Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 184 of 187
Found at i:56539636 original size:15 final size:14
Alignment explanation
Indices: 56539616--56539649 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
56539606 CTGTTTTTAT
*
56539616 TTTATTTTATGTTTG
1 TTTATTTTAT-TTTC
56539631 TTTATTTTATTTTC
1 TTTATTTTATTTTC
56539645 TTTAT
1 TTTAT
56539650 CAACTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTATTTTATTTTC
Found at i:56541533 original size:46 final size:46
Alignment explanation
Indices: 56541470--56541719 Score: 272
Period size: 46 Copynumber: 5.5 Consensus size: 46
56541460 TCAAACAAAG
56541470 AAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
1 AAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
* * * * *
56541516 ATGACCATAGTTCAAAGAAACTATGGTATCATGACAGAAAATGAAT
1 AAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
**
56541562 -AGCACCATAGTTGAAAGACACTATGGCAACATGATGGAAAATGAAT
1 AAG-ACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
* * **
56541608 AAGACCATAGTTGAAAGACACAATGGAAACACAAC-GAAAAATGAAT
1 AAGACCATAGTTGAAAGACACTATGGCAACATGACAG-AAAATGAAT
** * * * * **
56541654 AAGGTCATGGTTGAAAGACACTATGGCACCAAGTC-GCGAATGAAT
1 AAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
* *
56541699 AAGAACATGGTTGAAAGACAC
1 AAGACCATAGTTGAAAGACAC
56541720 GATGACATCA
Statistics
Matches: 171, Mismatches: 30, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
45 28 0.16
46 141 0.82
47 2 0.01
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (46 bp):
AAGACCATAGTTGAAAGACACTATGGCAACATGACAGAAAATGAAT
Found at i:56541813 original size:31 final size:31
Alignment explanation
Indices: 56541775--56541837 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
56541765 TGAGGTATAT
56541775 ATCATAAGTATGAATACGAGTTGAACATTTG
1 ATCATAAGTATGAATACGAGTTGAACATTTG
56541806 ATCATAAGTATGAATACGAGTTGAACATTTG
1 ATCATAAGTATGAATACGAGTTGAACATTTG
56541837 A
1 A
56541838 CTAGTATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.32
Consensus pattern (31 bp):
ATCATAAGTATGAATACGAGTTGAACATTTG
Found at i:56544327 original size:16 final size:17
Alignment explanation
Indices: 56544294--56544330 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
56544284 TAAACAGCCG
56544294 ATTTTTGTTTGATGTTT
1 ATTTTTGTTTGATGTTT
*
56544311 ATTTTTGTTTG-TTTTT
1 ATTTTTGTTTGATGTTT
56544327 ATTT
1 ATTT
56544331 CTTAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.76
Consensus pattern (17 bp):
ATTTTTGTTTGATGTTT
Found at i:56544484 original size:11 final size:11
Alignment explanation
Indices: 56544468--56544493 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56544458 TTAGAGGATA
56544468 ATTCATCTTCT
1 ATTCATCTTCT
56544479 ATTCATCTTCT
1 ATTCATCTTCT
56544490 ATTC
1 ATTC
56544494 GGGCATTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.27, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTCATCTTCT
Found at i:56549338 original size:50 final size:50
Alignment explanation
Indices: 56549196--56549390 Score: 162
Period size: 50 Copynumber: 3.9 Consensus size: 50
56549186 AATAATAACA
* ** * * *
56549196 TGCCAAAGG-CATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCC-AAGGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATAT-CGG
* * * * * * **
56549245 TGCCAATGTCATATCCCAGATATGGGCTTACATGGGAGTTCTCATATCGG
1 TGCCAAGGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* * * * *
56549295 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATATTGG
1 TGCCAAGGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
* *
56549345 TGCCAAGGCCATGTCCCAGACATGGTCTTCCATGGGACCTCTCATA
1 TGCCAAGGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATA
56549391 ACCTCAATAA
Statistics
Matches: 117, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
48 4 0.03
49 34 0.29
50 79 0.68
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (50 bp):
TGCCAAGGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGG
Found at i:56558839 original size:18 final size:18
Alignment explanation
Indices: 56558816--56558857 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
56558806 ACTATGAAAT
56558816 TGATTTTCTTGAAAACAC
1 TGATTTTCTTGAAAACAC
*
56558834 TGATTTTCTTGAAAACAT
1 TGATTTTCTTGAAAACAC
56558852 TGATTT
1 TGATTT
56558858 AATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (18 bp):
TGATTTTCTTGAAAACAC
Found at i:56563916 original size:14 final size:14
Alignment explanation
Indices: 56563897--56563941 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
56563887 AAATCAATAC
56563897 ATTAAGACTAATGT
1 ATTAAGACTAATGT
*
56563911 ATTAAGAACAATAATGC
1 ATTAAG-AC--TAATGT
56563928 ATTAAGACTAATGT
1 ATTAAGACTAATGT
56563942 GTAGTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.42
15 2 0.08
16 2 0.08
17 11 0.42
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (14 bp):
ATTAAGACTAATGT
Found at i:56566405 original size:21 final size:21
Alignment explanation
Indices: 56566379--56566442 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
56566369 TTTGGGTGGA
*
56566379 TCAGCTCTTTTGAGCTTTTGT
1 TCAGCTCTTTTGAGCTTCTGT
* *
56566400 TTAGCTCTTTTGTGCTTCTGT
1 TCAGCTCTTTTGAGCTTCTGT
**
56566421 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTTTGAGCTTCTGT
56566442 T
1 T
56566443 GGCATGTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.09, C:0.22, G:0.19, T:0.50
Consensus pattern (21 bp):
TCAGCTCTTTTGAGCTTCTGT
Found at i:56572258 original size:80 final size:79
Alignment explanation
Indices: 56572174--56572345 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
56572164 GGACTAAGAT
*
56572174 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
56572238 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
56572254 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
56572319 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
56572333 CCGAAGGCATTTG
1 CCGAAGGCATTTG
56572346 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:56572325 original size:39 final size:39
Alignment explanation
Indices: 56572121--56572343 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
56572111 TTGAATGCTG
* * * * *
56572121 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
56572161 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
56572200 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
56572241 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
56572281 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
56572320 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56572344 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:56572363 original size:79 final size:80
Alignment explanation
Indices: 56572201--56572378 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
56572191 AGATACAAAT
* * * *
56572201 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
56572266 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
56572281 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
56572345 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
56572360 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56572379 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:56581495 original size:40 final size:40
Alignment explanation
Indices: 56581411--56581595 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 40
56581401 TTGAATGCTG
* * * *
56581411 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAA
* *
56581451 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAA
* * *
56581491 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* * * *
56581531 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
* *
56581570 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56581596 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.28
40 81 0.66
41 8 0.07
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAA
Found at i:56581613 original size:79 final size:80
Alignment explanation
Indices: 56581464--56581614 Score: 178
Period size: 79 Copynumber: 1.9 Consensus size: 80
56581454 GGACTAAGAT
* ** * ** ** *
56581464 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
56581529 AATCCGGGTTATGTC
66 AATCCGGGTTATGTC
* * *
56581544 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
56581608 TATCCGG
66 AATCCGG
56581615 TTAAATTCCG
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
79 49 0.84
80 9 0.16
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTATGTC
Found at i:56585767 original size:27 final size:25
Alignment explanation
Indices: 56585717--56585767 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
56585707 ACTTGGCAAG
*
56585717 AGAAAAATCAAGAGAAATTCTTAAA
1 AGAAAAATCAAGAGAAATTATTAAA
56585742 AGAAAAACTCAA-AGAAAATTTATTAA
1 AGAAAAA-TCAAGAG-AAA-TTATTAA
56585768 GTTAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 9 0.41
26 7 0.32
27 6 0.27
ACGTcount: A:0.61, C:0.08, G:0.10, T:0.22
Consensus pattern (25 bp):
AGAAAAATCAAGAGAAATTATTAAA
Found at i:56585992 original size:8 final size:8
Alignment explanation
Indices: 56585979--56586003 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
56585969 TAGGAATTTC
56585979 AAATAATA
1 AAATAATA
56585987 AAATAATA
1 AAATAATA
56585995 AAATAATA
1 AAATAATA
56586003 A
1 A
56586004 GAGCTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:56587119 original size:6 final size:6
Alignment explanation
Indices: 56587093--56587151 Score: 91
Period size: 6 Copynumber: 9.8 Consensus size: 6
56587083 CCCTCGTACC
* * *
56587093 CATCTT CATCTC CACCCT CATCTT CATCTT CATCTT CATCTT CATCTT
1 CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT
56587141 CATCTT CATCT
1 CATCTT CATCT
56587152 CCACCCCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.44
Consensus pattern (6 bp):
CATCTT
Found at i:56587170 original size:24 final size:23
Alignment explanation
Indices: 56587093--56587178 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 23
56587083 CCCTCGTACC
56587093 CATCTTCATCTCCACCCTCATCTT
1 CATCTTCATCTCCACCC-CATCTT
* **
56587117 CATCTTCATCTTCATCTTCATCTT
1 CATCTTCATCTCCA-CCCCATCTT
*
56587141 CATCTTCATCTCCACCCCAGTTTT
1 CATCTTCATCTCCACCCCA-TCTT
* *
56587165 CGTCTTCGTCTCCA
1 CATCTTCATCTCCA
56587179 TCGCCTTCAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
23 3 0.06
24 47 0.92
25 1 0.02
ACGTcount: A:0.15, C:0.41, G:0.03, T:0.41
Consensus pattern (23 bp):
CATCTTCATCTCCACCCCATCTT
Found at i:56587367 original size:12 final size:12
Alignment explanation
Indices: 56587350--56587379 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
56587340 TGGATACGTT
56587350 GGCATTGATGTG
1 GGCATTGATGTG
*
56587362 GGCATTGATGTT
1 GGCATTGATGTG
56587374 GGCATT
1 GGCATT
56587380 AATGACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.37, T:0.37
Consensus pattern (12 bp):
GGCATTGATGTG
Found at i:56592082 original size:10 final size:10
Alignment explanation
Indices: 56592067--56592092 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
56592057 ATCGACAAAA
56592067 TAAAATAATT
1 TAAAATAATT
56592077 TAAAATAATT
1 TAAAATAATT
56592087 TAAAAT
1 TAAAAT
56592093 TTTAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATAATT
Found at i:56592334 original size:18 final size:18
Alignment explanation
Indices: 56592311--56592353 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
56592301 AAACCTAGAG
56592311 AGAGTTGAAAGAATTGAA
1 AGAGTTGAAAGAATTGAA
* *
56592329 AGAGTTGAGAGAATTGAG
1 AGAGTTGAAAGAATTGAA
56592347 AGAGTTG
1 AGAGTTG
56592354 GATTTAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (18 bp):
AGAGTTGAAAGAATTGAA
Found at i:56599043 original size:198 final size:199
Alignment explanation
Indices: 56598552--56599147 Score: 1061
Period size: 198 Copynumber: 3.0 Consensus size: 199
56598542 AAAAAGGGGA
*
56598552 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAGGTAAGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
* * * *
56598617 TTTTGGTTAACAAATTTTCCATCCTCATTCTTTTCCTATCCTTTGTACATAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
* *
56598682 TGGAATTGTAAGATAATGTGTCAGTGAACATAATCTCTTTT-GGGATGCCCTTTCCAAGTTTTTT
131 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGG-TGCCCTTTTCAAGTTTTTT
56598746 CTTGT
195 CTTGT
56598751 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
56598816 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
56598881 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGGTGCCCTTTTCAAG-TTTTTC
131 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGGTGCCCTTTTCAAGTTTTTTC
56598945 TTGT
196 TTGT
*
56598949 GGATTAAAAATTTGTCAATCTAATGCTTAAGCGACAAAGTAAGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
* *
56599014 TTTTGATTAACAAATTTTCCATTCTCACTCTTTTCCTGTCCTTTGTCCCTAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
* *
56599079 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGATGCCTTTTTCAAGTTTTTTC
131 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGGTGCCCTTTTCAAGTTTTTTC
56599144 TTGT
196 TTGT
56599148 TGATAATTAG
Statistics
Matches: 383, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
198 193 0.50
199 187 0.49
200 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (199 bp):
GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGGTGCCCTTTTCAAGTTTTTTC
TTGT
Found at i:56600794 original size:9 final size:9
Alignment explanation
Indices: 56600780--56600810 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56600770 GTTAAACGAA
56600780 TCGAGTTAT
1 TCGAGTTAT
*
56600789 TCGAGTTAA
1 TCGAGTTAT
56600798 TCGAGTTAT
1 TCGAGTTAT
56600807 TCGA
1 TCGA
56600811 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:56600885 original size:18 final size:18
Alignment explanation
Indices: 56600864--56600900 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
56600854 TGAGTTTTCG
56600864 AATTCGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
*
56600882 AATTCGAATAATTCAAAT
1 AATTCGAATAACTCAAAT
56600900 A
1 A
56600901 TCAAAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCGAATAACTCAAAT
Found at i:56600983 original size:30 final size:30
Alignment explanation
Indices: 56600951--56601008 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
56600941 ACCTTTTTAC
*
56600951 TTTTCCCTCAAAACTTTTACTCCTTCCCACT
1 TTTTCCC-CAAAACTTTTACTCCCTCCCACT
56600982 TTTTCCCCAAAACTTTTACTCCCTCCC
1 TTTTCCCCAAAACTTTTACTCCCTCCC
56601009 TTCCCAATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTCCCACT
Found at i:56601814 original size:5 final size:5
Alignment explanation
Indices: 56601804--56601831 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
56601794 GAACAAATAT
56601804 ATTCG ATTCG ATTCG ATTCG ATTCG ATT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATT
56601832 TCCATCTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (5 bp):
ATTCG
Found at i:56601933 original size:5 final size:5
Alignment explanation
Indices: 56601923--56601949 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
56601913 AAAATTTTCA
56601923 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
56601950 CGAATGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:56602170 original size:18 final size:17
Alignment explanation
Indices: 56602136--56602169 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
56602126 TCATATTTAC
56602136 TTTTTAACATTTATATA
1 TTTTTAACATTTATATA
*
56602153 TTTTTAAC-TTTGTATA
1 TTTTTAACATTTATATA
56602169 T
1 T
56602170 AAAGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTTAACATTTATATA
Found at i:56603872 original size:12 final size:12
Alignment explanation
Indices: 56603836--56603884 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
56603826 TTTTTCATCA
*
56603836 ATTAATT-TAAT
1 ATTAATTATATT
56603847 ATT-ATTAT-TT
1 ATTAATTATATT
56603857 ATTAATTATATT
1 ATTAATTATATT
* *
56603869 ATTATTTGTATT
1 ATTAATTATATT
56603881 ATTA
1 ATTA
56603885 TTAAACTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 7 0.22
11 9 0.28
12 16 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (12 bp):
ATTAATTATATT
Found at i:56608851 original size:25 final size:25
Alignment explanation
Indices: 56608790--56608854 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
56608780 TCGAGCCATA
*
56608790 TAACGGGAAGCCCATGTGAGCTATG
1 TAACGGGAAGCTCATGTGAGCTATG
56608815 TAACGGGAAGCTCATGTGAGCTATG
1 TAACGGGAAGCTCATGTGAGCTATG
56608840 TAACGGGAAGCTCAT
1 TAACGGGAAGCTCAT
56608855 AAGAGTCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (25 bp):
TAACGGGAAGCTCATGTGAGCTATG
Found at i:56608899 original size:24 final size:23
Alignment explanation
Indices: 56608788--56608900 Score: 93
Period size: 25 Copynumber: 4.7 Consensus size: 23
56608778 TCTCGAGCCA
* *
56608788 TATAACGGGAAGCCCATGTGAGC
1 TATAACGGGAAGCTCATGCGAGC
*
56608811 TATGTAACGGGAAGCTCATGTGAGC
1 TA--TAACGGGAAGCTCATGCGAGC
**
56608836 TATGTAACGGGAAGCTCATAAGAG-
1 TA--TAACGGGAAGCTCATGCGAGC
*
56608860 TCATAATCAGGAAGCTCATGCGAGCC
1 T-ATAA-CGGGAAGCTCATGCGAG-C
*
56608886 TATAACGGGTAGCTC
1 TATAACGGGAAGCTC
56608901 CGAAGAGCCA
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
23 5 0.07
24 23 0.30
25 47 0.62
26 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.21
Consensus pattern (23 bp):
TATAACGGGAAGCTCATGCGAGC
Found at i:56609024 original size:26 final size:26
Alignment explanation
Indices: 56608964--56609025 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
56608954 GGGCCATATG
*
56608964 AGGAAGCTCACAAAGAGCCTTTAATC
1 AGGAAGCTCACAAAGAGCCTATAATC
* *
56608990 GGGAAGCTCACGAAGAGCCATATAA-C
1 AGGAAGCTCACAAAGAGCC-TATAATC
*
56609016 AGGACGCTCA
1 AGGAAGCTCA
56609026 TAAGAGCTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
AGGAAGCTCACAAAGAGCCTATAATC
Found at i:56613555 original size:86 final size:87
Alignment explanation
Indices: 56613426--56613593 Score: 284
Period size: 86 Copynumber: 1.9 Consensus size: 87
56613416 ACTTTTTCAG
* * *
56613426 AAAAAGCAATTAAGCCCTTACTTTTTTTTGCACTCATTTGGGTACTTGAACTTTCAAAATGCATA
1 AAAAAACAATTAAGCCCTCACTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATA
56613491 AAAAAAAACCCTCAAACCTTTA
66 AAAAAAAACCCTCAAACCTTTA
* *
56613513 AAAAAACAATTAAGCCC-CCCTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAGATGCATA
1 AAAAAACAATTAAGCCCTCACTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATA
56613577 AAAAAAAACCCTCAAAC
66 AAAAAAAACCCTCAAAC
56613594 TTTTTCAGAA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 60 0.79
87 16 0.21
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.30
Consensus pattern (87 bp):
AAAAAACAATTAAGCCCTCACTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATA
AAAAAAAACCCTCAAACCTTTA
Found at i:56613701 original size:9 final size:8
Alignment explanation
Indices: 56613677--56613740 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
56613667 AAATTTTAAT
*
56613677 ATTAAAAT
1 ATTAAAAA
56613685 ATTAAAAA
1 ATTAAAAA
56613693 ATTAGAAAA
1 ATTA-AAAA
56613702 ATTAAAAAA
1 ATT-AAAAA
56613711 ATTGTAAAAAA
1 A-T-T-AAAAA
*
56613722 ATAAAAAA
1 ATTAAAAA
*
56613730 ATTATAAA
1 ATTAAAAA
56613738 ATT
1 ATT
56613741 TTATAAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
8 25 0.52
9 12 0.25
10 3 0.06
11 8 0.17
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (8 bp):
ATTAAAAA
Found at i:56613731 original size:19 final size:19
Alignment explanation
Indices: 56613688--56613738 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
56613678 TTAAAATATT
* *
56613688 AAAAAATTA-GAAAAATTA
1 AAAAAATTATAAAAAAATA
*
56613706 AAAAAATTGTAAAAAAATA
1 AAAAAATTATAAAAAAATA
56613725 AAAAAATTATAAAA
1 AAAAAATTATAAAA
56613739 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (19 bp):
AAAAAATTATAAAAAAATA
Found at i:56613744 original size:10 final size:10
Alignment explanation
Indices: 56613731--56613793 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 10
56613721 AATAAAAAAA
56613731 TTATAAAATT
1 TTATAAAATT
*
56613741 TTATAAAATA
1 TTATAAAATT
56613751 TTA-AAAA-T
1 TTATAAAATT
*
56613759 ATATAGAAA--
1 TTATA-AAATT
56613768 -TATAAAATT
1 TTATAAAATT
*
56613777 TTATAAAACT
1 TTATAAAATT
56613787 TTATAAA
1 TTATAAA
56613794 GTTGTAAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
7 3 0.07
8 6 0.14
9 5 0.11
10 30 0.68
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (10 bp):
TTATAAAATT
Found at i:56613748 original size:18 final size:17
Alignment explanation
Indices: 56613727--56613784 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
56613717 AAAAAATAAA
56613727 AAAATTATAAAATTTTAT
1 AAAA-TATAAAATTTTAT
* *
56613745 AAAATATTAAAAATATAT
1 AAAATA-TAAAATTTTAT
56613763 AGAAATATAAAATTTTAT
1 A-AAATATAAAATTTTAT
56613781 AAAA
1 AAAA
56613785 CTTTATAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.15
18 24 0.71
19 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAAATATAAAATTTTAT
Found at i:56613748 original size:28 final size:28
Alignment explanation
Indices: 56613679--56613757 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
56613669 ATTTTAATAT
* * *
56613679 TAAAATATTAAAAAATTAGAAAAATTAA
1 TAAAATTTTAAAAAAATAAAAAAATTAA
* *
56613707 AAAAATTGTAAAAAAATAAAAAAATT-A
1 TAAAATTTTAAAAAAATAAAAAAATTAA
* *
56613734 TAAAATTTTATAAAATATTAAAAA
1 TAAAATTTTA-AAAAAATAAAAAA
56613758 TATATAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 9 0.22
28 32 0.78
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (28 bp):
TAAAATTTTAAAAAAATAAAAAAATTAA
Found at i:56613757 original size:36 final size:36
Alignment explanation
Indices: 56613674--56613784 Score: 109
Period size: 37 Copynumber: 3.1 Consensus size: 36
56613664 ATTAAATTTT
* * * * * *
56613674 AATATTAAAATATTAAAAAATTAGAAAAATTAAAAA
1 AATATTAAAAAATAAAAAAATTATAAAATTTTATAA
56613710 AAT-TGTAAAAAAATAAAAAAATTATAAAATTTTATAA
1 AATAT-T-AAAAAATAAAAAAATTATAAAATTTTATAA
* *
56613747 AATATTAAAAATATATAGAAA-TATAAAATTTTATAA
1 AATATTAAAAA-ATAAAAAAATTATAAAATTTTATAA
56613783 AA
1 AA
56613785 CTTTATAAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
35 1 0.02
36 26 0.41
37 35 0.56
38 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (36 bp):
AATATTAAAAAATAAAAAAATTATAAAATTTTATAA
Found at i:56613899 original size:11 final size:11
Alignment explanation
Indices: 56613879--56613911 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
56613869 AGAAGCATTT
56613879 TATAATTTTTA
1 TATAATTTTTA
*
56613890 TATAACTTTTA
1 TATAATTTTTA
56613901 T-TAATTTTTA
1 TATAATTTTTA
56613911 T
1 T
56613912 TTTTTATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TATAATTTTTA
Found at i:56614312 original size:87 final size:86
Alignment explanation
Indices: 56614161--56614326 Score: 228
Period size: 87 Copynumber: 1.9 Consensus size: 86
56614151 AGAGTAGGGG
* *
56614161 CTTAATTGCTGTTTTGAAAATTTTGAGGCTTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATT
1 CTTAATTGCTGTTTTGAAAATTTTGAGGCCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAATT
56614226 GAGTG-AAA-AAAAGCAAGGA
66 GAGTGCAAACAAAAGCAAGGA
* * * * *
56614245 CTTAATTGCTTTTTTTGAAGAATTTTGGGGGCCTTTTTGATGCATTTTAAAAGTTGAAGTGCTCA
1 CTTAATTGC-TGTTTTGAA-AATTTT-GAGGCCTTTTTGATGCATTTTAAAAGTTCAAGTACCCA
56614310 ATTGAGTGCAAACAAAA
63 ATTGAGTGCAAACAAAA
56614327 AAGGAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 9 0.13
85 8 0.11
86 6 0.09
87 40 0.57
88 3 0.04
89 4 0.06
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (86 bp):
CTTAATTGCTGTTTTGAAAATTTTGAGGCCTTTTTGATGCATTTTAAAAGTTCAAGTACCCAATT
GAGTGCAAACAAAAGCAAGGA
Found at i:56622769 original size:14 final size:14
Alignment explanation
Indices: 56622750--56622776 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56622740 GTGGTCCAGT
56622750 TGAACTGAACCGAG
1 TGAACTGAACCGAG
56622764 TGAACTGAACCGA
1 TGAACTGAACCGA
56622777 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:56631517 original size:19 final size:18
Alignment explanation
Indices: 56631465--56631521 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
56631455 AAGAGGATGA
*
56631465 TTGAATA-TTTTTTATTT
1 TTGAATACTTTTTAATTT
*
56631482 TTGAAAACTTGTATTAATTT
1 TTGAATACTT-T-TTAATTT
56631502 TTGAATACTTCTTTAATTT
1 TTGAATACTT-TTTAATTT
56631521 T
1 T
56631522 AACTTTGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 2 0.06
19 9 0.27
20 16 0.48
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (18 bp):
TTGAATACTTTTTAATTT
Found at i:56635104 original size:42 final size:42
Alignment explanation
Indices: 56635045--56635181 Score: 148
Period size: 42 Copynumber: 3.5 Consensus size: 42
56635035 ACCCCTTGGG
*
56635045 GGAATCTGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
* * * *
56635087 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAGT-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
*
56635120 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
*
56635162 GGAATCAGCACCTAGCAACC
1 GGAATCAGCACTTAGCAACC
56635182 ACCAATAATT
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
33 17 0.23
34 5 0.07
35 2 0.03
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 5 0.07
42 35 0.47
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
Found at i:56635166 original size:75 final size:75
Alignment explanation
Indices: 56635043--56635215 Score: 301
Period size: 75 Copynumber: 2.3 Consensus size: 75
56635033 GAACCCCTTG
* *
56635043 GGGGAATCTGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
*
56635108 CCAATGAGTC
66 CCAATAAGTC
*
56635118 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
*
56635183 CCAATAATTC
66 CCAATAAGTC
56635193 GGGGAATCAGCACTTAGCAACCC
1 GGGGAATCAGCACTTAGCAACCC
56635216 ATTGGGGGAA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 92 1.00
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
CCAATAAGTC
Found at i:56642602 original size:33 final size:32
Alignment explanation
Indices: 56642560--56642840 Score: 126
Period size: 27 Copynumber: 8.5 Consensus size: 32
56642550 ATACGGTGGG
56642560 ATCAGCACTTAGCAACCACCAATGAGTTGGGGA
1 ATCAGCACTTAGCAACCACCAATGA-TTGGGGA
56642593 ATCAGCACTTAGCAACC-CC-----TTGGGGAA
1 ATCAGCACTTAGCAACCACCAATGATTGGGG-A
*
56642620 ATCAGCACTTAGCAACC-CC--T--TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTGGGGA
* * *
56642647 ATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGA
1 ATCAGCACTTAGCAA-CCAC--CA-A--T--GAT-TGG-GGA
* *
56642689 ATCAGCATTTAGCAACCACCAATGAGTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGA-TTGGGGA
* *
56642722 ATCAGCACTTAGCAACCCCTTGCACATTTAAAATATGGTGGA
1 ATCAGCACTTAGCAACCAC---CA-A--T--GAT-TGG-GGA
*
56642764 ATCAGCACCTAGCAACCACCAATGATTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGATT-GGGGA
* *
56642797 ATTAGCACTTAGCAACC-CC--T--TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTGGGGA
*
56642824 ACCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
56642841 CCCTTTATAT
Statistics
Matches: 202, Mismatches: 17, Indels: 64
0.71 0.06 0.23
Matches are distributed among these distances:
26 6 0.03
27 56 0.28
28 8 0.04
29 1 0.00
30 1 0.00
31 1 0.00
32 4 0.02
33 56 0.28
34 8 0.04
35 1 0.00
36 5 0.02
37 1 0.00
38 2 0.01
39 5 0.02
40 2 0.01
41 8 0.04
42 37 0.18
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (32 bp):
ATCAGCACTTAGCAACCACCAATGATTGGGGA
Found at i:56642626 original size:27 final size:26
Alignment explanation
Indices: 56642586--56642665 Score: 142
Period size: 27 Copynumber: 3.0 Consensus size: 26
56642576 CACCAATGAG
56642586 TTGGGGAATCAGCACTTAGCAACCCC
1 TTGGGGAATCAGCACTTAGCAACCCC
56642612 TTGGGGAAATCAGCACTTAGCAACCCC
1 TTGGGG-AATCAGCACTTAGCAACCCC
56642639 TTGGGGGAATCAGCACTTAGCAACCCC
1 TT-GGGGAATCAGCACTTAGCAACCCC
56642666 CTTCACATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
26 6 0.12
27 42 0.81
28 4 0.08
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.19
Consensus pattern (26 bp):
TTGGGGAATCAGCACTTAGCAACCCC
Found at i:56642703 original size:42 final size:41
Alignment explanation
Indices: 56642644--56642780 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 41
56642634 ACCCCTTGGG
56642644 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAA-CCCCTTCACATTTAAAATACGGT
* * * *
56642686 GGAATCAGCATTTAGCAACCAC--CA-A--T-GAGT-CGG-
1 GGAATCAGCACTTAGCAACCCCTTCACATTTAAAATACGGT
*
56642719 GGAATCAGCACTTAGCAACCCCTTGCACATTTAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCTT-CACATTTAAAATACGGT
*
56642761 GGAATCAGCACCTAGCAACC
1 GGAATCAGCACTTAGCAACC
56642781 ACCAATGATT
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
33 20 0.26
34 3 0.04
35 2 0.03
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 5 0.07
42 36 0.47
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTCACATTTAAAATACGGT
Found at i:56642816 original size:75 final size:75
Alignment explanation
Indices: 56642642--56642818 Score: 293
Period size: 75 Copynumber: 2.4 Consensus size: 75
56642632 CAACCCCTTG
**
56642642 GGGGAATCAGCACTTAGCAACCCCCTT-CACATTTAAAATACGGTGGAATCAGCATTTAGCAACC
1 GGGGAATCAGCACTTAGCAA-CCCCTTGCACATTTAAAATACGGTGGAATCAGCACCTAGCAACC
56642706 ACCAATGAGTC
65 ACCAATGAGTC
*
56642717 GGGGAATCAGCACTTAGCAACCCCTTGCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTGCACATTTAAAATACGGTGGAATCAGCACCTAGCAACCA
*
56642782 CCAATGATTC
66 CCAATGAGTC
*
56642792 GGGGAATTAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
56642819 GGGGAACCAG
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
74 6 0.06
75 90 0.94
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCTTGCACATTTAAAATACGGTGGAATCAGCACCTAGCAACCA
CCAATGAGTC
Found at i:56647099 original size:4 final size:4
Alignment explanation
Indices: 56647090--56647114 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
56647080 ATTTATATAG
56647090 AGAT AGAT AGAT AGAT AGAT AGAT A
1 AGAT AGAT AGAT AGAT AGAT AGAT A
56647115 ATATGACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AGAT
Found at i:56663040 original size:79 final size:81
Alignment explanation
Indices: 56662940--56663123 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
56662930 ACTCCTCGTT
* * *
56662940 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTACCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATACCTTC-GGATCTTAACCC
*
56663003 GGAT-TTAGTAAC-TCGCA
64 GGATATT-GTAACTTAGCA
* * **
56663020 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGG
*
56663084 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
56663100 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56663124 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
78 12 0.13
79 56 0.62
80 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:56663057 original size:39 final size:40
Alignment explanation
Indices: 56662940--56663123 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
56662930 ACTCCTCGTT
* *
56662940 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * * *
56662980 CAATTACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
56663020 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
56663059 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
56663100 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56663124 CATCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 49 0.40
40 63 0.51
41 10 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:56671686 original size:79 final size:81
Alignment explanation
Indices: 56671584--56671768 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
56671574 GCTCCTCGTT
* * *
56671584 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
56671647 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
56671664 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
56671728 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
56671744 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56671769 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:56671768 original size:40 final size:40
Alignment explanation
Indices: 56671584--56671768 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
56671574 GCTCCTCGTT
* *
56671584 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
56671624 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
56671664 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
56671703 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
56671744 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56671769 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:56681745 original size:54 final size:54
Alignment explanation
Indices: 56681651--56681757 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
56681641 TCTAAGTTGG
* * * * *
56681651 GACACACGACTATGTCCCAACTCGTGTCCTTACCCGTGTAACTTATTGACTTGA
1 GACACACGACCATGTCCCAACCCGTGTCCTTACCCATGTAACTCACTGACTTGA
* * *
56681705 GACACACGACCGTGTCCCAACCCGTGT-CTCTGCTCATGTAACTCACTGACTTG
1 GACACACGACCATGTCCCAACCCGTGTCCT-TACCCATGTAACTCACTGACTTG
56681758 GGTCACATGG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 2 0.05
54 42 0.95
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (54 bp):
GACACACGACCATGTCCCAACCCGTGTCCTTACCCATGTAACTCACTGACTTGA
Found at i:56683288 original size:19 final size:18
Alignment explanation
Indices: 56683250--56683288 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
56683240 TATTACACAA
*
56683250 TTCAATTTCACATTAAAT
1 TTCAATTTCACACTAAAT
*
56683268 TTCAATTTTCACACTATAT
1 TTCAA-TTTCACACTAAAT
56683287 TT
1 TT
56683289 TACTTATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (18 bp):
TTCAATTTCACACTAAAT
Found at i:56686296 original size:27 final size:27
Alignment explanation
Indices: 56686264--56686433 Score: 214
Period size: 27 Copynumber: 6.3 Consensus size: 27
56686254 ACCATATAGA
* *
56686264 CTATTCTTTCAGAGTTCGCCATAAAGG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
* *
56686291 CCATTCTTTCAAAGTTCACCAAAAAGG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
* * *
56686318 CTATTCTTTCAGAGTTCGCCACAACGG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
* *
56686345 CTATTCTTTCAAAGTTCACCAAAAACG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
* *
56686372 CTATTATTTCAGAGTTCACCAAAAATG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
* *
56686399 CTATTCTTTTAGAGTTCACCAGAAAGG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
*
56686426 TTATTCTT
1 CTATTCTT
56686434 AGTTGTCGTG
Statistics
Matches: 121, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (27 bp):
CTATTCTTTCAGAGTTCACCAAAAAGG
Found at i:56689341 original size:18 final size:19
Alignment explanation
Indices: 56689307--56689344 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
56689297 AGAATTTCAT
56689307 AACTTAAGATAACATAAAA
1 AACTTAAGATAACATAAAA
56689326 AACTT-AGATTAA-ATAAAA
1 AACTTAAGA-TAACATAAAA
56689344 A
1 A
56689345 TCATGCTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (19 bp):
AACTTAAGATAACATAAAA
Found at i:56689485 original size:27 final size:27
Alignment explanation
Indices: 56689450--56689501 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
56689440 GAAAAAAATT
56689450 TAAAATTCATGCAAATATTCCCTTAAA
1 TAAAATTCATGCAAATATTCCCTTAAA
* * *
56689477 TAAATTTCATGCTAATATTGCCTTA
1 TAAAATTCATGCAAATATTCCCTTA
56689502 CCCCCACCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (27 bp):
TAAAATTCATGCAAATATTCCCTTAAA
Found at i:56697135 original size:27 final size:27
Alignment explanation
Indices: 56697067--56697220 Score: 130
Period size: 27 Copynumber: 5.7 Consensus size: 27
56697057 ATATAAAACA
*
56697067 CACCACAAAGACTATTCTTTTAGAGTT
1 CACCACAAAGGCTATTCTTTTAGAGTT
** * **
56697094 TGCAACAAATACTATTCTTTTAGAGTT
1 CACCACAAAGGCTATTCTTTTAGAGTT
* * **
56697121 TACCAAAAAGGCTATTCTTTCGGAGTT
1 CACCACAAAGGCTATTCTTTTAGAGTT
* * *
56697148 CGCCACCAAGGCTATT-TTTTCAGTGTT
1 CACCACAAAGGCTATTCTTTT-AGAGTT
* * * *
56697175 CACCATAAAGGCTAATCTATCAGAGTT
1 CACCACAAAGGCTATTCTTTTAGAGTT
*
56697202 CGCCACAAAGGCTATTCTT
1 CACCACAAAGGCTATTCTT
56697221 AGCTGTCGTG
Statistics
Matches: 96, Mismatches: 29, Indels: 4
0.74 0.22 0.03
Matches are distributed among these distances:
26 3 0.03
27 91 0.95
28 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (27 bp):
CACCACAAAGGCTATTCTTTTAGAGTT
Found at i:56697163 original size:54 final size:55
Alignment explanation
Indices: 56697105--56697220 Score: 155
Period size: 54 Copynumber: 2.1 Consensus size: 55
56697095 GCAACAAATA
* * * * *
56697105 CTATTCTTTT-AGAGTTTACCAAAAAGGCTATTCTTTCGGAGTTCGCCACCAAGG
1 CTATTCTTTTCAGAGTTCACCAAAAAGGCTAATCTATCAGAGTTCGCCACAAAGG
* *
56697159 CTATT-TTTTCAGTGTTCACCATAAAGGCTAATCTATCAGAGTTCGCCACAAAGG
1 CTATTCTTTTCAGAGTTCACCAAAAAGGCTAATCTATCAGAGTTCGCCACAAAGG
56697213 CTATTCTT
1 CTATTCTT
56697221 AGCTGTCGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.08
54 47 0.89
55 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (55 bp):
CTATTCTTTTCAGAGTTCACCAAAAAGGCTAATCTATCAGAGTTCGCCACAAAGG
Found at i:56702278 original size:331 final size:332
Alignment explanation
Indices: 56701652--56702316 Score: 1269
Period size: 331 Copynumber: 2.0 Consensus size: 332
56701642 ATTTGAATTT
56701652 ATTGTTTTTTTTGCTGACTTTGTTTTTTTTTTGTGTCTGTGTCTCTCCTTGGCATAATTCATGCA
1 ATTGTTTTTTTTGCTGACTTTG-TTTTTTTTTGTGTCTGTGTCTCTCCTTGGCATAATTCATGCA
*
56701717 TCATTTAAATCCCTGGGGCACAGTGTCACATCTATATTCACATGAACATACTTCAAAAAGATTTA
65 TCATTTAAATACCTGGGGCACAGTGTCACATCTATATTCACATGAACATACTTCAAAAAGATTTA
56701782 GTTGTTCGGCATGGGGTAGAAAATATAGGGATAATAGCAAGAATGTCAAAGGATACTCAAAGCAG
130 GTTGTTCGGCATGGGGTAGAAAATATAGGGATAATAGCAAGAATGTCAAAGGATACTCAAAGCAG
*
56701847 AGAAGGTGATTGCTAGATAGCTTATTTTGGCTTGAGCCTACCTTAGATAGTTCGCAGGGATTGTA
195 AGAAGGTGATCGCTAGATAGCTTATTTTGGCTTGAGCCTACCTTAGATAGTTCGCAGGGATTGTA
56701912 GGAGGAATTGCGAAGATGAGTTAAAGGGAATATGGCAATCAAGTAATGATGCTAAAAAAAAGGTA
260 GGAGGAATTGCGAAGATGAGTTAAAGGGAATATGGCAATCAAGTAATGATGCTAAAAAAAAGGTA
56701977 CTTCTATG
325 CTTCTATG
56701985 ATTGTTTTTTTTGCTGACTTTG-TTTTTTTTGTGTCTGTGTCTCTCCTTGGCATAATTCATGCAT
1 ATTGTTTTTTTTGCTGACTTTGTTTTTTTTTGTGTCTGTGTCTCTCCTTGGCATAATTCATGCAT
*
56702049 CATTTAAATACCTGGGGCACAGTGTCGCATCTATATTCACATGAACATACTTCAAAAAGATTTAG
66 CATTTAAATACCTGGGGCACAGTGTCACATCTATATTCACATGAACATACTTCAAAAAGATTTAG
*
56702114 TTGTTCGGCATGGGGTAGAAAATATAGGGATAATAGCGAGAATGTCAAAGGATACTCAAAGCAGA
131 TTGTTCGGCATGGGGTAGAAAATATAGGGATAATAGCAAGAATGTCAAAGGATACTCAAAGCAGA
*
56702179 GAAGGTGATCGCTAGATAGCTTATTTTGGCTTGAGCCTACCTTAGATAGTTCGCATGGATTGTAG
196 GAAGGTGATCGCTAGATAGCTTATTTTGGCTTGAGCCTACCTTAGATAGTTCGCAGGGATTGTAG
56702244 GAGGAATTGCGAAGATGAGTTAAAGGGAATATGGCAATCAAGTAATGATGCTAAAAAAAAGGTAC
261 GAGGAATTGCGAAGATGAGTTAAAGGGAATATGGCAATCAAGTAATGATGCTAAAAAAAAGGTAC
56702309 TTCTATG
326 TTCTATG
56702316 A
1 A
56702317 CAAGTATGGC
Statistics
Matches: 327, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
331 305 0.93
333 22 0.07
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (332 bp):
ATTGTTTTTTTTGCTGACTTTGTTTTTTTTTGTGTCTGTGTCTCTCCTTGGCATAATTCATGCAT
CATTTAAATACCTGGGGCACAGTGTCACATCTATATTCACATGAACATACTTCAAAAAGATTTAG
TTGTTCGGCATGGGGTAGAAAATATAGGGATAATAGCAAGAATGTCAAAGGATACTCAAAGCAGA
GAAGGTGATCGCTAGATAGCTTATTTTGGCTTGAGCCTACCTTAGATAGTTCGCAGGGATTGTAG
GAGGAATTGCGAAGATGAGTTAAAGGGAATATGGCAATCAAGTAATGATGCTAAAAAAAAGGTAC
TTCTATG
Found at i:56704162 original size:12 final size:13
Alignment explanation
Indices: 56704140--56704180 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
56704130 GTGCCCTAAT
*
56704140 TTCAT-TCATTCA
1 TTCATCTCATTCG
56704152 TTCATCT-ATTCG
1 TTCATCTCATTCG
56704164 TTCA-CTCATTCG
1 TTCATCTCATTCG
56704176 TTCAT
1 TTCAT
56704181 TTGTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 2 0.08
12 22 0.88
13 1 0.04
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.49
Consensus pattern (13 bp):
TTCATCTCATTCG
Found at i:56712198 original size:42 final size:42
Alignment explanation
Indices: 56712139--56712390 Score: 312
Period size: 42 Copynumber: 6.1 Consensus size: 42
56712129 AAGGAAAACA
* * * *
56712139 TTCATTGCATTTAGAGGCCCAGGTGTCGAGCTCTATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* *
56712181 TTCATTGCATTTAGAGGCTCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * *
56712223 TTCATTGCATTTAGAGTCCCAGGTGCGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
*
56712265 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * ***
56712307 TTCATTACATTTAGAGACCCAAGTGTGGAGGTTTGTTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
56712349 TTC-TAG--TTTAAAGACCCAGGTGTGGAGGCCCGTTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
56712388 TTC
1 TTC
56712391 TAGTTTACTT
Statistics
Matches: 187, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
39 31 0.17
41 1 0.01
42 155 0.83
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
Found at i:56712418 original size:16 final size:16
Alignment explanation
Indices: 56712397--56712427 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
56712387 TTTCTAGTTT
56712397 ACTTTTCATTGCATTG
1 ACTTTTCATTGCATTG
56712413 ACTTTTCATTGCATT
1 ACTTTTCATTGCATT
56712428 TAGAGGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (16 bp):
ACTTTTCATTGCATTG
Found at i:56713340 original size:146 final size:137
Alignment explanation
Indices: 56713083--56713426 Score: 361
Period size: 144 Copynumber: 2.4 Consensus size: 137
56713073 TCTATTTTTT
* * * *
56713083 TTAGTTATTATAAAGAAAAGTTTAAATTTTTAAAACAAAATTTTGATTTTTTTCAACTATTTCAA
1 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGA-TTTTTT----TATTTCAA
* *
56713148 AGTAAAAGCTTTAATCTTTAAGAAAAATAGTGTTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTG
61 AATAAAAGCTTTAATCTTTAAGAAAAATAGTG-TTTTTTT---GAAA-A-AAAGTTTAGATTTTG
56713213 AAAAATAAAAA-A-AAAA
120 AAAAATAAAAATAGAAAA
*
56713229 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAAATTTGATTTTTTT-TTTCAAAAATA
1 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTATTTC-AAAATA
*
56713293 AAAGCTTTAATTTTTAAGAAAAATAGTGTTTTTTTAAAGAATGAAAAAGTTTAGATTTTGAAAAA
65 AAAGCTTTAATCTTTAAGAAAAATAGTGTTTTTTT---GAA--AAAAAGTTTAGATTTTGAAAAA
****
56713358 TAAAAATATGTTTT
125 TAAAAATA-GAAAA
* * *
56713372 TTAAGTCATTTTAAAGGAAATTTTAAAATTTTAAAACAAATTTTTTATTTTTTTA
1 TT-AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTA
56713427 ACTATTTCGA
Statistics
Matches: 174, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
140 42 0.24
141 35 0.20
142 1 0.01
143 2 0.01
144 47 0.27
145 6 0.03
146 41 0.24
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (137 bp):
TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTATTTCAAAATAA
AAGCTTTAATCTTTAAGAAAAATAGTGTTTTTTTGAAAAAAAGTTTAGATTTTGAAAAATAAAAA
TAGAAAA
Found at i:56713423 original size:140 final size:138
Alignment explanation
Indices: 56713083--56713424 Score: 384
Period size: 140 Copynumber: 2.4 Consensus size: 138
56713073 TCTATTTTTT
* * * * *
56713083 TTAGTTATTATAAAGAAAAGTTTAAATTTTTAAAACAAAATTTTGATTTTTTTCAACTATTTCAA
1 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAA-TTT-A-TTTATT----T-TTTCAA
* *
56713148 AGTAAAAGCTTTAATCTTTAAGAAAAATAGTGTTTTTTTTAAAAAAAGAGAAAGTTTAGATTTTG
58 AATAAAAGCTTTAATCTTTAAGAAAAATAGTGTTTTTTTTAAAAAAAGAAAAAGTTTAGATTTTG
56713213 AAAAATAAAAAAAAAA
123 AAAAATAAAAAAAAAA
*
56713229 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAAATTTGATTTTTTTTTTCAAAAATAA
1 TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAAC-AAAATTT-ATTTATTTTTTC-AAAATAA
* * *
56713294 AAGCTTTAATTTTTAAGAAAAATAGTG-TTTTTTTAAAGAATGAAAAAGTTTAGATTTTGAAAAA
63 AAGCTTTAATCTTTAAGAAAAATAGTGTTTTTTTTAAAAAAAGAAAAAGTTTAGATTTTGAAAAA
****
56713358 TAAAAATATGTTTT
128 TAAAAA-A--AAAA
*
56713372 TTAAGTCATTTTAAAGGAAATTTTAAAATTTTAAAAC-AAATTT-TTTATTTTTT
1 TT-AGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTATTTATTTTTT
56713425 TAACTATTTC
Statistics
Matches: 175, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
140 53 0.30
141 34 0.19
142 6 0.03
143 2 0.01
144 33 0.19
145 6 0.03
146 37 0.21
147 4 0.02
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (138 bp):
TTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAACAAAATTTATTTATTTTTTCAAAATAAAAG
CTTTAATCTTTAAGAAAAATAGTGTTTTTTTTAAAAAAAGAAAAAGTTTAGATTTTGAAAAATAA
AAAAAAAA
Found at i:56714951 original size:25 final size:25
Alignment explanation
Indices: 56714918--56714968 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
56714908 TTAAAAGTAA
56714918 AAATCTCTAATTTAAGTTTCAAATT
1 AAATCTCTAATTTAAGTTTCAAATT
56714943 AAATCTCTAATTTAAGTTTCAAATT
1 AAATCTCTAATTTAAGTTTCAAATT
56714968 A
1 A
56714969 GATAAGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (25 bp):
AAATCTCTAATTTAAGTTTCAAATT
Found at i:56714967 original size:13 final size:13
Alignment explanation
Indices: 56714926--56714967 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
56714916 AAAAATCTCT
56714926 AATTTAAGTTTCA
1 AATTTAAGTTTCA
* * *
56714939 AA-TTAAATCTCT
1 AATTTAAGTTTCA
56714951 AATTTAAGTTTCA
1 AATTTAAGTTTCA
56714964 AATT
1 AATT
56714968 AGATAAGTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (13 bp):
AATTTAAGTTTCA
Found at i:56718899 original size:25 final size:25
Alignment explanation
Indices: 56718853--56718900 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
56718843 ATTTATTGTC
**
56718853 TTTAGTTTTTATTTCTTTTTAGATG
1 TTTAGTTTTTATTTCTAGTTAGATG
56718878 TTTAG-TTTTATTTCCTAGTTAGA
1 TTTAGTTTTTATTT-CTAGTTAGA
56718901 ATTTTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (25 bp):
TTTAGTTTTTATTTCTAGTTAGATG
Found at i:56719797 original size:32 final size:32
Alignment explanation
Indices: 56719753--56719813 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
56719743 AAAGCACAGA
*
56719753 AAAGATTGCTCAAATTCTCAAAAATAAAGATT
1 AAAGATTGCTCAAAGTCTCAAAAATAAAGATT
* * *
56719785 AAAGTTTGCTCAAAGTCTGAAAATTAAAG
1 AAAGATTGCTCAAAGTCTCAAAAATAAAG
56719814 GTTGAACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (32 bp):
AAAGATTGCTCAAAGTCTCAAAAATAAAGATT
Found at i:56728070 original size:20 final size:20
Alignment explanation
Indices: 56728030--56728122 Score: 87
Period size: 20 Copynumber: 4.7 Consensus size: 20
56728020 GGATTTGTAG
* * *
56728030 TTCGGTGCCTATGTATACAC
1 TTCGGTGTCTCTGTTTACAC
* *
56728050 TTCGATGTCTCTGTTTGCAC
1 TTCGGTGTCTCTGTTTACAC
* * *
56728070 TTTGGTGCCTCTGTATACAC
1 TTCGGTGTCTCTGTTTACAC
*
56728090 TTCGGTGTCCCTGTTTACAC
1 TTCGGTGTCTCTGTTTACAC
* *
56728110 TACGGTGCCTCTG
1 TTCGGTGTCTCTG
56728123 CTTGCTCAAT
Statistics
Matches: 56, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.13, C:0.27, G:0.22, T:0.39
Consensus pattern (20 bp):
TTCGGTGTCTCTGTTTACAC
Found at i:56728120 original size:40 final size:40
Alignment explanation
Indices: 56728032--56728122 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
56728022 ATTTGTAGTT
* * * *
56728032 CGGTGCCTATGTATACACTTCGATGTCTCTGTTTGCACTT
1 CGGTGCCTCTGTATACACTTCGATGTCCCTGTTTACACTA
* *
56728072 TGGTGCCTCTGTATACACTTCGGTGTCCCTGTTTACACTA
1 CGGTGCCTCTGTATACACTTCGATGTCCCTGTTTACACTA
56728112 CGGTGCCTCTG
1 CGGTGCCTCTG
56728123 CTTGCTCAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.13, C:0.27, G:0.22, T:0.37
Consensus pattern (40 bp):
CGGTGCCTCTGTATACACTTCGATGTCCCTGTTTACACTA
Found at i:56729634 original size:50 final size:50
Alignment explanation
Indices: 56729522--56729762 Score: 338
Period size: 50 Copynumber: 4.8 Consensus size: 50
56729512 TAATAACTTA
* ** *
56729522 CCAAAGCCATGCCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTG
* * * **
56729573 CCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTTAGTG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
56729623 CCAACGCCATGTCCCAGACACGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
*
56729673 CCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * *
56729723 CCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCT
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56729763 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 139 0.82
51 31 0.18
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (50 bp):
CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:56735528 original size:6 final size:6
Alignment explanation
Indices: 56735519--56735547 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
56735509 AAAACCCAAC
56735519 TTAAAA TTAAAA TTAAAA TTAAAA -TAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
56735548 GCAAGCGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TTAAAA
Found at i:56735773 original size:28 final size:28
Alignment explanation
Indices: 56735741--56735822 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
56735731 AACAGTACAG
*
56735741 TGTGGGCCTTAGCCCAAAATAGTAACAA
1 TGTGGGCCTTAGCCCAATATAGTAACAA
* * *
56735769 TGTGGGCCTTAGCCCAATACAATAATAA
1 TGTGGGCCTTAGCCCAATATAGTAACAA
56735797 TGTGGGCCTTAGCCCAATATAGTAAC
1 TGTGGGCCTTAGCCCAATATAGTAAC
56735823 CAATACAGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATATAGTAACAA
Found at i:56736224 original size:27 final size:27
Alignment explanation
Indices: 56736174--56736581 Score: 308
Period size: 27 Copynumber: 15.1 Consensus size: 27
56736164 GGGTATAACA
* * *
56736174 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTTTAGGGGTATTTCG
*
56736201 GTCATTTTACCCTTTAGGGCTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * * * *
56736228 ATCATTTTA-CCGTTCGAGGTTATTTCA
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * * *
56736255 GCCATTTTA-CCTTTCGAAGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* *
56736282 GTCATTTTACCCTTCAAGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
*
56736309 GCCATTTTACCCTTTAGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * ***
56736336 ATCATTTTACACTCCGGGGGTA-TTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* **
56736362 GTCATTTTA-CCTTTTGAGGGTATTTTA
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* **
56736389 GTCATTTTATCCTACAGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
56736416 GTCATTTTA-TCTTTCGAGGGTATTTCG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * **
56736443 ATCATTTTACCCTTCGAGGGGTATTTTA
1 GTCATTTTACCCTT-TAGGGGTATTTCG
* **
56736471 GTCATTTTAGCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
*
56736498 GTCATTTTA-CCTTTCGGGGGTATTTCG
1 GTCATTTTACCCTTT-AGGGGTATTTCG
* * ***
56736525 ATCATTTTACACTACGGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
56736552 GTCATTTTACCCTCT-GAGGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
56736579 GTC
1 GTC
56736582 GTTTACCTAC
Statistics
Matches: 301, Mismatches: 69, Indels: 22
0.77 0.18 0.06
Matches are distributed among these distances:
25 3 0.01
26 30 0.10
27 234 0.78
28 33 0.11
29 1 0.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTTTAGGGGTATTTCG
Found at i:56742519 original size:21 final size:22
Alignment explanation
Indices: 56742493--56742541 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
56742483 ACAAGTGACT
*
56742493 ACATAATTGCCAAT-AACGGCC
1 ACATAATTGCAAATAAACGGCC
*
56742514 ACATAATTGCAAATAAACTGCC
1 ACATAATTGCAAATAAACGGCC
56742536 ACATAA
1 ACATAA
56742542 CTTCAACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.20
Consensus pattern (22 bp):
ACATAATTGCAAATAAACGGCC
Found at i:56743978 original size:20 final size:21
Alignment explanation
Indices: 56743933--56743988 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
56743923 CAAGCTGACT
*
56743933 TTAGCTCAATTCCAGCTCCACA
1 TTAGCTC-ATTTCAGCTCCACA
56743955 --AGCTCATTTCAGCTCCA-A
1 TTAGCTCATTTCAGCTCCACA
*
56743973 TTAGCTCATTTGAGCT
1 TTAGCTCATTTCAGCT
56743989 TAAATCAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 11 0.37
20 18 0.60
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (21 bp):
TTAGCTCATTTCAGCTCCACA
Found at i:56743998 original size:20 final size:20
Alignment explanation
Indices: 56743955--56744011 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
56743945 CAGCTCCACA
* *
56743955 AGCTCATTTCAGCTCCAATT
1 AGCTCATTTCAGCTCAAATC
* *
56743975 AGCTCATTTGAGCTTAAATC
1 AGCTCATTTCAGCTCAAATC
* *
56743995 AGCTCGTTTAAGCTCAA
1 AGCTCATTTCAGCTCAA
56744012 CCTAAACTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (20 bp):
AGCTCATTTCAGCTCAAATC
Found at i:56748701 original size:27 final size:27
Alignment explanation
Indices: 56748670--56748847 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56748660 TAAATTGTAC
56748670 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56748697 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56748723 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56748751 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56748779 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56748806 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56748833 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56748848 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:56748784 original size:82 final size:81
Alignment explanation
Indices: 56748671--56748826 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56748661 AAATTGTACA
* *
56748671 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56748735 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56748752 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56748817 TGCGAGTTGA
65 TGCGAATTGA
56748827 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:56748838 original size:82 final size:81
Alignment explanation
Indices: 56748667--56748847 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56748657 GATTAAATTG
* *
56748667 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56748732 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56748748 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56748812 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56748830 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56748848 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:56751305 original size:28 final size:28
Alignment explanation
Indices: 56751273--56751332 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
56751263 TATTATTTTT
*
56751273 TCTTAGCACGCTACATATTTAAA-TCATG
1 TCTTAGCACACTACATA-TTAAATTCATG
* * *
56751301 TCTTAGTATATTACATATTAAATTCATG
1 TCTTAGCACACTACATATTAAATTCATG
56751329 TCTT
1 TCTT
56751333 TGTTTGTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (28 bp):
TCTTAGCACACTACATATTAAATTCATG
Found at i:56752275 original size:19 final size:19
Alignment explanation
Indices: 56752247--56752293 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
56752237 CAAAAATAAC
56752247 AAAATAAAAATAAAATTTAT
1 AAAATAAAAATAAAA-TTAT
56752267 AAAATAAAAATAAAATTAT
1 AAAATAAAAATAAAATTAT
56752286 AAACATAA
1 AAA-ATAA
56752294 TATACTAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATAAAAATAAAATTAT
Found at i:56752602 original size:3 final size:3
Alignment explanation
Indices: 56752594--56752653 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
56752584 TGCGGTAAGT
* *
56752594 ATA ATA ATA AAA ATA TATA AT- ATA ATA ATA ATA A-A CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
56752638 ATTCA GTA ATA ATA AT
1 A-T-A ATA ATA ATA AT
56752654 GTAATATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 3 0.07
3 37 0.80
4 5 0.11
5 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56752627 original size:14 final size:14
Alignment explanation
Indices: 56752594--56752639 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
56752584 TGCGGTAAGT
56752594 ATAATAATA-AA-A
1 ATAATAATATAATA
56752606 ATATATAATATAATA
1 ATA-ATAATATAATA
56752621 ATAATAA-ACTAATA
1 ATAATAATA-TAATA
56752635 ATAAT
1 ATAAT
56752640 TCAGTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 7 0.23
14 16 0.53
15 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATATAATA
Found at i:56752638 original size:11 final size:10
Alignment explanation
Indices: 56752596--56752638 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
56752586 CGGTAAGTAT
56752596 AATAATAA-A
1 AATAATAATA
56752605 AATATATAATA
1 AATA-ATAATA
56752616 TAATAATAATA
1 -AATAATAATA
56752627 AACTAATAATA
1 AA-TAATAATA
56752638 A
1 A
56752639 TTCAGTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.13
10 6 0.20
11 16 0.53
12 4 0.13
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAATAATA
Found at i:56753249 original size:41 final size:41
Alignment explanation
Indices: 56753202--56753284 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
56753192 GAACAAAGAA
56753202 AAAGAAAACCAAATCCCACCTTCAAAAATACTTTTCTGTAT
1 AAAGAAAACCAAATCCCACCTTCAAAAATACTTTTCTGTAT
*
56753243 AAAGAAAACCAAATCCCACCTTCAAAAATATTTTTCTGTAT
1 AAAGAAAACCAAATCCCACCTTCAAAAATACTTTTCTGTAT
56753284 A
1 A
56753285 TTTTCTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (41 bp):
AAAGAAAACCAAATCCCACCTTCAAAAATACTTTTCTGTAT
Found at i:56754099 original size:44 final size:44
Alignment explanation
Indices: 56754036--56754488 Score: 167
Period size: 44 Copynumber: 10.6 Consensus size: 44
56754026 ATGTTAATCC
*
56754036 GCTCCACTGCAACTTCAGGGAGAGAGGATTAGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGAGAAGATTAGTTTCTTCTGTCT
* * * * * **
56754080 GCTCCATTGCAACTTCAGGGAGATAACACTTAATGTGATCTG-CT
1 GCTCCACTGCAACTTCAGGGAGAGAAGA-TTAGTTTCTTCTGTCT
* * ** * ** * ** *
56754124 --T--TCTGCAACCTCAGAAAGATAAGATCT-GGATGTT-AATCC
1 GCTCCACTGCAACTTCAGGGAGAGAAGAT-TAGTTTCTTCTGTCT
*
56754163 GCTCCACTGCAACTTCAGGGAGAGAGGATTAGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGAGAAGATTAGTTTCTTCTGTCT
* * * * **
56754207 GCTCCATTGCAACTTCAGGGAGATAAGACTTAATGTGATCTG-CT
1 GCTCCACTGCAACTTCAGGGAGAGAAGA-TTAGTTTCTTCTGTCT
* * ** * ** * ** *
56754251 --T--TCTGCAACCTCAGAAAGATAAGATCT-GGATGTT-AATCC
1 GCTCCACTGCAACTTCAGGGAGAGAAGAT-TAGTTTCTTCTGTCT
* *
56754290 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGAGAAGATTAGTTTCTTCTGTCT
* * *
56754334 GCTCCACTGCAACTTCAGGGAGATAAGACTT-G----ATGTGATCT
1 GCTCCACTGCAACTTCAGGGAGAGAAGA-TTAGTTTCTTCTG-TCT
* * ** * ** * ** *
56754375 GCT-CTCTGCAACCTCAGAAAGATAAGATCT-GGATGTT-AATCC
1 GCTCCACTGCAACTTCAGGGAGAGAAGAT-TAGTTTCTTCTGTCT
* * *
56754417 ACTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGAGAAGATTAGTTTCTTCTGTCT
* *
56754461 GCTCCACTGCAACTTCAAGGAGATAAGA
1 GCTCCACTGCAACTTCAGGGAGAGAAGA
56754489 CTTGATGTGA
Statistics
Matches: 292, Mismatches: 89, Indels: 56
0.67 0.20 0.13
Matches are distributed among these distances:
39 11 0.04
40 62 0.21
41 8 0.03
42 9 0.03
43 69 0.24
44 113 0.39
45 20 0.07
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGAGAAGATTAGTTTCTTCTGTCT
Found at i:56754175 original size:83 final size:84
Alignment explanation
Indices: 56754080--56754694 Score: 270
Period size: 83 Copynumber: 7.3 Consensus size: 84
56754070 TCTTCTGTCT
* * *
56754080 GCTCCATTGCAACTTCAGGGAGATAACACTTAATGTGATCTGCT-TTCTGCAACCTCAGAAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCCTCTGCAACCTCAGAAAGAT
56754144 AAGATCTGGATGTTAATCC
66 AAGATCTGGATGTTAATCC
* * * * ** * * **
56754163 GCTCCACTGCAACTTCAGGGAGAGAGGA-TTAGTTTCTTCTGTCTGCTCCATTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTAATGTGATCTG-CTCCT-C--TGCAACCTCAGAA
** * *
56754227 AGATAAGA-CTTAATG-TGATCT
62 AGATAAGATCTGGATGTTAATCC
** * ** ** * * * * **
56754248 GCT-TTCTGCAACCTCAGAAAGATAAGATCTGGATGTTAATCCGCTCCACTGCAACTTCAGGGAG
1 GCTCCACTGCAACTTCAGGGAGATAAGA-CTTAATG-TGATCTGCTCCTCTGCAACCTCAGAAAG
* ** * ** *
56754312 ATAGGAT-TAGTTTCTTCTGTCT
64 ATAAGATCT-GGATGTT-AATCC
*
56754334 GCTCCACTGCAACTTCAGGGAGATAAGACTTGATGTGATCTGCT-CTCTGCAACCTCAGAAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCCTCTGCAACCTCAGAAAGAT
56754398 AAGATCTGGATGTTAATCC
66 AAGATCTGGATGTTAATCC
* * * * * *
56754417 ACTCCACTGCAACTTCAGGGAGATAGGA-TTAGTTTCTTCTG-TCTGCTCCACTGCAACTTCA-A
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTA-----ATGTGATCTGCTCCTCTGCAACCTCAGA
* * * *
56754479 GGAGATAAGA-CTTGATG-TGATCT
61 -AAGATAAGATCTGGATGTTAATCC
* ** * ** * * * ** * * * **
56754502 GCTCTA-TATAACCTCAGAAAGATAAGATCTGTGATTTAATCCACTCCACCGCAACTTCAGGGAG
1 GCTCCACTGCAACTTCAGGGAGATAAGA-CT-TAATGTGATCTGCTCCTCTGCAACCTCAGAAAG
* * * * *
56754566 ATATGAT-TAGGTTTTTAGTCT
64 ATAAGATCT-GGATGTTAATCC
* * * *
56754587 ACTCCACTGCAACTTCAGGGAGATAAGACTTAACGTAATCTGCT-CTCTGCAACCTCAGAGAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCCTCTGCAACCTCAGAAAGAT
* * * *
56754651 AAGATCCGAATGTCAATCT
66 AAGATCTGGATGTTAATCC
*
56754670 GCTCCACTGCAACCTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
56754695 GGATTAGTTT
Statistics
Matches: 385, Mismatches: 116, Indels: 62
0.68 0.21 0.11
Matches are distributed among these distances:
82 13 0.03
83 151 0.39
84 69 0.18
85 36 0.09
86 52 0.14
87 64 0.17
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCCTCTGCAACCTCAGAAAGAT
AAGATCTGGATGTTAATCC
Found at i:56754185 original size:127 final size:127
Alignment explanation
Indices: 56753960--56754714 Score: 1183
Period size: 127 Copynumber: 6.0 Consensus size: 127
56753950 TTTACTCCGT
* * * *
56753960 TGCAACTTCGGGGAGATAGGACTTCATGCGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTG
1 TGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTG
* *
56754025 GATGTTAATCCGCTCCACTGCAACTTCAGGGAGAGAGGATTAGTTTCTTCTGTCTGCTCCAT
66 GATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCAC
* *
56754087 TGCAACTTCAGGGAGATAACACTTAATGTGATCTGCTTTCTGCAACCTCAGAAAGATAAGATCTG
1 TGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTG
* *
56754152 GATGTTAATCCGCTCCACTGCAACTTCAGGGAGAGAGGATTAGTTTCTTCTGTCTGCTCCAT
66 GATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCAC
*
56754214 TGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTTTCTGCAACCTCAGAAAGATAAGATCTG
1 TGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTG
56754279 GATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCAC
66 GATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCAC
*
56754341 TGCAACTTCAGGGAGATAAGACTTGATGTGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTG
1 TGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTG
*
56754406 GATGTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCAC
66 GATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCAC
* * * **
56754468 TGCAACTTCAAGGAGATAAGACTTGATGTGATCTGCTCTATATAACCTCAGAAAGATAAGATCTG
1 TGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTG
* * * * *
56754533 TGAT-TTAATCCACTCCACCGCAACTTCAGGGAGATATGATTAGGTTT-TT-AGTCTACTCCAC
66 -GATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTA-GTTTCTTCTGTCTGCTCCAC
* * * *
56754594 TGCAACTTCAGGGAGATAAGACTTAACGTAATCTGCTCTCTGCAACCTCAGAGAGATAAGATCCG
1 TGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTG
* * * * *
56754659 AATGTCAATCTGCTCCACTGCAACCTCAGGGAGATAGGATTAGTTTCTTCAGTCTG
66 GATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTG
56754715 TTCTCTAGGG
Statistics
Matches: 586, Mismatches: 37, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
125 6 0.01
126 100 0.17
127 473 0.81
128 7 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (127 bp):
TGCAACTTCAGGGAGATAAGACTTAATGTGATCTGCTCTCTGCAACCTCAGAAAGATAAGATCTG
GATGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTTTCTTCTGTCTGCTCCAC
Found at i:56754398 original size:40 final size:41
Alignment explanation
Indices: 56753973--56754687 Score: 186
Period size: 40 Copynumber: 17.0 Consensus size: 41
56753963 AACTTCGGGG
* * * *
56753973 AGATAGGACTTCATGCGATCTGCT-CTCTGCAACCTCAGAA
1 AGATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGAA
* * * *
56754013 AGATAAGATCTGGATGTTAATCCGCTCCACTGCAACTTCAGGGAGA
1 AGATAAGA-CTTGATG-TGATCTGCTCCACTGCAACCTCA--GA-A
* * ** * * * **
56754059 GAGGATTAG-TTTCTTCTG-TCTGCTCCATTGCAACTTCAGGG
1 -A-GATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGAA
* * **
56754100 AGATAACACTTAATGTGATCTGCT-TTCTGCAACCTCAGAA
1 AGATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGAA
* * * *
56754140 AGATAAGATCTGGATGTTAATCCGCTCCACTGCAACTTCAGGGAGA
1 AGATAAGA-CTTGATG-TGATCTGCTCCACTGCAACCTCA--GA-A
* * ** * * * **
56754186 GAGGATTAG-TTTCTTCTG-TCTGCTCCATTGCAACTTCAGGG
1 -A-GATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGAA
* **
56754227 AGATAAGACTTAATGTGATCTGCT-TTCTGCAACCTCAGAA
1 AGATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGAA
* * * *
56754267 AGATAAGATCTGGATGTTAATCCGCTCCACTGCAACTTCAGGGAGA
1 AGATAAGA-CTTGATG-TGATCTGCTCCACTGCAACCTCA--GA-A
* * ** * * **
56754313 TAGGATTAG-TTTCTTCTG-TCTGCTCCACTGCAACTTCAGGG
1 -A-GATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGAA
*
56754354 AGATAAGACTTGATGTGATCTGCT-CTCTGCAACCTCAGAA
1 AGATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGAA
* * ** *
56754394 AGATAAGATCTGGATGTTAATCCACTCCACTGCAACTTCAGGGAGA
1 AGATAAGA-CTTGATG-TGATCTGCTCCACTGCAACCTCA--GA-A
* * ** * * *
56754440 TAGGATTAG-TTTCTTCTG-TCTGCTCCACTGCAACTTCA-AGG
1 -A-GATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGA-A
* **
56754481 AGATAAGACTTGATGTGATCTGCTCTA-TATAACCTCAGAA
1 AGATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGAA
* * ** * * **
56754521 AGATAAGATCTGTGATTTAATCCACTCCACCGCAACTTCAGGG
1 AGATAAGA-CT-TGATGTGATCTGCTCCACTGCAACCTCAGAA
* * * * * * **
56754564 AGATATGA-TTAGGTTTTTAGTCTACTCCACTGCAACTTCAGGG
1 AGATAAGACTT--GATGTGA-TCTGCTCCACTGCAACCTCAGAA
* * * * *
56754607 AGATAAGACTTAACGTAATCTGCT-CTCTGCAACCTCAGAG
1 AGATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGAA
* *
56754647 AGATAAGA-TCCGAATGTCAATCTGCTCCACTGCAACCTCAG
1 AGATAAGACT-TG-ATGT-GATCTGCTCCACTGCAACCTCAG
56754688 GGAGATAGGA
Statistics
Matches: 480, Mismatches: 143, Indels: 101
0.66 0.20 0.14
Matches are distributed among these distances:
39 20 0.04
40 123 0.26
41 61 0.13
42 56 0.12
43 97 0.20
44 75 0.16
45 12 0.03
46 12 0.03
47 4 0.01
48 20 0.04
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (41 bp):
AGATAAGACTTGATGTGATCTGCTCCACTGCAACCTCAGAA
Found at i:56760977 original size:27 final size:27
Alignment explanation
Indices: 56760946--56761123 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56760936 TAAATTGTAC
56760946 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56760973 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56760999 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56761027 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56761055 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56761082 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56761109 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56761124 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:56761060 original size:82 final size:81
Alignment explanation
Indices: 56760947--56761102 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56760937 AAATTGTACA
* *
56760947 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56761011 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56761028 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56761093 TGCGAGTTGA
65 TGCGAATTGA
56761103 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:56761114 original size:82 final size:81
Alignment explanation
Indices: 56760943--56761123 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56760933 GATTAAATTG
* *
56760943 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56761008 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56761024 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56761088 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56761106 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56761124 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:56765927 original size:12 final size:12
Alignment explanation
Indices: 56765910--56765937 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
56765900 GACTAGGTAT
56765910 AAAACAAAGAAG
1 AAAACAAAGAAG
56765922 AAAACAAAGAAG
1 AAAACAAAGAAG
56765934 AAAA
1 AAAA
56765938 GAAATGGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAACAAAGAAG
Found at i:56769055 original size:120 final size:120
Alignment explanation
Indices: 56768842--56769081 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 120
56768832 ATCAAGTACT
56768842 GCTAAGATGTGTGGATGCAGTAGAAGCTAGAAAAATTCTAGAAGAAGTCCATGAAGGTATCTGTG
1 GCTAAGATGTGTGGATGCAGTAGAAGCTAGAAAAATTCTAGAAGAAGTCCATGAAGGTATCTGTG
*
56768907 GCACACATGCAAATGGTTTCACAATGGCCAGGTAGATCATGAGATTTGGGTATTC
66 GCACACATGCAAATGGTTTCACAATGGCCAGGCAGATCATGAGATTTGGGTATTC
56768962 GCTAAGATGTGTGGATGCAGTAGAAGCTAGAAAAATTCTAGAAGAAGTCCATGAAGGTATCTGTG
1 GCTAAGATGTGTGGATGCAGTAGAAGCTAGAAAAATTCTAGAAGAAGTCCATGAAGGTATCTGTG
56769027 GCACACATGCAAATGGTTTCACAATGGCCAGGCAGATCATGAGATTTGGGTATTC
66 GCACACATGCAAATGGTTTCACAATGGCCAGGCAGATCATGAGATTTGGGTATTC
56769082 TTGGTCTACT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (120 bp):
GCTAAGATGTGTGGATGCAGTAGAAGCTAGAAAAATTCTAGAAGAAGTCCATGAAGGTATCTGTG
GCACACATGCAAATGGTTTCACAATGGCCAGGCAGATCATGAGATTTGGGTATTC
Found at i:56771332 original size:43 final size:40
Alignment explanation
Indices: 56771263--56771379 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 40
56771253 AACTGAAGAA
* * *
56771263 ATCGATCCTATCTCCCTGAGGTTGCAGTGGAGCGGATTGAC
1 ATCGATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-TCAC
* *
56771304 ATACGGATCTTATCTCTCTGAGGTTGCAG-AGAGCAGATCAC
1 AT-C-GATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCAC
* *
56771345 ATCAACTCTTATTTCCCTGAGGTTGCAGTGGAGCA
1 ATCGA-TCTTATCTCCCTGAGGTTGCAGTGGAGCA
56771380 AACTAAAAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
39 1 0.02
40 21 0.33
41 12 0.19
42 7 0.11
43 22 0.35
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATCGATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATCAC
Found at i:56771750 original size:82 final size:83
Alignment explanation
Indices: 56771651--56771843 Score: 325
Period size: 83 Copynumber: 2.3 Consensus size: 83
56771641 TGAAATGTCT
*
56771651 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT-TAATCACAGATCTTATCTCTCTGAGGTTGC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATCAAATCACAGATCTTATCTCTCTGAGGTTGC
56771715 AGAGAGCAGATCGCATCA
66 AGAGAGCAGATCGCATCA
56771733 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATCAAATCACAGATCTTATCTCTCTGAGGTTGC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATCAAATCACAGATCTTATCTCTCTGAGGTTGC
56771798 AGAGAGCAGATCGCATCA
66 AGAGAGCAGATCGCATCA
* * * * *
56771816 AGTCTTATCTCCCAGAGGTTACAGTGGA
1 AATCCTATCTCCCTGAAGTTGCAGTGGA
56771844 ATGGGTTGAA
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 34 0.33
83 70 0.67
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (83 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATCAAATCACAGATCTTATCTCTCTGAGGTTGC
AGAGAGCAGATCGCATCA
Found at i:56771834 original size:40 final size:40
Alignment explanation
Indices: 56771695--56771835 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
56771685 TAATCACAGA
* *
56771695 TCTTATCTCTCTGAGGTTGCAGAGAGCAGATCGCATCAAA
1 TCTTATCTCCCTGAGGTTGCAGAGAGCAGATCGCATCAAG
* * * ** **
56771735 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATCAAATCACAG
1 TCTTATCTCCCTGAGGTTGCAG-AGAGCAGATCGCATCA-AG
*
56771777 ATCTTATCTCTCTGAGGTTGCAGAGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTGAGGTTGCAGAGAGCAGATCGCATCAAG
*
56771818 TCTTATCTCCCAGAGGTT
1 TCTTATCTCCCTGAGGTT
56771836 ACAGTGGAAT
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 35 0.44
41 13 0.16
42 12 0.15
43 19 0.24
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (40 bp):
TCTTATCTCCCTGAGGTTGCAGAGAGCAGATCGCATCAAG
Found at i:56787476 original size:20 final size:20
Alignment explanation
Indices: 56787443--56787484 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
56787433 TACTAGTATA
56787443 TTATGTTTATAATTTTATTT
1 TTATGTTTATAATTTTATTT
56787463 TTAT-TTTATAAATTTTATTT
1 TTATGTTTAT-AATTTTATTT
56787483 TT
1 TT
56787485 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTATGTTTATAATTTTATTT
Found at i:56787488 original size:8 final size:8
Alignment explanation
Indices: 56787475--56787515 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
56787465 ATTTTATAAA
56787475 TTTTATTT
1 TTTTATTT
56787483 TTTTA--T
1 TTTTATTT
56787489 TTTTATTT
1 TTTTATTT
56787497 TTTTATTT
1 TTTTATTT
56787505 TTGTTATTT
1 TT-TTATTT
56787514 TT
1 TT
56787516 GTATACATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.20
8 16 0.53
9 8 0.27
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.85
Consensus pattern (8 bp):
TTTTATTT
Found at i:56787499 original size:14 final size:14
Alignment explanation
Indices: 56787455--56787506 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
56787445 ATGTTTATAA
56787455 TTTTATTTTTATTT
1 TTTTATTTTTATTT
* * *
56787469 TATAAATTTTATTT
1 TTTTATTTTTATTT
56787483 TTTTATTTTTATTT
1 TTTTATTTTTATTT
56787497 TTTTATTTTT
1 TTTTATTTTT
56787507 GTTATTTTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:56787506 original size:28 final size:29
Alignment explanation
Indices: 56787455--56787515 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
56787445 ATGTTTATAA
56787455 TTTTATTTTTATTTTATAAATTTTATT-T
1 TTTTATTTTTATTTTATAAATTTTATTAT
* * * *
56787483 TTTTATTTTTATTTTTTTATTTTTGTTAT
1 TTTTATTTTTATTTTATAAATTTTATTAT
56787512 TTTT
1 TTTT
56787516 GTATACATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (29 bp):
TTTTATTTTTATTTTATAAATTTTATTAT
Found at i:56787514 original size:14 final size:14
Alignment explanation
Indices: 56787443--56787514 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
56787433 TACTAGTATA
* *
56787443 TTATGTTTATAATT
1 TTATTTTTATTATT
56787457 TTATTTTTATT-TT
1 TTATTTTTATTATT
* * *
56787470 ATAAATTTTATTTTT
1 -TTATTTTTATTATT
*
56787485 TTATTTTTATTTTT
1 TTATTTTTATTATT
*
56787499 TTATTTTTGTTATT
1 TTATTTTTATTATT
56787513 TT
1 TT
56787515 TGTATACATG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
13 2 0.04
14 44 0.92
15 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TTATTTTTATTATT
Found at i:56791297 original size:17 final size:17
Alignment explanation
Indices: 56791275--56791309 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
56791265 GCCATCACAT
56791275 GGCATTTCATTTTAAAA
1 GGCATTTCATTTTAAAA
56791292 GGCATTTCATTTTAAAA
1 GGCATTTCATTTTAAAA
56791309 G
1 G
56791310 TGATAGTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (17 bp):
GGCATTTCATTTTAAAA
Found at i:56803059 original size:27 final size:27
Alignment explanation
Indices: 56803028--56803205 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56803018 TAAATTGTAC
56803028 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56803055 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56803081 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56803109 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56803137 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56803164 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56803191 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56803206 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:56803142 original size:82 final size:81
Alignment explanation
Indices: 56803029--56803184 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56803019 AAATTGTACA
* *
56803029 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56803093 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56803110 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56803175 TGCGAGTTGA
65 TGCGAATTGA
56803185 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:56803196 original size:82 final size:81
Alignment explanation
Indices: 56803025--56803205 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56803015 GATTAAATTG
* *
56803025 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56803090 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56803106 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56803170 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56803188 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56803206 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:56806169 original size:14 final size:14
Alignment explanation
Indices: 56806139--56806189 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
56806129 AAAAATAACA
*
56806139 AAAATAACA-AAATT
1 AAAATAA-ATAAAAT
56806153 AAAATAAATAAAAT
1 AAAATAAATAAAAT
**
56806167 AAAATTTATAAAAT
1 AAAATAAATAAAAT
56806181 AAAAATAAA
1 -AAAATAAA
56806190 ATTATAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 1 0.03
14 23 0.77
15 6 0.20
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:56806172 original size:20 final size:20
Alignment explanation
Indices: 56806147--56806193 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
56806137 CAAAAATAAC
56806147 AAAATTAAAATAAAT-AAAAT
1 AAAATTAAAA-AAATAAAAAT
* *
56806167 AAAATTTATAAAATAAAAAT
1 AAAATTAAAAAAATAAAAAT
56806187 AAAATTA
1 AAAATTA
56806194 TAAACATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATTAAAAAAATAAAAAT
Found at i:56806182 original size:19 final size:18
Alignment explanation
Indices: 56806158--56806202 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 18
56806148 AAATTAAAAT
56806158 AAATAAAATAAAATTTATA
1 AAATAAAATAAAA-TTATA
56806177 AAATAAAAATAAAATTATA
1 AAAT-AAAATAAAATTATA
56806196 AACATAA
1 AA-ATAA
56806203 TATACTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATAAAATAAAATTATA
Found at i:56806202 original size:20 final size:20
Alignment explanation
Indices: 56806158--56806202 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
56806148 AAATTAAAAT
56806158 AAAT-AAAATAAAATTTATA
1 AAATAAAAATAAAATTTATA
56806177 AAATAAAAATAAAA-TTATA
1 AAATAAAAATAAAATTTATA
56806196 AACATAA
1 AA-ATAA
56806203 TATACTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATAAAAATAAAATTTATA
Found at i:56806530 original size:18 final size:19
Alignment explanation
Indices: 56806507--56806544 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
56806497 GGTAAGTATA
56806507 ATAATAAAAATAAA-TAAT
1 ATAATAAAAATAAACTAAT
*
56806525 ATAATAATAATAAACTAAT
1 ATAATAAAAATAAACTAAT
56806544 A
1 A
56806545 ATCATTCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATAAACTAAT
Found at i:56817982 original size:171 final size:171
Alignment explanation
Indices: 56817697--56818038 Score: 684
Period size: 171 Copynumber: 2.0 Consensus size: 171
56817687 TAGGCAATTG
56817697 GGGTTGAACCACTATAAATCCTTGTGTTCTTTGTTGCATAATTTTTGTTGCTTCCACCACAACTT
1 GGGTTGAACCACTATAAATCCTTGTGTTCTTTGTTGCATAATTTTTGTTGCTTCCACCACAACTT
56817762 ATCAAAGGTTGATTCAACCTCCCTATAGTCGATCTCAAGTTGATCCTTTCGAGCTAACAAATTGT
66 ATCAAAGGTTGATTCAACCTCCCTATAGTCGATCTCAAGTTGATCCTTTCGAGCTAACAAATTGT
56817827 CCTTTTGTGAAATAATGATGCTGTCAAATGAATCTAGTAGT
131 CCTTTTGTGAAATAATGATGCTGTCAAATGAATCTAGTAGT
56817868 GGGTTGAACCACTATAAATCCTTGTGTTCTTTGTTGCATAATTTTTGTTGCTTCCACCACAACTT
1 GGGTTGAACCACTATAAATCCTTGTGTTCTTTGTTGCATAATTTTTGTTGCTTCCACCACAACTT
56817933 ATCAAAGGTTGATTCAACCTCCCTATAGTCGATCTCAAGTTGATCCTTTCGAGCTAACAAATTGT
66 ATCAAAGGTTGATTCAACCTCCCTATAGTCGATCTCAAGTTGATCCTTTCGAGCTAACAAATTGT
56817998 CCTTTTGTGAAATAATGATGCTGTCAAATGAATCTAGTAGT
131 CCTTTTGTGAAATAATGATGCTGTCAAATGAATCTAGTAGT
56818039 AAAACTTGAA
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 171 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (171 bp):
GGGTTGAACCACTATAAATCCTTGTGTTCTTTGTTGCATAATTTTTGTTGCTTCCACCACAACTT
ATCAAAGGTTGATTCAACCTCCCTATAGTCGATCTCAAGTTGATCCTTTCGAGCTAACAAATTGT
CCTTTTGTGAAATAATGATGCTGTCAAATGAATCTAGTAGT
Found at i:56818214 original size:21 final size:21
Alignment explanation
Indices: 56818188--56818233 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
56818178 CTTGTTTCGT
56818188 AACACAATAACCCTATGTCGC
1 AACACAATAACCCTATGTCGC
* *
56818209 AACACAGTAACCCTGTGTCGC
1 AACACAATAACCCTATGTCGC
56818230 AACA
1 AACA
56818234 TCAAAGGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.33, G:0.13, T:0.17
Consensus pattern (21 bp):
AACACAATAACCCTATGTCGC
Found at i:56835850 original size:24 final size:25
Alignment explanation
Indices: 56835790--56835867 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
56835780 ACACACCACA
* *
56835790 GCTCTTATGAGCATCCCGATATATG
1 GCTCTTATGAGCTTCACGATATATG
*
56835815 GCTCTCCA-GAGCTTCACGA-ATATG
1 GCTCT-TATGAGCTTCACGATATATG
** *
56835839 GCTCTTATGAGCTTTTCGTTATATG
1 GCTCTTATGAGCTTCACGATATATG
56835864 GCTC
1 GCTC
56835868 ACATCCCGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 1 0.02
24 18 0.42
25 23 0.53
26 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (25 bp):
GCTCTTATGAGCTTCACGATATATG
Found at i:56835909 original size:27 final size:26
Alignment explanation
Indices: 56835871--56835941 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 26
56835861 ATGGCTCACA
*
56835871 TCCCGTTATATGGCTTGAAAGAGAGCT
1 TCCCGTT-TATGGCTCGAAAGAGAGCT
56835898 TCCCGTTGTATGGCTCGAAAGAGAGCT
1 TCCCGTT-TATGGCTCGAAAGAGAGCT
56835925 TCCCGTTTATGTGCTCG
1 TCCCGTTTATG-GCTCG
56835942 TATTAGCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.31
Consensus pattern (26 bp):
TCCCGTTTATGGCTCGAAAGAGAGCT
Found at i:56838399 original size:15 final size:16
Alignment explanation
Indices: 56838379--56838411 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56838369 ACATATAACC
56838379 ATATATT-TATTACAA
1 ATATATTATATTACAA
*
56838394 ATATATTATATTTCAA
1 ATATATTATATTACAA
56838410 AT
1 AT
56838412 TATGTTTGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATATTATATTACAA
Done.