTGGTTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCG
* *
47812897 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
47812913 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
47812976 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
47812993 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
47813015 AGACATCATT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 53 0.61
80 30 0.34
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:47816667 original size:38 final size:38
Alignment explanation
Indices: 47816616--47816688 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
47816606 ATCATTTACT
*
47816616 ACACCGGCATTGAGCCTACTAGGCACTAAGCTTGATTA
1 ACACCAGCATTGAGCCTACTAGGCACTAAGCTTGATTA
* *
47816654 ACACCAGCATTGAGCCTGCTAGGCACTGAGCTTGA
1 ACACCAGCATTGAGCCTACTAGGCACTAAGCTTGA
47816689 ATAATACCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
ACACCAGCATTGAGCCTACTAGGCACTAAGCTTGATTA
Found at i:47829192 original size:33 final size:33
Alignment explanation
Indices: 47829150--47829218 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
47829140 TATGAAAACT
47829150 TAGTGTGTAATCCCTTATCAGTCGATCAGTATA
1 TAGTGTGTAATCCCTTATCAGTCGATCAGTATA
47829183 TAGTGTGTAATCCCTTATCAGTCGATCAGTATA
1 TAGTGTGTAATCCCTTATCAGTCGATCAGTATA
47829216 TAG
1 TAG
47829219 CATACAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (33 bp):
TAGTGTGTAATCCCTTATCAGTCGATCAGTATA
Found at i:47829468 original size:27 final size:27
Alignment explanation
Indices: 47829438--47829502 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
47829428 AGCGAAGCTG
47829438 CCAGTATCAATATATGTGGCAAAGCCA
1 CCAGTATCAATATATGTGGCAAAGCCA
* * **
47829465 CCAGTAACAGTATATGTGGTGAAGCCA
1 CCAGTATCAATATATGTGGCAAAGCCA
47829492 CCAGTAT-AATA
1 CCAGTATCAATA
47829503 CACTTTTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
CCAGTATCAATATATGTGGCAAAGCCA
Found at i:47829640 original size:26 final size:28
Alignment explanation
Indices: 47829603--47829656 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
47829593 ATCAAAGCAC
*
47829603 AAATCAGTCA-TTTACCCTCGAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
*
47829630 AAAT-AGTCATTTTACCCTATAGGGGTA
1 AAATCAGTCATTTTACCCTAGAGGGGTA
47829657 TTTTGGGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTAGAGGGGTA
Found at i:47833084 original size:79 final size:80
Alignment explanation
Indices: 47832985--47833205 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
47832975 CTCGTTCAAG
* * ** * *
47832985 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
47833048 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
47833064 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
47833129 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
47833144 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
47833206 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:47833136 original size:80 final size:80
Alignment explanation
Indices: 47833025--47833205 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
47833015 CTCATTCAAT
* * *
47833025 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
47833088 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
47833104 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
47833168 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
47833185 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
47833206 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:47833165 original size:40 final size:40
Alignment explanation
Indices: 47833022--47833205 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
47833012 TAACTCATTC
* *
47833022 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
47833062 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
47833102 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
47833142 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
47833183 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47833206 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:47840883 original size:42 final size:43
Alignment explanation
Indices: 47840829--47840930 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
47840819 TATTTACGTA
* * *
47840829 TAAGACCATGTCTGGGAC-ATCGCTATC-GTATTTGATTTCATG
1 TAAGACCCTGTCTGGGACAATCGC-ATCAATATTTGATTACATG
* *
47840871 TAAGACCCTGTCTAGGACAATGGCATCAATATTTGATTACATG
1 TAAGACCCTGTCTGGGACAATCGCATCAATATTTGATTACATG
*
47840914 TAAAACCAC-GTCTGGGA
1 TAAGACC-CTGTCTGGGA
47840931 TGTTGGCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 19 0.38
43 30 0.60
44 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (43 bp):
TAAGACCCTGTCTGGGACAATCGCATCAATATTTGATTACATG
Found at i:47842505 original size:15 final size:16
Alignment explanation
Indices: 47842478--47842507 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47842468 AGAGTACAAG
47842478 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
47842494 ATATGA-AATGTATA
1 ATATGAGAATGTATA
47842508 ATCTTTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:47846301 original size:8 final size:8
Alignment explanation
Indices: 47846288--47846335 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
47846278 CTTGTATGTT
47846288 TTATTATA
1 TTATTATA
47846296 TTATTA-A
1 TTATTATA
47846303 --ATTACTA
1 TTATTA-TA
47846310 -TATTATA
1 TTATTATA
*
47846317 TTAATATA
1 TTATTATA
47846325 TTATTATA
1 TTATTATA
47846333 TTA
1 TTA
47846336 ATTTCTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
5 4 0.12
7 4 0.12
8 26 0.76
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:47846313 original size:21 final size:21
Alignment explanation
Indices: 47846289--47846335 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
47846279 TTGTATGTTT
*
47846289 TATTATATTATTAAATTACTA
1 TATTATATTAATAAATTACTA
* *
47846310 TATTATATTAATATATTATTA
1 TATTATATTAATAAATTACTA
47846331 TATTA
1 TATTA
47846336 ATTTCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATATTAATAAATTACTA
Found at i:47848650 original size:40 final size:40
Alignment explanation
Indices: 47848606--47848765 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
47848596 CTCGATATAT
* *
47848606 TGTATATCCGGGTTAAATCCCGCTGGCATCGTGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
47848646 TGTATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * *
47848686 AGTATATCCGGGTTAAATCTCGCAGGCTTAGTGCTGGT-A
1 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * * * *
47848725 -CTATATCCGGGCCTAAAGTCCCGTAGGCTTTGTGCTTGTAA
1 TGTATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAA
47848766 CTGGATTCGG
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
38 10 0.10
39 5 0.05
40 88 0.85
41 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (40 bp):
TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:47853928 original size:46 final size:46
Alignment explanation
Indices: 47853808--47853937 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 46
47853798 TGTAACCTGC
* * * *
47853808 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGAT
* *** *
47853854 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-AT
47853901 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47853938 TGCCCAAATA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 36 0.52
47 33 0.48
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGAT
Found at i:47853956 original size:46 final size:45
Alignment explanation
Indices: 47853813--47853956 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
47853803 CCTGCCCATA
* * * *
47853813 AGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * *
47853861 --TCGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
47853906 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
47853952 AGTGA
1 AGTGA
47853957 CATGTCATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
43 4 0.05
46 38 0.50
47 30 0.39
48 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:47862972 original size:45 final size:48
Alignment explanation
Indices: 47862918--47863055 Score: 162
Period size: 47 Copynumber: 2.9 Consensus size: 48
47862908 ATGGTTGAGC
* *
47862918 ATCCGAACTCATAGAGTTGAGTCCGAGTTACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCGAACTAG
* * *
47862964 -TCCGAACTCGTTGAGTTGAGTCCGAGTT-CGTA-AGATG-TAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCGAACTA-G
47863009 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCGAAC
47863056 GCCCGAGCTT
Statistics
Matches: 75, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
44 3 0.04
45 27 0.36
47 28 0.37
49 3 0.04
50 4 0.05
51 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTACTTATGGATGCGAACTAG
Found at i:47863084 original size:93 final size:92
Alignment explanation
Indices: 47862916--47863085 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 92
47862906 GGATGGTTGA
* *
47862916 GCATCCGAACTCATAGAGTTGAGTCCGAGTTACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCATAGAGTTGAGTCCGAGTTACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
*
47862981 GAGTCCGAGTTCGTAAGATGTAACTAG
66 GACTCCGAGTTCGTAAGATGTAACTAG
* * * *
47863008 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCATAGAGTTGAGTCCGAGTT-ACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
47863073 TGACTCTGAGTTC
65 TGACTCCGAGTTC
47863086 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
92 29 0.42
93 40 0.58
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCATAGAGTTGAGTCCGAGTTACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GACTCCGAGTTCGTAAGATGTAACTAG
Found at i:47870051 original size:40 final size:40
Alignment explanation
Indices: 47869995--47870180 Score: 259
Period size: 40 Copynumber: 4.7 Consensus size: 40
47869985 GTATGATATT
* *
47869995 TGGAATTGTATTCGGGCTTAAAGACCCACAGGCTATATGT
1 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTATATGC
*
47870035 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTATATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTATATGC
*
47870075 TGGAATTGTATCTGGGCTTAAAGACCCACAGGCTATATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTATATGC
* * * *
47870115 TGGAATTGTATCCGGGCATAAAGATCCGCAGGCT-TCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTAT-ATGC
* *
47870155 TGGAATGGTATCCGGG-TTAAATACCC
1 TGGAATTGTATCCGGGCTTAAAGACCC
47870181 GTAAGCTTGT
Statistics
Matches: 131, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 8 0.06
40 123 0.94
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTATATGC
Found at i:47871356 original size:17 final size:17
Alignment explanation
Indices: 47871334--47871374 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
47871324 TTTCATACGG
47871334 GCTTACTAAGCTTTAGA
1 GCTTACTAAGCTTTAGA
*
47871351 GCTTACTAAGCTTTATA
1 GCTTACTAAGCTTTAGA
47871368 GCTTACT
1 GCTTACT
47871375 TTGTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (17 bp):
GCTTACTAAGCTTTAGA
Found at i:47877762 original size:14 final size:13
Alignment explanation
Indices: 47877743--47877781 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
47877733 CGTAATTTGG
47877743 TAAATAATATAAAA
1 TAAATAAT-TAAAA
47877757 TAAATAATTAAAA
1 TAAATAATTAAAA
*
47877770 CAAATAATTAAA
1 TAAATAATTAAA
47877782 GGCTATCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAATAATTAAAA
Found at i:47878014 original size:21 final size:21
Alignment explanation
Indices: 47877988--47878030 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
47877978 GAATATGTAT
*
47877988 GATTTTGGATGATTGATGATA
1 GATTTTGAATGATTGATGATA
* *
47878009 GATTTTGAATGGTTGTTGATA
1 GATTTTGAATGATTGATGATA
47878030 G
1 G
47878031 GTAAACAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (21 bp):
GATTTTGAATGATTGATGATA
Found at i:47882343 original size:30 final size:29
Alignment explanation
Indices: 47882307--47882372 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 29
47882297 GTATCGGAAT
47882307 CTTTGGCACT-AGATGTGCGATTTAAACTAG
1 CTTTGGCACTAAG-TGTGCGATTT-AACTAG
47882337 CTTTGGCACTAAGTGTGCGATTTAACTAG
1 CTTTGGCACTAAGTGTGCGATTTAACTAG
47882366 CTTTGGC
1 CTTTGGC
47882373 TACTTGAGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 13 0.37
30 20 0.57
31 2 0.06
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (29 bp):
CTTTGGCACTAAGTGTGCGATTTAACTAG
Found at i:47889579 original size:30 final size:29
Alignment explanation
Indices: 47889543--47889604 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 29
47889533 GTATCAGAAT
47889543 CTTTGGCACT-AGATGTGCGATTTAAACTAG
1 CTTTGGCACTAAG-TGTGCGATTT-AACTAG
47889573 CTTTGGCACTAAGTGTGCGATTTAACTAG
1 CTTTGGCACTAAGTGTGCGATTTAACTAG
47889602 CTT
1 CTT
47889605 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 9 0.29
30 20 0.65
31 2 0.06
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (29 bp):
CTTTGGCACTAAGTGTGCGATTTAACTAG
Found at i:47891979 original size:43 final size:42
Alignment explanation
Indices: 47891876--47891984 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 42
47891866 GGTGCAGGGG
* *
47891876 ACACACGGCCTAACCACATGCCCGTGTTACCTGGCCGTGTGTC
1 ACACACGGTCTAA-CACATGCCCGTGTTACCAGGCCGTGTGTC
* *
47891919 ACACACAGTCTCAACACACGCCCGTGTTACCAGGCCGTGTGTC
1 ACACACGGTCT-AACACATGCCCGTGTTACCAGGCCGTGTGTC
47891962 ACACACGGTCTAGACACATGCCC
1 ACACACGGTCTA-ACACATGCCC
47891985 ATGTGTCTGC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 1 0.02
43 55 0.95
44 2 0.03
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.18
Consensus pattern (42 bp):
ACACACGGTCTAACACATGCCCGTGTTACCAGGCCGTGTGTC
Found at i:47895889 original size:16 final size:15
Alignment explanation
Indices: 47895865--47895894 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47895855 AACTATTTTA
47895865 TTACAAATTTCACTC
1 TTACAAATTTCACTC
47895880 TTACATAATTTCACT
1 TTACA-AATTTCACT
47895895 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:47896224 original size:50 final size:49
Alignment explanation
Indices: 47896106--47896235 Score: 206
Period size: 50 Copynumber: 2.6 Consensus size: 49
47896096 CTATTACGCA
* *
47896106 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATATGATACACG
* *
47896155 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACAATATGATACACG
*
47896205 TAGTATCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
47896236 TCGAAGTTGT
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 32 0.43
50 43 0.57
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATATGATACACG
Found at i:47897711 original size:28 final size:28
Alignment explanation
Indices: 47897667--47897743 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
47897657 TAGAATAGAT
* * *
47897667 ATTGT-GACAGAGTCACCAGATACAGATA
1 ATTGTGGA-AGAGCCACCAGAAACAAATA
*
47897695 ATTGTGGAAGGGCCACCAGAAACAAATA
1 ATTGTGGAAGAGCCACCAGAAACAAATA
* *
47897723 TTTGTGGCAGAGCCACCAGAA
1 ATTGTGGAAGAGCCACCAGAA
47897744 CGCTTCCTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 39 0.95
29 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (28 bp):
ATTGTGGAAGAGCCACCAGAAACAAATA
Found at i:47898995 original size:15 final size:16
Alignment explanation
Indices: 47898964--47899011 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
47898954 TCGGCTAGAG
47898964 GAAAATAAGAAGAAGA
1 GAAAATAAGAAGAAGA
47898980 GAAAATAGATGAAGAGAGGA
1 GAAAATA-A-GAAGA-A-GA
*
47899000 GAAAAGAAGAAG
1 GAAAATAAGAAG
47899012 GGAAAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 7 0.26
17 1 0.04
18 9 0.33
19 2 0.07
20 8 0.30
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.06
Consensus pattern (16 bp):
GAAAATAAGAAGAAGA
Found at i:47899879 original size:12 final size:12
Alignment explanation
Indices: 47899862--47899892 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
47899852 AAACATACGT
47899862 AATAATAATAAA
1 AATAATAATAAA
*
47899874 AATAATAATAAC
1 AATAATAATAAA
47899886 AATAATA
1 AATAATA
47899893 TTCAAATTAT
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:47907884 original size:60 final size:60
Alignment explanation
Indices: 47907761--47907895 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 60
47907751 GAGTTAACTA
* *
47907761 GGCCTTAGCCCATATCAATATTAATCCGGGCCATAGCCCCTTGCAGTACCAGAGTATACTG
1 GGCC-TAGCCCATATCAATATTAATCCGGGCCATAGCCCATTACAGTACCAGAGTATACTG
* * * * * *
47907822 GGCCTAGCCCATGTCAGTATTAATCTGGGCCGTAGCCCTATTACAAGT-CGAGA-TATATTG
1 GGCCTAGCCCATATCAATATTAATCCGGGCCATAGCCC-ATTAC-AGTACCAGAGTATACTG
*
47907882 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
47907896 AACACAGTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 48 0.77
61 11 0.18
62 3 0.05
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATTAATCCGGGCCATAGCCCATTACAGTACCAGAGTATACTG
Found at i:47909009 original size:47 final size:47
Alignment explanation
Indices: 47908988--47909326 Score: 525
Period size: 47 Copynumber: 7.2 Consensus size: 47
47908978 TATACACTTC
**
47908988 CACATTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
47909035 CACATTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* *
47909082 CACATTCATCACATTGGTCATTCGGCCTTATCACATATTTGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* * * *
47909129 GACATTCATCACATTGGCCATTCGGCCTTATCACACATATGTATGGT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* *
47909176 CACATTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
47909223 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* ** * *
47909270 CACATTCATCACATTGGTCATTCTACCTTTTCACACATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
47909317 CACATTCATC
1 CACATTCATC
47909327 TCATAGAATC
Statistics
Matches: 269, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 269 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
Found at i:47909281 original size:25 final size:25
Alignment explanation
Indices: 47909252--47909326 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 25
47909242 ATTCGGCCTT
47909252 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
*
47909277 AT--CACAT-TGGTCA--TTCTACCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
*
47909299 TTCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
47909324 ATC
1 ATC
47909327 TCATAGAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 18
0.63 0.07 0.31
Matches are distributed among these distances:
22 5 0.14
23 12 0.32
24 12 0.32
25 8 0.22
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:47909324 original size:22 final size:22
Alignment explanation
Indices: 47909253--47909324 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 22
47909243 TTCGGCCTTA
47909253 TCACACATATGCATGTTCACAT
1 TCACACATATGCATGTTCACAT
*
47909275 TCATCACAT-TGGTCA--TTCTACCTTT
1 TCA-CACATAT-G-CATGTTC-A-C-AT
47909300 TCACACATATGCATGTTCACAT
1 TCACACATATGCATGTTCACAT
47909322 TCA
1 TCA
47909325 TCTCATAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
22 11 0.28
23 10 0.26
24 10 0.26
25 8 0.21
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (22 bp):
TCACACATATGCATGTTCACAT
Found at i:47920266 original size:12 final size:13
Alignment explanation
Indices: 47920249--47920286 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
47920239 CTCCTGGAAT
47920249 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
47920261 ATTAAGAACACATA
1 ATTAAGAACA-AGA
47920275 ATTAAGAACAAG
1 ATTAAGAACAAG
47920287 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:47923060 original size:46 final size:46
Alignment explanation
Indices: 47922924--47923135 Score: 184
Period size: 46 Copynumber: 4.6 Consensus size: 46
47922914 GCTATTGTGA
* * * * * *
47922924 GCTAGTGTAAGACATGTCTGGGACATTCATCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGT
* * *
47922970 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGT
*
47923018 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGACGTAAGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG--AGT
* * * *
47923066 --TAGTGTAAGACATATCTGGGACATGCATCAG-CTACGAGATGTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGT
*
47923110 -C-AGTGTATGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
47923136 GCATTGGCAC
Statistics
Matches: 138, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 60 0.43
47 27 0.20
48 24 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGT
Found at i:47924298 original size:30 final size:31
Alignment explanation
Indices: 47924222--47924304 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
47924212 TCAGTCTCAA
47924222 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
47924252 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
47924283 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
47924305 ACTGTAAGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:47924558 original size:25 final size:25
Alignment explanation
Indices: 47924524--47924593 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
47924514 CTCTTTTAAT
47924524 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
47924549 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
47924574 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
47924594 AGCACTTCCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:47925464 original size:27 final size:27
Alignment explanation
Indices: 47925405--47925479 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
47925395 CATATTCGTT
47925405 ATTTTACCATACAGGGGTATTACAGTC
1 ATTTTACCATACAGGGGTATTACAGTC
* * *
47925432 ACTTTACCCTACAGGGGCT-TTACGGTC
1 ATTTTACCATACAGGGG-TATTACAGTC
* *
47925459 TTTTTACC-TATTAGGGGTATT
1 ATTTTACCATA-CAGGGGTATT
47925480 CTCTACAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACAGTC
Found at i:47925528 original size:27 final size:27
Alignment explanation
Indices: 47925498--47925551 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
47925488 GGGTGTTTTG
47925498 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* * ** *
47925525 GTAATTTTGTAAACCAATGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
47925552 ATTTTTTTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:47925559 original size:27 final size:27
Alignment explanation
Indices: 47925508--47925604 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 27
47925498 GTAAATCTAC
*
47925508 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAATAATTTTGT
* **
47925535 AAACCAATGGTATTTCAATTTTTTTAG-
1 AAACCAAGGGTATTTCAATAATTTT-GT
* **
47925562 AAAGTCAAGGGTATTTCTGTAATTTTGT
1 AAA-CCAAGGGTATTTCAATAATTTTGT
* *
47925590 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
47925605 TGGTAATTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 36 0.64
28 20 0.36
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAATAATTTTGT
Found at i:47925610 original size:27 final size:27
Alignment explanation
Indices: 47925570--47925726 Score: 133
Period size: 27 Copynumber: 5.8 Consensus size: 27
47925560 AGAAAGTCAA
**
47925570 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
47925597 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
** *
47925623 AGGGTATTTCAGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
47925651 TGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* **
47925678 GGGTATTTTGGTAATTCTATCTTA-TAG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* *
47925705 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
47925727 TCGAGGGTAA
Statistics
Matches: 104, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.03
27 97 0.93
28 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:47925615 original size:55 final size:54
Alignment explanation
Indices: 47925505--47925640 Score: 146
Period size: 55 Copynumber: 2.5 Consensus size: 54
47925495 TTGGTAAATC
* * **
47925505 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCAATTTTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCAATAATTT
* * * * ***
47925559 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCAATAATTT
**
47925614 TACAAATTGAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
47925641 CACAAACTAG
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
54 23 0.35
55 43 0.65
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCAATAATTT
Found at i:47925827 original size:27 final size:27
Alignment explanation
Indices: 47925725--47925816 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
47925715 GTAATTTCAC
** * *
47925725 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
47925752 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
*
47925779 AATCAAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
47925806 AATCGAGGGTA
1 AATCGAGGGTA
47925817 CTCTGGTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Done.