Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 125 of 425
Found at i:37206969 original size:18 final size:18
Alignment explanation
Indices: 37206942--37206977 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37206932 TTAACAATTT
*
37206942 CATTAGTTTAGAGAGCAA
1 CATTAATTTAGAGAGCAA
*
37206960 CATTAATTTAGATAGCAA
1 CATTAATTTAGAGAGCAA
37206978 AACCAATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
CATTAATTTAGAGAGCAA
Found at i:37210029 original size:93 final size:93
Alignment explanation
Indices: 37209915--37210084 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
37209905 CCCATAAGCA
* * * *
37209915 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGAGTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
37209980 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
*
37210008 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
37210073 GAGTTCGGATGC
66 GAGTTCGGATGC
37210085 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:37210081 original size:46 final size:46
Alignment explanation
Indices: 37209906--37210081 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
37209896 TGTAACCCGC
* * * *
37209906 CCATAAGCAAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
37209952 CCATAAGTGAACTCGGAGTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
37210002 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
37210045 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
37210082 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37210100 original size:46 final size:44
Alignment explanation
Indices: 37209915--37210100 Score: 128
Period size: 46 Copynumber: 4.0 Consensus size: 44
37209905 CCCATAAGCA
* * * * *
37209915 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-AAGTG
1 AACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CAACCATCTAGTG
* *
37209961 AACTCGGAGTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGTG
* * *
37210008 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGTG
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGTG
*
37210054 AACTCGAACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGTG
37210100 A
1 A
37210101 CATGTCACTT
Statistics
Matches: 110, Mismatches: 17, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 3 0.03
46 58 0.53
47 30 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGTG
Found at i:37210546 original size:30 final size:31
Alignment explanation
Indices: 37210503--37210560 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
37210493 TTAACTCAAA
37210503 TTTTGGCAAATTTACAATTTTGCCCCTAAAC
1 TTTTGGCAAATTTACAATTTTGCCCCTAAAC
* *
37210534 TTTT-GCATATTTACATTTTTGCCCCTA
1 TTTTGGCAAATTTACAATTTTGCCCCTA
37210561 GGCTCGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (31 bp):
TTTTGGCAAATTTACAATTTTGCCCCTAAAC
Found at i:37226108 original size:51 final size:50
Alignment explanation
Indices: 37226060--37226161 Score: 118
Period size: 51 Copynumber: 2.0 Consensus size: 50
37226050 TCGGAGCTAC
37226060 CACA-TAACAT-ATAACACATCCATAATGAACTCAGACCTCTCAACGAGCT
1 CACAGTAACATGA-AACACATCCATAATGAACTCAGACCTCTCAACGAGCT
* * * * * *
37226109 CAGATGTAACATGAATCGCATCCATTATTAACTCGGACCTCTCAACGAGCT
1 CACA-GTAACATGAAACACATCCATAATGAACTCAGACCTCTCAACGAGCT
37226160 CA
1 CA
37226162 GATGCTCGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
49 3 0.07
51 40 0.91
52 1 0.02
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (50 bp):
CACAGTAACATGAAACACATCCATAATGAACTCAGACCTCTCAACGAGCT
Found at i:37226185 original size:43 final size:43
Alignment explanation
Indices: 37226124--37226242 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
37226114 GTAACATGAA
* *
37226124 TCGCATCCATTATTAACTCGGACCTCTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATGC
* * *
37226167 TCGCATCCATAATGAACTCGGATCTCTCAACGAGTTCGGATGC
1 TCGCATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATGC
* * * *
37226210 -CGCATATC-TCACGAACTCGGACCACTCAACGAG
1 TCGCAT-CCATAATGAACTCGGACCTCTCAACGAG
37226243 TTTGGACGTC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 26 0.40
43 39 0.60
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATGC
Found at i:37236302 original size:39 final size:40
Alignment explanation
Indices: 37236203--37236383 Score: 149
Period size: 40 Copynumber: 4.6 Consensus size: 40
37236193 CGAATGATGT
* * * * *
37236203 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTAATAAAC
* * * *
37236243 CCGGACTAGGAT-CCAAAGGCATTCGTGCGAGTTAAT-AAC
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTAATAAAC
*
37236282 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAAC
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATAAAC
* **
37236321 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGCTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATA-AAC
**
37236361 CCGGGCTTCGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
37236384 TGAGCGAGTC
Statistics
Matches: 114, Mismatches: 19, Indels: 16
0.77 0.13 0.11
Matches are distributed among these distances:
38 19 0.17
39 26 0.23
40 60 0.53
41 9 0.08
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATAAAC
Found at i:37236365 original size:78 final size:79
Alignment explanation
Indices: 37236203--37236383 Score: 190
Period size: 78 Copynumber: 2.3 Consensus size: 79
37236193 CGAATGATGT
* * * *
37236203 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCAAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCAAAGGCATTCG
*
37236268 TGCGAGTTAATAAC
66 TGCAAGTTAATAAC
* ** *
37236282 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 -CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCAAAGGCATT
*
37236344 CGTGCAAGTTGCTATAA-
64 CGTGCAAGTT--AATAAC
**
37236361 CCGGGCTTCGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
37236384 TGAGCGAGTC
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 43 0.51
79 27 0.32
80 14 0.16
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCAAAGGCATTCG
TGCAAGTTAATAAC
Found at i:37243391 original size:47 final size:47
Alignment explanation
Indices: 37243322--37243414 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
37243312 GACTATCATA
*
37243322 AACCTCAAACATAAAACGTAAAATAAACATGAACAATATAAAAAATC
1 AACCTCAAACATAAAACGTAAAATAAACATCAACAATATAAAAAATC
37243369 AACCTCAAACATAAAACGTAAAATAAACATCAACAATATAAAAAAT
1 AACCTCAAACATAAAACGTAAAATAAACATCAACAATATAAAAAAT
37243415 TAATTATATG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.62, C:0.17, G:0.03, T:0.17
Consensus pattern (47 bp):
AACCTCAAACATAAAACGTAAAATAAACATCAACAATATAAAAAATC
Found at i:37243555 original size:23 final size:23
Alignment explanation
Indices: 37243513--37243557 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
37243503 AAACTTATGT
* *
37243513 ATTTTGTACAAATAATCTATTTG
1 ATTTTATACAAATAACCTATTTG
*
37243536 ATTTTATACAAATAGCCTATTT
1 ATTTTATACAAATAACCTATTT
37243558 AATAGTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (23 bp):
ATTTTATACAAATAACCTATTTG
Found at i:37247795 original size:12 final size:12
Alignment explanation
Indices: 37247780--37247804 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37247770 GTGTGTGACA
37247780 TTGAGCAAAAGC
1 TTGAGCAAAAGC
37247792 TTGAGCAAAAGC
1 TTGAGCAAAAGC
37247804 T
1 T
37247805 AGTGGTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (12 bp):
TTGAGCAAAAGC
Found at i:37247875 original size:22 final size:22
Alignment explanation
Indices: 37247848--37247892 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
37247838 TGCAAGAGGA
37247848 AATAATATGCAGTTTCTTACTT
1 AATAATATGCAGTTTCTTACTT
37247870 AATAATATGCAGTTTCTTACTT
1 AATAATATGCAGTTTCTTACTT
37247892 A
1 A
37247893 CTGGGGAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (22 bp):
AATAATATGCAGTTTCTTACTT
Found at i:37251595 original size:20 final size:17
Alignment explanation
Indices: 37251557--37251594 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
37251547 GATGTTGGGA
37251557 TATTTTATTAATATTAT
1 TATTTTATTAATATTAT
* *
37251574 TATTTTATTAAGATAAT
1 TATTTTATTAATATTAT
37251591 TATT
1 TATT
37251595 AAAGAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTTTATTAATATTAT
Found at i:37257616 original size:40 final size:40
Alignment explanation
Indices: 37257516--37257720 Score: 297
Period size: 40 Copynumber: 5.2 Consensus size: 40
37257506 AACCCAAGTA
* * **
37257516 CCTTCGGGA-TTTAGCCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
*
37257555 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
*
37257594 CCTTCGGGACTTAACCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* * *
37257634 CCTTTGGGACTTAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
37257674 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
37257714 CCTTCGG
1 CCTTCGG
37257721 ATCTTAGTCC
Statistics
Matches: 152, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 3 0.02
39 35 0.23
40 114 0.75
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:37264150 original size:32 final size:33
Alignment explanation
Indices: 37264106--37264210 Score: 127
Period size: 32 Copynumber: 3.4 Consensus size: 33
37264096 AATATTAATC
37264106 TGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCCATAGCCCCTTACAGTATCAGAGTATAT
* *
37264139 TGGGCC-TAG-CCCATATCAGTATC--A--AT-C
1 TGGGCCATAGCCCCTTA-CAGTATCAGAGTATAT
37264166 TGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCCATAGCCCCTTACAGTATCAGAGTATAT
37264199 TGGGCC-TAGCCC
1 TGGGCCATAGCCC
37264211 ATATCAGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
27 6 0.10
28 12 0.20
29 5 0.08
30 2 0.03
31 5 0.08
32 18 0.30
33 12 0.20
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (33 bp):
TGGGCCATAGCCCCTTACAGTATCAGAGTATAT
Found at i:37264153 original size:60 final size:60
Alignment explanation
Indices: 37264085--37264237 Score: 270
Period size: 60 Copynumber: 2.5 Consensus size: 60
37264075 AACTGAGCCT
* *
37264085 TAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATTGGGCC
1 TAGCCCATATCAGTATCAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATTGGGCC
37264145 TAGCCCATATCAGTATCAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATTGGGCC
1 TAGCCCATATCAGTATCAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATTGGGCC
* *
37264205 TAGCCCATATCAGTATCAATCTGGACCGTAGCC
1 TAGCCCATATCAGTATCAATCTGGGCCATAGCC
37264238 TTATTACAAG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 89 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (60 bp):
TAGCCCATATCAGTATCAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATTGGGCC
Found at i:37264258 original size:60 final size:59
Alignment explanation
Indices: 37264085--37264274 Score: 240
Period size: 60 Copynumber: 3.2 Consensus size: 59
37264075 AACTGAGCCT
* * * *
37264085 TAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATTGGGCC
1 TAGCCCATATCAGTATCAATCTGGACCATAGCCCATTACAG-ATCAGAGTATATTGGGCC
* *
37264145 TAGCCCATATCAGTATCAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATTGGGCC
1 TAGCCCATATCAGTATCAATCTGGACCATAGCCCATTACAG-ATCAGAGTATATTGGGCC
* *
37264205 TAGCCCATATCAGTATCAATCTGGACCGTAGCCTTATTACA-AGTC-GAGATATATTGGGCC
1 TAGCCCATATCAGTATCAATCTGGACCATAGCC-CATTACAGA-TCAGAG-TATATTGGGCC
*
37264265 TTGCCCATAT
1 TAGCCCATAT
37264275 TAACATAGTT
Statistics
Matches: 120, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
59 4 0.03
60 111 0.93
61 5 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (59 bp):
TAGCCCATATCAGTATCAATCTGGACCATAGCCCATTACAGATCAGAGTATATTGGGCC
Found at i:37264371 original size:22 final size:22
Alignment explanation
Indices: 37264346--37264387 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
37264336 TGCATGATAA
*
37264346 CTCCATCCAACCCTGCACTTGC
1 CTCCATCCAACCCTACACTTGC
* *
37264368 CTCCGTCCATCCCTACACTT
1 CTCCATCCAACCCTACACTT
37264388 TCTGTGGGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.50, G:0.07, T:0.26
Consensus pattern (22 bp):
CTCCATCCAACCCTACACTTGC
Found at i:37265559 original size:19 final size:19
Alignment explanation
Indices: 37265537--37265577 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
37265527 GAGAATCGAC
37265537 AAGAGGAGAA-AGAAGAGAG
1 AAGAGG-GAAGAGAAGAGAG
*
37265556 AAGAGGGAAGAGATGAGAG
1 AAGAGGGAAGAGAAGAGAG
37265575 AAG
1 AAG
37265578 GATAGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.54, C:0.00, G:0.44, T:0.02
Consensus pattern (19 bp):
AAGAGGGAAGAGAAGAGAG
Found at i:37266751 original size:6 final size:6
Alignment explanation
Indices: 37266740--37266769 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
37266730 AAGTAAAAGC
37266740 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
37266770 TTAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:37266979 original size:31 final size:31
Alignment explanation
Indices: 37266941--37267003 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
37266931 TAAACTGCAC
37266941 AACTTAACTTTTTGTGTACAACCTTCCCACT
1 AACTTAACTTTTTGTGTACAACCTTCCCACT
37266972 AACTTAACTTTTTGTGTACAACCTTCCCACT
1 AACTTAACTTTTTGTGTACAACCTTCCCACT
37267003 A
1 A
37267004 TCCCTACACT
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:0.27, C:0.29, G:0.06, T:0.38
Consensus pattern (31 bp):
AACTTAACTTTTTGTGTACAACCTTCCCACT
Found at i:37270162 original size:28 final size:27
Alignment explanation
Indices: 37270096--37270165 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
37270086 ATAGTGAGTC
*
37270096 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
37270123 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
37270151 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37270166 GTACAAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:37270238 original size:42 final size:42
Alignment explanation
Indices: 37270179--37270280 Score: 195
Period size: 42 Copynumber: 2.4 Consensus size: 42
37270169 CAAATTCTAA
37270179 ACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTAT
1 ACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTAT
37270221 ACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTAT
1 ACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTAT
*
37270263 ACCCGTACACTTAGTGCC
1 ACCCGCACACTTAGTGCC
37270281 GAGACCAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
ACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCATTTAT
Found at i:37275012 original size:40 final size:40
Alignment explanation
Indices: 37274954--37275121 Score: 166
Period size: 40 Copynumber: 4.2 Consensus size: 40
37274944 CAATTGAATG
* * *
37274954 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAATACCCGAAGGCAATTGTGCAAGTG-CTT
*
37274995 -TATCCGAGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAATACCCGAAGGCAATT-GTGCAAG-TGCTT
* *
37275034 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAATACCCGAAGGCAATTGTGCAAGTGC-TT
* ** *
37275074 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAATACCCGAAGGCAATT-GTGCAAGTGCTT
37275114 ATATCCGG
1 ATATCCGG
37275122 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 11, Indels: 17
0.79 0.08 0.12
Matches are distributed among these distances:
39 8 0.07
40 96 0.89
41 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAATACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:37275092 original size:80 final size:79
Alignment explanation
Indices: 37274954--37275121 Score: 221
Period size: 80 Copynumber: 2.1 Consensus size: 79
37274944 CAATTGAATG
* * *
37274954 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGAGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGAGCTAAGACCCGAAGGCA
*
37275019 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* * *
37275034 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGAGCTAAGACCCGAAGGC
**
37275098 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
37275114 ATATCCGG
1 ATATCCGG
37275122 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.03
80 74 0.96
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGAGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:37281393 original size:28 final size:27
Alignment explanation
Indices: 37281327--37281396 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
37281317 ATAGTGAGTC
*
37281327 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
37281354 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
37281382 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37281397 GTACAAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:37282713 original size:23 final size:23
Alignment explanation
Indices: 37282687--37282732 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
37282677 TTTGTTTTCA
* * *
37282687 TCATATTCCTTTTTTTTTTCTTT
1 TCATATTCATTTCTTTATTCTTT
*
37282710 TCATTTTCATTTCTTTATTCTTT
1 TCATATTCATTTCTTTATTCTTT
37282733 CTAACATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (23 bp):
TCATATTCATTTCTTTATTCTTT
Found at i:37288984 original size:17 final size:18
Alignment explanation
Indices: 37288962--37288996 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
37288952 AGGCCAATCT
37288962 GGGTGTATGGGCC-ACAC
1 GGGTGTATGGGCCGACAC
*
37288979 GGGTGTGTGGGCCGACAC
1 GGGTGTATGGGCCGACAC
37288997 AAGCAAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.17
Consensus pattern (18 bp):
GGGTGTATGGGCCGACAC
Found at i:37298124 original size:53 final size:53
Alignment explanation
Indices: 37298044--37298148 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
37298034 TATGGCACAC
37298044 TTAAAACATTCATCAGGTGTACAAGACAGCTCATCAAACACACGGATGGTATG
1 TTAAAACATTCATCAGGTGTACAAGACAGCTCATCAAACACACGGATGGTATG
37298097 TTAAAACATTCATCAGGTGTACAAGACAGCTCATCAAACACACGGATGGTAT
1 TTAAAACATTCATCAGGTGTACAAGACAGCTCATCAAACACACGGATGGTAT
37298149 TATCAAGCCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (53 bp):
TTAAAACATTCATCAGGTGTACAAGACAGCTCATCAAACACACGGATGGTATG
Found at i:37299216 original size:2 final size:2
Alignment explanation
Indices: 37299203--37299232 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
37299193 AAGGTGAAAG
*
37299203 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37299233 GTCATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37311941 original size:20 final size:20
Alignment explanation
Indices: 37311916--37311962 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
37311906 TGAGGACACA
37311916 GGCGTGTCCCTAAGCACAAG
1 GGCGTGTCCCTAAGCACAAG
37311936 GGCGTGTCCCTAAGCACAAG
1 GGCGTGTCCCTAAGCACAAG
37311956 GGCGTGT
1 GGCGTGT
37311963 GTTTTGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.17
Consensus pattern (20 bp):
GGCGTGTCCCTAAGCACAAG
Found at i:37312850 original size:11 final size:12
Alignment explanation
Indices: 37312820--37312853 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
37312810 GTATGTTTAC
37312820 TTATTATATAAG
1 TTATTATATAAG
37312832 TGTATTAT-TAAG
1 T-TATTATATAAG
37312844 TTATTATATA
1 TTATTATATA
37312854 TATATAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:37312904 original size:15 final size:16
Alignment explanation
Indices: 37312878--37312907 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37312868 AATAAAAGAA
37312878 AGAAAGGAAACAAAAG
1 AGAAAGGAAACAAAAG
37312894 AGAAA-GAAACAAAA
1 AGAAAGGAAACAAAA
37312908 TAGCAAACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.07, G:0.20, T:0.00
Consensus pattern (16 bp):
AGAAAGGAAACAAAAG
Found at i:37313848 original size:18 final size:18
Alignment explanation
Indices: 37313827--37313925 Score: 78
Period size: 18 Copynumber: 5.6 Consensus size: 18
37313817 CTGAATTATC
*
37313827 GACTGTTACTGAATAACT
1 GACTATTACTGAATAACT
* *
37313845 GACTACTACTGAATAATT
1 GACTATTACTGAATAACT
*
37313863 GACTGA-TATTGAATAAAC-
1 GACT-ATTACTGAAT-AACT
* *
37313881 GACCATTATTGAATAACT
1 GACTATTACTGAATAACT
* *
37313899 GATTATTACTG-ATGACT
1 GACTATTACTGAATAACT
*
37313916 AACTATTACT
1 GACTATTACT
37313926 AAACAATAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
17 17 0.26
18 45 0.69
19 3 0.05
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (18 bp):
GACTATTACTGAATAACT
Found at i:37313855 original size:36 final size:36
Alignment explanation
Indices: 37313798--37313896 Score: 103
Period size: 36 Copynumber: 2.8 Consensus size: 36
37313788 TAAATAAAGG
* * *
37313798 TACTGAA-AATTGACCACTACTGAATTATCGACTGT
1 TACTGAATAACTGACCACTACTGAATAATCGACTGA
* *
37313833 TACTGAATAACTGACTACTACTGAATAATTGACTGA
1 TACTGAATAACTGACCACTACTGAATAATCGACTGA
* * *
37313869 TATTGAATAAAC-GACCATTATTGAATAA
1 TACTGAAT-AACTGACCACTACTGAATAA
37313897 CTGATTATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
35 7 0.13
36 43 0.81
37 3 0.06
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (36 bp):
TACTGAATAACTGACCACTACTGAATAATCGACTGA
Found at i:37318852 original size:45 final size:45
Alignment explanation
Indices: 37318767--37318852 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
37318757 ATAAGTGTCG
** * *
37318767 CCTTACTGTTACTGTTCCGGATTTGTTCTGAAGAGTTACTCCGTA
1 CCTTACTGTTACTGTTCCAAATTTGTTCCGAAGAGGTACTCCGTA
* *
37318812 CCTTACTGTTCCTGTTCCAAATTTGTTCCGATGAGGTACTC
1 CCTTACTGTTACTGTTCCAAATTTGTTCCGAAGAGGTACTC
37318853 TGTGTACCGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (45 bp):
CCTTACTGTTACTGTTCCAAATTTGTTCCGAAGAGGTACTCCGTA
Found at i:37318874 original size:47 final size:45
Alignment explanation
Indices: 37318770--37318874 Score: 111
Period size: 45 Copynumber: 2.3 Consensus size: 45
37318760 AGTGTCGCCT
** * * *
37318770 TACTGTTACTGTTCCGGATTTGTTCTGAAGAGTTACTCCGTACCT
1 TACTGTTACTGTTCCAAATTTGTTCCGAAGAGGTACTCCGTACCG
* * *
37318815 TACTGTTCCTGTTCCAAATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCAAATTTGTTCCGAAGAGGTACTC--CGTACCG
*
37318862 TACTGCTACTGTT
1 TACTGTTACTGTT
37318875 ACTGTTACTG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
45 32 0.67
47 16 0.33
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTCCAAATTTGTTCCGAAGAGGTACTCCGTACCG
Found at i:37318877 original size:6 final size:6
Alignment explanation
Indices: 37318862--37318896 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
37318852 CTGTGTACCG
* *
37318862 TACTGC TACTGT TACTGT TACTGT TACCGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG
37318897 ACGCGGTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (6 bp):
TACTGT
Found at i:37319057 original size:18 final size:18
Alignment explanation
Indices: 37319025--37319102 Score: 68
Period size: 18 Copynumber: 4.3 Consensus size: 18
37319015 AATTGACCGC
**
37319025 TACTGAATAGTTGACTGT
1 TACTGAATAACTGACTGT
*
37319043 TACTGAATAACTGACTGA
1 TACTGAATAACTGACTGT
* *
37319061 TATTGAATAAAC-GACCGT
1 TACTGAAT-AACTGACTGT
* * *
37319079 TATTGAATAACTGATTAT
1 TACTGAATAACTGACTGT
37319097 TACTGA
1 TACTGA
37319103 TGACTGAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
17 3 0.06
18 42 0.88
19 3 0.06
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:37327628 original size:23 final size:22
Alignment explanation
Indices: 37327597--37327640 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
37327587 TTGATCATAT
*
37327597 GTTTAGGTATGATTTTAGTTTAA
1 GTTTAGGTATGAATTTA-TTTAA
*
37327620 GTTTTGGTATGAATTTATTTA
1 GTTTAGGTATGAATTTATTTA
37327641 TGAATTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (22 bp):
GTTTAGGTATGAATTTATTTAA
Found at i:37329338 original size:15 final size:16
Alignment explanation
Indices: 37329311--37329340 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37329301 AGAGTACGAG
37329311 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
37329327 ATATGA-AATGTATA
1 ATATGAGAATGTATA
37329341 ATCTTTATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:37339139 original size:40 final size:40
Alignment explanation
Indices: 37339092--37339235 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
37339082 CTCGCACAAG
* * * *
37339092 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
37339132 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
37339172 GCCTTC-GGATCTTAG-TCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
37339212 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
37339236 CATTCAGTAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
39 15 0.16
40 67 0.74
41 9 0.10
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:37347374 original size:79 final size:78
Alignment explanation
Indices: 37347279--37347432 Score: 211
Period size: 79 Copynumber: 2.0 Consensus size: 78
37347269 CTCGTTCAAC
* * *
37347279 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGG-CTTAACCC-GATATC
37347344 ACAACTCGCACAATT
64 ACAACTCGCACAATT
* * * *
37347359 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGATATCAC
1 GCCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGGCTTAACCCGATATCAC
*
37347423 AATTCGCACA
66 AACTCGCACA
37347433 TTCATACACA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
77 17 0.26
78 7 0.11
79 33 0.50
80 9 0.14
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (78 bp):
GCCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGGCTTAACCCGATATCAC
AACTCGCACAATT
Found at i:37347388 original size:39 final size:40
Alignment explanation
Indices: 37347279--37347432 Score: 215
Period size: 39 Copynumber: 3.9 Consensus size: 40
37347269 CTCGTTCAAC
* * * * * *
37347279 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
*
37347319 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
37347359 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
*
37347398 GCCTTCGGG-CTTAGCCC-GATATCACAATTCGCACA
1 GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACA
37347433 TTCATACACA
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
38 17 0.16
39 46 0.44
40 42 0.40
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATT
Found at i:37355407 original size:40 final size:39
Alignment explanation
Indices: 37355343--37355502 Score: 203
Period size: 39 Copynumber: 4.1 Consensus size: 39
37355333 GCTACTCGTT
* * * *** *
37355343 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
*
37355383 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
*
37355423 CAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
* *
37355462 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
37355501 CA
1 CA
37355503 TTCATACACA
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 64 0.59
40 45 0.41
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.21
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCACAACTCGCA
Found at i:37355457 original size:39 final size:39
Alignment explanation
Indices: 37355379--37355502 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
37355369 TATGGTAACC
* *
37355379 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
37355419 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
37355458 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
37355497 CGCACA
1 CGCACA
37355503 TTCATACACA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 64 0.79
40 17 0.21
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:37358562 original size:38 final size:39
Alignment explanation
Indices: 37358455--37358616 Score: 281
Period size: 39 Copynumber: 4.2 Consensus size: 39
37358445 TATGGTAACC
* *
37358455 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
37358495 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
37358534 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
37358572 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
37358611 CGCACA
1 CGCACA
37358617 TTCATACACA
Statistics
Matches: 118, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
38 38 0.32
39 63 0.53
40 17 0.14
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:37358579 original size:77 final size:79
Alignment explanation
Indices: 37358455--37358616 Score: 283
Period size: 77 Copynumber: 2.1 Consensus size: 79
37358445 TATGGTAACC
37358455 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
37358520 CGGATATCACAACT
66 CGGATATCACAACT
* *
37358534 CGCACAATTGCCTTC-GG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
*
37358597 CGGATATCACAATT
66 CGGATATCACAACT
37358611 CGCACA
1 CGCACA
37358617 TTCATACACA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
77 64 0.80
78 2 0.03
79 14 0.17
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.22
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCACAACT
Found at i:37360344 original size:177 final size:177
Alignment explanation
Indices: 37360036--37360389 Score: 591
Period size: 177 Copynumber: 2.0 Consensus size: 177
37360026 TTCAAAGTTT
* *
37360036 ACTACTAGATCCTTTCTAGTGAAATTCACATTTATAACTCTAAATCGAAACATCAAAAATGTCAC
1 ACTACTAGATCCTTTCTAGTGAAATTCACATTTATAACACTAAATCGAAACATCAAAAATGCCAC
** * *
37360101 ACATGAATTAACACATATTATAGGCATCAAAATAAATTTTAAATTATTTTTATGCCTCGGTTTTG
66 ACACAAATTAACACATATCATAGGCATCAAAATAAATTTTAAATTATTTTTATGCCTCGATTTTG
* *
37360166 TGGTCCTGAAACCACATCCCCACTAGGGTCAATTTTGGGCTGTCACA
131 TGGTCCCGAAACCACATCCCCACTAGGGTAAATTTTGGGCTGTCACA
* * *
37360213 ACTACTAGGTCCTTTCTAGTGAAATTCACCTTTATAACACTAAATCGAATCATCAAAAATGCCAC
1 ACTACTAGATCCTTTCTAGTGAAATTCACATTTATAACACTAAATCGAAACATCAAAAATGCCAC
*
37360278 ACACAAATTAACACATATCATAGGCATCAAAATAAATTTTAAATTATTTTTATTCCTCGATTTTG
66 ACACAAATTAACACATATCATAGGCATCAAAATAAATTTTAAATTATTTTTATGCCTCGATTTTG
*
37360343 TGGTCCCGAAACCACATCCCGACTAGGGTAAATTTTGGGCTGTCACA
131 TGGTCCCGAAACCACATCCCCACTAGGGTAAATTTTGGGCTGTCACA
37360390 TTAGAAACCC
Statistics
Matches: 164, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
177 164 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (177 bp):
ACTACTAGATCCTTTCTAGTGAAATTCACATTTATAACACTAAATCGAAACATCAAAAATGCCAC
ACACAAATTAACACATATCATAGGCATCAAAATAAATTTTAAATTATTTTTATGCCTCGATTTTG
TGGTCCCGAAACCACATCCCCACTAGGGTAAATTTTGGGCTGTCACA
Found at i:37368783 original size:29 final size:28
Alignment explanation
Indices: 37368741--37368810 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
37368731 CATGAGATTG
* *
37368741 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AAATTATATA
**
37368770 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAAATTATATA
*
37368798 GCTCTAAGTGTGC
1 GCACTAAGTGTGC
37368811 AGCCTTATCG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAAATTATATA
Found at i:37372924 original size:39 final size:39
Alignment explanation
Indices: 37372773--37372966 Score: 244
Period size: 40 Copynumber: 4.9 Consensus size: 39
37372763 TGTTCAAACA
* * * * * *
37372773 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
37372813 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* * * * *
37372853 CCTTTGGAGTTTATCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGG-GCTTAGCCCGGATATCACAACTCGCACAATTG
37372893 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
37372932 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
37372967 TTCATACACA
Statistics
Matches: 135, Mismatches: 18, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
39 62 0.46
40 72 0.53
41 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:37375465 original size:43 final size:42
Alignment explanation
Indices: 37375354--37375470 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
37375344 TAGGGTTATT
**
37375354 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATGT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
* * * * *
37375396 GAGACTT-CGTGTAAAACCGTAGCTGGGCTATTGTCATCGATAC
1 GAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAC
* *
37375439 GAGATTACATGTAAGACTATATCTGGGATATG
1 GAGATTACGTGTAAGACCATATCTGGGATATG
37375471 CATTGGTACG
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:37384849 original size:47 final size:46
Alignment explanation
Indices: 37384779--37384996 Score: 176
Period size: 47 Copynumber: 4.7 Consensus size: 46
37384769 GATTTCTTGT
* **
37384779 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATA-TTACGA
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATAGAAACGA
* * *
37384825 GTGTTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATAGAAATGA
1 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATAGAAACGA
* * * * *
37384873 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGATAATGA
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAGA-AACGA
* * * * *
37384920 -TAGCCAGTGTAAGACGTGCCTGGGACATGCATCGGC-TA-AGA-GTC
1 GT-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAAACG-A
** *
37384964 GTGCTAGTAAAAGACATGTCCGGGACATGCATC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
37384997 AGCACGTATA
Statistics
Matches: 139, Mismatches: 26, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
43 1 0.01
44 26 0.19
45 2 0.01
46 23 0.17
47 65 0.47
48 22 0.16
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAAACGA
Found at i:37386007 original size:55 final size:54
Alignment explanation
Indices: 37385895--37386009 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 54
37385885 CCACACGGGT
* * * *
37385895 GTGTGTCATGGCCGTGTTTTAAGTCAGTGTTGTACAAGGGCAAGTCCCACAGAC
1 GTGTGTAATGGCCGTGTTTTAAGTCAGTGTTGCACAAGGGCAAGGCACACAGAC
* * *
37385949 GTGTGTAATGGTCTTGTTTTGAAGTCAGTGTTGCACACGGGCTAAGGGCACA-AG-C
1 GTGTGTAATGGCCGTGTTTT-AAGTCAGTGTTGCACAAGGGC-AA-GGCACACAGAC
37386004 GTGTGT
1 GTGTGT
37386010 GACCACACGG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 17 0.33
55 26 0.51
56 4 0.08
57 4 0.08
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (54 bp):
GTGTGTAATGGCCGTGTTTTAAGTCAGTGTTGCACAAGGGCAAGGCACACAGAC
Found at i:37388097 original size:47 final size:44
Alignment explanation
Indices: 37388024--37388203 Score: 171
Period size: 47 Copynumber: 3.9 Consensus size: 44
37388014 ATTTCTTGTG
*
37388024 TGCCAGTGTAAGACATGTCTGGGACATGGATCGGCCATATTATGGA
1 TGCCAGTGTAAGACATGTCTGGGACATGGATCGG-CATATGAT-GA
** * *
37388070 TGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGCGTAGAGATGA
1 TGCCAGTGTAAGA-CATGTCTGGGACATGG-ATCGGCATA-TGATGA
* * *
37388117 GTGCCAGTGTAAGACATGTTTGGGACATGCATCAGGCTTGATGATGA
1 -TGCCAGTGTAAGACATGTCTGGGACATGGATC-GGCAT-ATGATGA
** * *
37388164 TAGCCAGTGTAAGATGTGTCTGGGACATGCATCAGCATAT
1 T-GCCAGTGTAAGACATGTCTGGGACATGGATCGGCATAT
37388204 ATATACGAGA
Statistics
Matches: 111, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 19 0.17
47 71 0.64
48 19 0.17
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (44 bp):
TGCCAGTGTAAGACATGTCTGGGACATGGATCGGCATATGATGA
Found at i:37402813 original size:29 final size:29
Alignment explanation
Indices: 37402759--37402814 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
37402749 TTTGGCCATG
**
37402759 GCATATATAAATTCATATATTTCATTTCA
1 GCATATATAAATTCATATATAGCATTTCA
*
37402788 GCATATATATATAT-ATATATAGCATTT
1 GCATATATAAAT-TCATATATAGCATTT
37402815 AATTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 22 0.96
30 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (29 bp):
GCATATATAAATTCATATATAGCATTTCA
Found at i:37410081 original size:46 final size:46
Alignment explanation
Indices: 37410031--37410204 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
37410021 TGGTTGAGCA
37410031 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37410077 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* **
37410122 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
37410170 CCCAAACTTATTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
37410205 AGGCGGGTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37410187 original size:93 final size:93
Alignment explanation
Indices: 37410028--37410198 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
37410018 GGATGGTTGA
*** * *
37410028 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCAAACTCATTGAGT
37410093 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
37410121 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCAAACTTATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCAAACTCATTGAGT
37410186 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
37410199 ACTTATAGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCAAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37420012 original size:40 final size:39
Alignment explanation
Indices: 37419829--37420012 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
37419819 ACGACTCGCT
** * **
37419829 CAAATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
37419869 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
37419909 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * * *
37419947 TGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 -CAAAGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
37419988 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
37420013 CATCATTCGA
Statistics
Matches: 113, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
38 23 0.20
39 20 0.18
40 62 0.55
41 8 0.07
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:37425167 original size:40 final size:40
Alignment explanation
Indices: 37425121--37425344 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
37425111 CTTGCACAAG
* * *
37425121 GCCTTCGGGTCTTAGCCCGGATGTGGTCGCTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
37425161 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
37425201 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
37425241 GCCTTCGGGTCTTAGCCC-GATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * *
37425280 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
*
37425321 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
37425345 CATTCGAATA
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 31 0.20
40 96 0.61
41 30 0.19
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:37425216 original size:80 final size:80
Alignment explanation
Indices: 37425085--37425344 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
37425075 CTCAAGTAAT
* * * * * * *
37425085 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
37425148 CGCTAGCATAAATGC
66 CGCTAGCACAAATGC
* * *
37425163 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
37425227 TCGCTAGCACAAATGC
65 TCGCTAGCACAAATGC
* * * * * *
37425243 CTTCGGGTCTTAGCCC-GATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* *
37425307 CACCTAGCACAAAAGC
66 C-GCTAGCACAAATGC
37425323 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
37425345 CATTCGAATA
Statistics
Matches: 154, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
78 13 0.08
79 54 0.35
80 82 0.53
81 5 0.03
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CGCTAGCACAAATGC
Found at i:37433357 original size:40 final size:40
Alignment explanation
Indices: 37433311--37433535 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
37433301 CTTGCACAAG
* * *
37433311 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
37433351 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
37433391 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
37433431 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
37433471 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
37433512 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
37433536 CATTCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:37433406 original size:80 final size:80
Alignment explanation
Indices: 37433275--37433535 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
37433265 CTCAAGTAAT
* * * * * * *
37433275 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
37433338 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
37433353 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
37433417 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
37433433 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
37433498 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
37433514 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
37433536 CATTCGAATA
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:37439286 original size:27 final size:27
Alignment explanation
Indices: 37439227--37439287 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
37439217 GGTATGTCTC
37439227 ATAGGGGCATAACAGTCATTTTATCAT
1 ATAGGGGCATAACAGTCATTTTATCAT
*
37439254 ACAGGGGCATAACAGTCATTTTATCGAT
1 ATAGGGGCATAACAGTCATTTTATC-AT
37439282 -TAGGGG
1 ATAGGGG
37439288 TACAGGTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (27 bp):
ATAGGGGCATAACAGTCATTTTATCAT
Found at i:37446895 original size:42 final size:42
Alignment explanation
Indices: 37446849--37446955 Score: 178
Period size: 42 Copynumber: 2.5 Consensus size: 42
37446839 TATTGGTCTC
*
37446849 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATT
*
37446891 GGCACTAAGTGTGCGGGTATAAGTGGACACAGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATT
* *
37446933 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
37446956 ATTTGTACAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACAGTGACAAGATT
Found at i:37447021 original size:27 final size:28
Alignment explanation
Indices: 37446964--37447033 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
37446954 AAATTTGTAC
**
37446964 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
37446992 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
37447019 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37447034 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:37454907 original size:26 final size:28
Alignment explanation
Indices: 37454846--37454914 Score: 115
Period size: 26 Copynumber: 2.5 Consensus size: 28
37454836 AAAATTGTAC
37454846 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
37454874 AGCACTAAGTGTGCGAG-TTGAT-TTAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
37454900 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
37454915 GACTCACTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 18 0.45
27 5 0.12
28 17 0.43
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:37459074 original size:38 final size:39
Alignment explanation
Indices: 37458997--37459162 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 39
37458987 CGGAATACAA
* * *
37458997 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTATTAGC
*
37459037 CCGGATATAACGACTCGCAC-ATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTCGCACAATGCCTTCGGGTATTAGC
*
37459075 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTATTAGC
* * *
37459115 CCGGATA-AAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAA--CAACTCGCACAA-TGCCTTCGGGTATTAGC
*
37459155 CCAGATAT
1 CCGGATAT
37459163 CATTCAATTG
Statistics
Matches: 111, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
38 35 0.32
39 4 0.04
40 71 0.64
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CCGGATATAACAACTCGCACAATGCCTTCGGGTATTAGC
Found at i:37459135 original size:78 final size:80
Alignment explanation
Indices: 37458997--37459162 Score: 214
Period size: 78 Copynumber: 2.1 Consensus size: 80
37458987 CGGAATACAA
* * *
37458997 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCAC-A-TG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAATTG
*
37459060 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
**
37459075 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAT
*
37459138 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
*
37459155 CCAGATAT
1 CCGGATAT
37459163 CATTCAATTG
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
76 1 0.01
77 2 0.03
78 50 0.66
79 1 0.01
80 22 0.29
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAATTG
CCTTCGGGTATTAAC
Found at i:37461402 original size:11 final size:11
Alignment explanation
Indices: 37461386--37461413 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
37461376 ACCAAGAGTC
37461386 AAAAGGAGCCA
1 AAAAGGAGCCA
37461397 AAAAGGAGCCA
1 AAAAGGAGCCA
37461408 AAAAGG
1 AAAAGG
37461414 GACAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.14, G:0.29, T:0.00
Consensus pattern (11 bp):
AAAAGGAGCCA
Found at i:37464876 original size:28 final size:29
Alignment explanation
Indices: 37464843--37464918 Score: 111
Period size: 28 Copynumber: 2.7 Consensus size: 29
37464833 GAATCATTCG
*
37464843 ATATTTTGCACACTAAGTGTC-ATTCTCA
1 ATATTTCGCACACTAAGTGTCTATTCTCA
37464871 ATATTTCGCACACTAAGTG-CTATTCTCA
1 ATATTTCGCACACTAAGTGTCTATTCTCA
* *
37464899 ATACTTCGTACACTAAGTGT
1 ATATTTCGCACACTAAGTGT
37464919 AACACCCCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (29 bp):
ATATTTCGCACACTAAGTGTCTATTCTCA
Found at i:37465007 original size:9 final size:8
Alignment explanation
Indices: 37464981--37465006 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
37464971 CTTAATTCCC
37464981 TTATTTTT
1 TTATTTTT
37464989 TTATTTTT
1 TTATTTTT
37464997 TTATTTTT
1 TTATTTTT
37465005 TT
1 TT
37465007 TTACAGTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:37466382 original size:40 final size:40
Alignment explanation
Indices: 37466324--37466541 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
37466314 GAACCACTCG
* * * * *
37466324 CAAA-GCCATCGGGCCTTAGCCCGGATATGGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
37466363 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
37466403 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
37466443 CAAATGCCTTCGGGACTTAACCCAGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
37466483 CAAATGCCTTCGGGACTTAACCCGGA-ATTAATCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
*
37466523 CAAATGTCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
37466542 ACCCCGTTAT
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 5 0.03
40 160 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:37470589 original size:29 final size:28
Alignment explanation
Indices: 37470555--37470657 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
37470545 TAATCGATCA
*
37470555 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
37470584 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
37470613 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
* *
37470642 TGCACACTTTGTGCCA
1 CGCACACTTAGTGCCA
37470658 ATCTCATCAC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 60 0.91
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:37476124 original size:43 final size:43
Alignment explanation
Indices: 37476072--37476218 Score: 132
Period size: 43 Copynumber: 3.1 Consensus size: 43
37476062 TTCTAATTGA
37476072 AAATTCAATGTTTTTACGCATCAAGCCCACATATATTTTCTGT
1 AAATTCAATGTTTTTACGCATCAAGCCCACATATATTTTCTGT
* * * *
37476115 AAATTCAATGTTTTTACGCACTATAATACTTTCACAAATAGTCAATTTTCTAATTGA
1 AAATTCAATGTTTTTACGCA-T-CAA-GC---C-CACATA-T--ATTTTC----TGT
37476172 AAATTCAATGTTTTTACGCATCAAGCCCACATATATTTTCTGT
1 AAATTCAATGTTTTTACGCATCAAGCCCACATATATTTTCTGT
37476215 AAAT
1 AAAT
37476219 CTGAAACTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
43 26 0.32
44 1 0.01
45 2 0.02
46 1 0.01
47 6 0.07
49 2 0.02
50 10 0.12
51 2 0.02
53 6 0.07
54 1 0.01
55 2 0.02
56 1 0.01
57 22 0.27
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (43 bp):
AAATTCAATGTTTTTACGCATCAAGCCCACATATATTTTCTGT
Found at i:37478653 original size:46 final size:47
Alignment explanation
Indices: 37478547--37478662 Score: 144
Period size: 50 Copynumber: 2.4 Consensus size: 47
37478537 TGTCTTCGAC
* * *
37478547 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGATCATTCCTATCTCCAAAGCC--A-ATATATCTAAT
* * *
37478597 ATGGGCTTACATGGATCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGATCATTCCTATCTCCAAAGCCAATATATCTAAT
37478643 ATGGACTTACATGGATCATT
1 ATGGACTTACATGGATCATT
37478663 TTTGTCCTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 29 0.49
50 30 0.51
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGATCATTCCTATCTCCAAAGCCAATATATCTAAT
Found at i:37483860 original size:28 final size:28
Alignment explanation
Indices: 37483795--37483893 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
37483785 CTAGTGAGTC
* *
37483795 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
37483822 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
37483850 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
37483880 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37483894 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:37491651 original size:28 final size:28
Alignment explanation
Indices: 37491586--37491684 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
37491576 CTAGTGAGTC
* *
37491586 CGCACACTTAGTGCTATATATTC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
37491613 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
37491641 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
37491671 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37491685 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
30 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:37494226 original size:40 final size:40
Alignment explanation
Indices: 37494091--37494395 Score: 452
Period size: 40 Copynumber: 7.6 Consensus size: 40
37494081 TGGATGATAA
*
37494091 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
** *
37494132 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTTTTTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TTACTATAT
37494173 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
37494213 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37494253 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
37494293 CCAGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37494333 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37494373 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
37494396 AAACGAGTAG
Statistics
Matches: 243, Mismatches: 18, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
40 180 0.74
41 59 0.24
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:37494329 original size:120 final size:119
Alignment explanation
Indices: 37494091--37494429 Score: 450
Period size: 120 Copynumber: 2.8 Consensus size: 119
37494081 TGGATGATAA
* **
37494091 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACATCCGGGCTAAGTCCCGAAGGCATT
* ** * *
37494155 TGTGCGAGTTTTTTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
64 TGTACGAG-TTACTATATCC-GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* *
37494213 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
37494278 TACGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
66 TACGAGTTACTATATCC-GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* * * *
37494333 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
37494397 AACGAG-TAGCTATATCCGGTTAAATCCCGAAGG
66 TACGAGTTA-CTATATCCGGCTAAGTCCCGAAGG
37494430 TACTTGGCTT
Statistics
Matches: 195, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
118 16 0.08
119 15 0.08
120 100 0.51
121 37 0.19
122 24 0.12
123 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
TACGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
Found at i:37502370 original size:40 final size:40
Alignment explanation
Indices: 37502283--37502620 Score: 461
Period size: 40 Copynumber: 8.5 Consensus size: 40
37502273 TGGATGATAA
*
37502283 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * * *
37502324 CTGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
37502364 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
37502404 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37502444 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37502484 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
37502524 CCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
37502564 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
37502603 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37502621 TACTTGGCTT
Statistics
Matches: 267, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
38 15 0.06
39 16 0.06
40 210 0.79
41 23 0.09
42 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:37508053 original size:51 final size:50
Alignment explanation
Indices: 37507998--37508146 Score: 143
Period size: 51 Copynumber: 3.1 Consensus size: 50
37507988 CTACCACATA
*
37507998 ACATGTAACACATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGTT
1 ACATGTAACACATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATG-T
* * * * * *
37508049 ACATG-AATCACATACATCATGAACTTGGACCACTCAATGAGCTCGGATG-
1 ACATGTAA-CACATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATGT
*
37508098 -C---T--CGCATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATGCT
1 ACATGTAACACATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATG-T
37508143 ACAT
1 ACAT
37508147 ACCTCACGAA
Statistics
Matches: 77, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
43 34 0.44
46 1 0.01
48 1 0.01
50 2 0.03
51 39 0.51
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (50 bp):
ACATGTAACACATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATGT
Found at i:37513672 original size:23 final size:23
Alignment explanation
Indices: 37513646--37513695 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
37513636 ACATATATCA
* *
37513646 ACATC-CTCCACTAGTGATATGCC
1 ACATCTCTCAACTA-TGATATGAC
37513669 ACATCTCTCAACTATGATATGAC
1 ACATCTCTCAACTATGATATGAC
37513692 ACAT
1 ACAT
37513696 TTCAAGCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.32, C:0.30, G:0.10, T:0.28
Consensus pattern (23 bp):
ACATCTCTCAACTATGATATGAC
Found at i:37516972 original size:46 final size:46
Alignment explanation
Indices: 37516922--37517097 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
37516912 TATTTGGGCA
37516922 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
37516968 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
37517015 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
37517061 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37517098 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:37517077 original size:93 final size:93
Alignment explanation
Indices: 37516918--37517089 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37516908 TGGATATTTG
* *
37516918 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
37516983 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
37517011 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
37517076 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
37517090 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:37520031 original size:15 final size:15
Alignment explanation
Indices: 37520011--37520079 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
37520001 GTATCTTGGG
37520011 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
37520026 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
37520041 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
37520056 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
37520071 TTTCTTTAT
1 TTTCTTTAT
37520080 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:37520080 original size:30 final size:30
Alignment explanation
Indices: 37520002--37520089 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
37519992 CATAGTATCG
* * * *
37520002 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
37520032 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
37520062 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
37520090 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:37522524 original size:46 final size:46
Alignment explanation
Indices: 37522474--37522649 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
37522464 TATTTGGGCA
37522474 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
37522520 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
37522567 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
37522613 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37522650 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:37522629 original size:93 final size:93
Alignment explanation
Indices: 37522470--37522641 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37522460 TGGATATTTG
* *
37522470 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
37522535 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
37522563 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
37522628 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
37522642 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:37524397 original size:43 final size:43
Alignment explanation
Indices: 37524336--37524421 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
37524326 TATGTGAATT
* *
37524336 GCATCCATCATGAACTCGGACCACTCAATGAGCTCAGATGCTA
1 GCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCTA
* * *
37524379 GCATCTATAATGAACTCGGACCTCTCAACGAGCTCGGATGCTA
1 GCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCTA
37524422 CATAACTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (43 bp):
GCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGCTA
Found at i:37528809 original size:29 final size:29
Alignment explanation
Indices: 37528785--37528878 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
37528775 TCGCACACCC
*
37528785 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
37528814 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
37528843 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
37528872 AGTGCCA
1 AGTGCCA
37528879 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:37528810 original size:58 final size:58
Alignment explanation
Indices: 37528748--37528878 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
37528738 ATTTAAGCCC
* * * *
37528748 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
37528806 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
37528864 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
37528879 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:37535956 original size:2 final size:2
Alignment explanation
Indices: 37535949--37535979 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37535939 TCGATCGGAG
37535949 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37535980 GTACGCACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37536102 original size:29 final size:29
Alignment explanation
Indices: 37536070--37536142 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
37536060 CTTCGAGCCC
* *
37536070 GCACACCCAGTGCCGTATATTTCTAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
37536099 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
37536128 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
37536143 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:37544086 original size:45 final size:45
Alignment explanation
Indices: 37544004--37544131 Score: 152
Period size: 45 Copynumber: 2.9 Consensus size: 45
37543994 CCGAATTCAT
* * * * *
37544004 TCACCGGCA-TTTCGCCTACTAGGCTC-GAGGCCTGAATAATATC
1 TCACCGGCAGTATAGCCTCCTAGGCTCAAAGGCCCGAATAATATC
* *
37544047 TCACCGGTAGTATAGCCTCCTATGCTCAAAGGCCCGAATAATATC
1 TCACCGGCAGTATAGCCTCCTAGGCTCAAAGGCCCGAATAATATC
* * *
37544092 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCAGTATAGCCTCCTAGGCTCAAAGGCCCGAATA
37544132 GTACTGTACA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 8 0.11
44 13 0.18
45 50 0.70
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCAGTATAGCCTCCTAGGCTCAAAGGCCCGAATAATATC
Found at i:37549593 original size:51 final size:51
Alignment explanation
Indices: 37549517--37549622 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
37549507 TAATACCCCG
37549517 CTAAACCCAGGAAACTTCGAATTTCAGATATAGTCCTTGGTGGTTTCTATT
1 CTAAACCCAGGAAACTTCGAATTTCAGATATAGTCCTTGGTGGTTTCTATT
37549568 CTAAACCCAGGAAACTTCGAATTTCAGATATAGTCCTTGGTGGTTTCTATT
1 CTAAACCCAGGAAACTTCGAATTTCAGATATAGTCCTTGGTGGTTTCTATT
37549619 CTAA
1 CTAA
37549623 CACGGCTTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (51 bp):
CTAAACCCAGGAAACTTCGAATTTCAGATATAGTCCTTGGTGGTTTCTATT
Found at i:37552414 original size:14 final size:14
Alignment explanation
Indices: 37552392--37552421 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37552382 TCTATTGAAA
37552392 AAAAATTCAAAACC
1 AAAAATTCAAAACC
*
37552406 AAAAGTTCAAAACC
1 AAAAATTCAAAACC
37552420 AA
1 AA
37552422 TTTAAGATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.20, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAATTCAAAACC
Found at i:37555584 original size:45 final size:45
Alignment explanation
Indices: 37555534--37555679 Score: 109
Period size: 45 Copynumber: 3.2 Consensus size: 45
37555524 GTTATAATGG
37555534 CATGTATAAGTGAACTTGTATTAATGATCTAGTTGTTATGTTTGA
1 CATGTATAAGTGAACTTGTATTAATGATCTAGTTGTTATGTTTGA
* * * * ** * **
37555579 CATGTATATATGTGGTA-TTATGGTTGATGAAGT-TTTGGCAT-TTTGA
1 CATGTATA-A-GT-GAACTTGT-ATTAATGATCTAGTTGTTATGTTTGA
* **
37555625 TGCTTAAATAAGTGAACTTGTATTAATGATCTAGTTGTTATGTTTGA
1 --CATGTATAAGTGAACTTGTATTAATGATCTAGTTGTTATGTTTGA
37555672 CATGTATA
1 CATGTATA
37555680 TATGTGGTAT
Statistics
Matches: 68, Mismatches: 24, Indels: 18
0.62 0.22 0.16
Matches are distributed among these distances:
45 22 0.32
46 16 0.24
47 16 0.24
48 14 0.21
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (45 bp):
CATGTATAAGTGAACTTGTATTAATGATCTAGTTGTTATGTTTGA
Found at i:37555657 original size:93 final size:93
Alignment explanation
Indices: 37555539--37555726 Score: 376
Period size: 93 Copynumber: 2.0 Consensus size: 93
37555529 AATGGCATGT
37555539 ATAAGTGAACTTGTATTAATGATCTAGTTGTTATGTTTGACATGTATATATGTGGTATTATGGTT
1 ATAAGTGAACTTGTATTAATGATCTAGTTGTTATGTTTGACATGTATATATGTGGTATTATGGTT
37555604 GATGAAGTTTTGGCATTTTGATGCTTAA
66 GATGAAGTTTTGGCATTTTGATGCTTAA
37555632 ATAAGTGAACTTGTATTAATGATCTAGTTGTTATGTTTGACATGTATATATGTGGTATTATGGTT
1 ATAAGTGAACTTGTATTAATGATCTAGTTGTTATGTTTGACATGTATATATGTGGTATTATGGTT
37555697 GATGAAGTTTTGGCATTTTGATGCTTAA
66 GATGAAGTTTTGGCATTTTGATGCTTAA
37555725 AT
1 AT
37555727 GGTTGATGAT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 95 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.45
Consensus pattern (93 bp):
ATAAGTGAACTTGTATTAATGATCTAGTTGTTATGTTTGACATGTATATATGTGGTATTATGGTT
GATGAAGTTTTGGCATTTTGATGCTTAA
Found at i:37557702 original size:29 final size:27
Alignment explanation
Indices: 37557646--37557704 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
37557636 ATTTGAGTAA
*
37557646 TTAGGGCTAAATTGTAAAAATTATAAAT
1 TTAGGGCTAAAATGTAAAAA-TATAAAT
37557674 TTAGGGACTAAAATGTGAAAAA-ATGAAAT
1 TTAGGG-CTAAAATGT-AAAAATAT-AAAT
37557703 TT
1 TT
37557705 GTAATGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 8 0.30
29 14 0.52
30 5 0.19
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.32
Consensus pattern (27 bp):
TTAGGGCTAAAATGTAAAAATATAAAT
Found at i:37560277 original size:12 final size:12
Alignment explanation
Indices: 37560262--37560292 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37560252 ATATGTAACT
37560262 ATATATATATAA
1 ATATATATATAA
*
37560274 ATATATATATAC
1 ATATATATATAA
37560286 ATATATA
1 ATATATA
37560293 CATATTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATATATAA
Found at i:37566589 original size:33 final size:34
Alignment explanation
Indices: 37566539--37566646 Score: 107
Period size: 34 Copynumber: 3.2 Consensus size: 34
37566529 ATTGCATACT
*
37566539 ATACTGATTCTGTAATGGGCTTAGGCCC-CACTG
1 ATACTGATTCTGGAATGGGCTTAGGCCCACACTG
37566572 ATACTG-TTACTGGAATGGGCTTAGGCCCACACT-
1 ATACTGATT-CTGGAATGGGCTTAGGCCCACACTG
* * * *
37566605 ATTTCTGATTTTGAAATGGGCTAAGGCCCTA-ACTG
1 A-TACTGATTCTGGAATGGGCTTAGGCCC-ACACTG
*
37566640 AAACTGA
1 ATACTGA
37566647 GAGGGCTTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
32 2 0.03
33 25 0.40
34 31 0.50
35 4 0.06
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (34 bp):
ATACTGATTCTGGAATGGGCTTAGGCCCACACTG
Found at i:37569275 original size:40 final size:39
Alignment explanation
Indices: 37569180--37569307 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
37569170 TGCTGGAAAT
* * * *
37569180 TATATCCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
* *
37569219 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
37569259 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
37569299 TATATCCGG
1 TATATCCGG
37569308 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.35
40 48 0.62
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:37576471 original size:40 final size:39
Alignment explanation
Indices: 37576376--37576503 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
37576366 TGCTGGAAAT
* * * *
37576376 TATATCCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
* *
37576415 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
37576455 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ATGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
37576495 TATATCCGG
1 TATATCCGG
37576504 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.35
40 48 0.62
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:37589819 original size:20 final size:20
Alignment explanation
Indices: 37589794--37589833 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37589784 ATTGACCTAC
37589794 ATTTTAATGTATAATTTGTA
1 ATTTTAATGTATAATTTGTA
37589814 ATTTTAATGTATAATTTGTA
1 ATTTTAATGTATAATTTGTA
37589834 TACATATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (20 bp):
ATTTTAATGTATAATTTGTA
Found at i:37590473 original size:21 final size:21
Alignment explanation
Indices: 37590447--37590491 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
37590437 TGTTTGATTT
37590447 TTATTAGGTATTCGAATACCG
1 TTATTAGGTATTCGAATACCG
37590468 TTATTAGGTATTCGAATACCG
1 TTATTAGGTATTCGAATACCG
37590489 TTA
1 TTA
37590492 AAGTGTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (21 bp):
TTATTAGGTATTCGAATACCG
Found at i:37595755 original size:30 final size:30
Alignment explanation
Indices: 37595721--37595780 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
37595711 CTTTAATATG
*
37595721 AACTTTGGAAAAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
37595751 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
37595781 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:37603018 original size:30 final size:30
Alignment explanation
Indices: 37602983--37603042 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
37602973 CTTTAATACG
*
37602983 AACTTTGGCAAAATTAAATTTTTGCCCCTA
1 AACTTTGGCAAAATTAAACTTTTGCCCCTA
* * *
37603013 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTAAACTTTTGCCCCTA
37603043 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTAAACTTTTGCCCCTA
Found at i:37625932 original size:27 final size:28
Alignment explanation
Indices: 37625845--37625944 Score: 105
Period size: 27 Copynumber: 3.6 Consensus size: 28
37625835 ATACAGAAAA
* * *
37625845 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATAATT
* *
37625874 TGTGGCAGTGCCACCAGAACAGAT-ATA
1 TGTGGCAGAGCCACCAGAACAGATAATT
* *
37625901 CGTGGCAGGGCCACCA-AACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGATAATT
*
37625928 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
37625945 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
26 7 0.12
27 30 0.52
28 6 0.10
29 15 0.26
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (28 bp):
TGTGGCAGAGCCACCAGAACAGATAATT
Found at i:37626106 original size:28 final size:28
Alignment explanation
Indices: 37626050--37626114 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
37626040 AAATTAACCC
*
37626050 TAGGGGTATAAAGGTCAGTTTGCACACA
1 TAGGGGTATAAAGGTAAGTTTGCACACA
* * * *
37626078 TAGGGGTATAATGGTAATTTTTCATACA
1 TAGGGGTATAAAGGTAAGTTTGCACACA
37626106 TAGGGGTAT
1 TAGGGGTAT
37626115 TCTAGTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAAGTTTGCACACA
Found at i:37627197 original size:12 final size:13
Alignment explanation
Indices: 37627178--37627210 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
37627168 GGGTTCGGCT
37627178 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
37627191 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
37627203 ATGGAGAA
1 ATGGAGAA
37627211 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:37634136 original size:29 final size:29
Alignment explanation
Indices: 37634102--37634206 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
37634092 TACTCGATTT
* * *
37634102 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
37634131 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
37634160 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
37634189 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
37634207 TATTTCCAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:37634207 original size:29 final size:29
Alignment explanation
Indices: 37634161--37634231 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
37634151 CTTCGAGCTC
37634161 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
37634190 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
37634219 GCACACTTAGTGC
1 GCACACTTAGTGC
37634232 TAATCTCGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:37646687 original size:66 final size:65
Alignment explanation
Indices: 37646560--37646687 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 65
37646550 TACTATGTGT
* * *
37646560 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCCATGCGTGGTTCCAAGTGAAG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAATG-AGCTAGGTCCATGCGTGGTACCAAGTGAAG
37646625 G
65 G
* *
37646626 ACACCATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACGAGATAAA-TGAGCTAGGTC-CATGCGTGGTACCAAGTG
37646688 TTCACCATGT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
65 8 0.15
66 45 0.82
67 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (65 bp):
ACACCATGTAGACAAGAGAGCTACGAGATAAATGAGCTAGGTCCATGCGTGGTACCAAGTGAAGG
Found at i:37653729 original size:56 final size:56
Alignment explanation
Indices: 37653658--37653817 Score: 223
Period size: 56 Copynumber: 2.9 Consensus size: 56
37653648 ACCTGGAAGT
*
37653658 ATATG-TGGCATCGATATGTGACTCCGATATATATGTGCAAGTAAGTCCACATTTA
1 ATATGTTGGCATCGATATGTGACTCCGATATATATGTGCAAGTAAGACCACATTTA
* * * *
37653713 ATATGTTGGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACCACGTTTA
1 ATATGTTGGCATCGATATGTGACTCCGATATATATGTGCAAGTAAGACCACATTTA
* * * * *
37653769 ATACGTTGGCATCGATATATGACTCCGATATATGTGTACGAGTAAGACC
1 ATATGTTGGCATCGATATGTGACTCCGATATATATGTGCAAGTAAGACC
37653818 CTGTCTAGGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 5 0.05
56 90 0.95
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (56 bp):
ATATGTTGGCATCGATATGTGACTCCGATATATATGTGCAAGTAAGACCACATTTA
Found at i:37674125 original size:40 final size:39
Alignment explanation
Indices: 37674002--37674165 Score: 238
Period size: 39 Copynumber: 4.2 Consensus size: 39
37673992 TGTGTATGAA
*
37674002 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
37674041 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * * *
37674080 TGTGCGAGCTATGATATCCGGGATAAACTTCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGC-CCGAAGGCAAT
* *
37674120 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
37674160 TGTGCG
1 TGTGCG
37674166 GGTTATCATA
Statistics
Matches: 111, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 62 0.56
40 48 0.43
41 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:37674129 original size:79 final size:79
Alignment explanation
Indices: 37674013--37674184 Score: 247
Period size: 79 Copynumber: 2.2 Consensus size: 79
37674003 GTGCGAATTG
* *
37674013 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
37674077 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
37674091 TGATATCCGGGATAAACTTCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGG
1 TGATATCCGGGATAAAC-CCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGG
* * *
37674156 CATTTGTGCGGGTTA
65 CAATTGTGCGAGCTA
* *
37674171 TCATAACCGGGATA
1 TGATATCCGGGATA
37674185 TGTCCCGAAG
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 15 0.18
79 36 0.43
80 32 0.39
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (79 bp):
TGATATCCGGGATAAACCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:37674181 original size:40 final size:39
Alignment explanation
Indices: 37674002--37674195 Score: 226
Period size: 40 Copynumber: 4.9 Consensus size: 39
37673992 TGTGTATGAA
* * *
37674002 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGATAAGCCCGAAGGCAAT
* *
37674041 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGATAAGCCCGAAGGCAAT
* * *
37674080 TGTGCGAGCTATGATATCCGGGATAAACTTCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGATAAGC-CCGAAGGCAAT
* * *
37674120 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGATAAG-CCCGAAGGCAAT
* * * *
37674160 TGTGCGGGTTATCATAACCGGGATATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGATAAG-CCCGAAGG
37674196 TGTTTGAACG
Statistics
Matches: 135, Mismatches: 18, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
39 62 0.46
40 72 0.53
41 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGATAAGCCCGAAGGCAAT
Found at i:37682101 original size:40 final size:39
Alignment explanation
Indices: 37681977--37682170 Score: 244
Period size: 40 Copynumber: 4.9 Consensus size: 39
37681967 TGTGTATGAA
*
37681977 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
37682016 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
37682055 TGTGCGAGCTATGATATCCGGGATAAACTCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGC-CCGAAGGCAAT
* * *
37682095 TATGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
37682135 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
37682171 TGTTTGAACG
Statistics
Matches: 135, Mismatches: 18, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
39 62 0.46
40 72 0.53
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Done.