Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 93 of 770
Found at i:27147545 original size:41 final size:39
Alignment explanation
Indices: 27147474--27147582 Score: 155
Period size: 41 Copynumber: 2.7 Consensus size: 39
27147464 CGGCGAGCAT
*
27147474 TAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTGTACCTA
1 TAGCGGCG-TTTTTAAAAAGCGCCGCTAAAGGTGTACATA
* *
27147514 TAGCGGCGTTTCTTAAAAAAACGCCGCTAAAGGTTTACATA
1 TAGCGGCGTTT-TT-AAAAAGCGCCGCTAAAGGTGTACATA
*
27147555 TAGCGGCATTTTTAAAAAGCGCCGCTAA
1 TAGCGGCGTTTTTAAAAAGCGCCGCTAA
27147583 TGCTTGTTCT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 17 0.27
40 12 0.19
41 33 0.53
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (39 bp):
TAGCGGCGTTTTTAAAAAGCGCCGCTAAAGGTGTACATA
Found at i:27147606 original size:39 final size:38
Alignment explanation
Indices: 27147474--27147606 Score: 133
Period size: 39 Copynumber: 3.3 Consensus size: 38
27147464 CGGCGAGCAT
*
27147474 TAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTGTACCTA
1 TAGCGGCG-TTTTTAAAAAGCGCCGCTAAAGTTGTA-CTA
*
27147514 TAGCGGCGTTTCTTAAAAAAACGCCGCTAAAGGTT-TACATA
1 TAGCGGCGTTT-TT-AAAAAGCGCCGCTAAA-GTTGTAC-TA
* * * *
27147555 TAGCGGCATTTTTAAAAAGCGCCGCTAATGCTTGTTCTT
1 TAGCGGCGTTTTTAAAAAGCGCCGCTAAAG-TTGTACTA
*
27147594 TAGTGGCGTTTTT
1 TAGCGGCGTTTTT
27147607 CATTCAAACG
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 31 0.40
40 15 0.19
41 29 0.37
42 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (38 bp):
TAGCGGCGTTTTTAAAAAGCGCCGCTAAAGTTGTACTA
Found at i:27152584 original size:63 final size:63
Alignment explanation
Indices: 27152466--27152594 Score: 177
Period size: 63 Copynumber: 2.0 Consensus size: 63
27152456 TCGCACAGTA
* * * * * *
27152466 CTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGATACTACTCGGGCCTTTGAGC
1 CTATTCAGGCCTTTGAGCCTAACAGGCTATAATACCGATGAAATACCACTCGGGCCTTTAAGC
* * *
27152529 CTATTCAGGCCTTTGAGCCTAATAGGCTATAATGCCGATGAAATACCACTTGGGCCTTTAAGC
1 CTATTCAGGCCTTTGAGCCTAACAGGCTATAATACCGATGAAATACCACTCGGGCCTTTAAGC
27152592 CTA
1 CTA
27152595 GCAGGCTATA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (63 bp):
CTATTCAGGCCTTTGAGCCTAACAGGCTATAATACCGATGAAATACCACTCGGGCCTTTAAGC
Found at i:27160453 original size:63 final size:63
Alignment explanation
Indices: 27160333--27160461 Score: 161
Period size: 63 Copynumber: 2.0 Consensus size: 63
27160323 TCGCACAGTA
* * * * * * *
27160333 CTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGATACTATTCGAGCCTTTGAGC
1 CTATTCAGGCCTTTGAGCCTAACAGGCTATAATACCGATGAAATACCACTCGAGCCTTTAAGC
* *
27160396 CTATTCAGGCCTTTGAGCCTAATAGGCTATAATGCCGATGAAATACCACTC-AGGCCTTTAAGC
1 CTATTCAGGCCTTTGAGCCTAACAGGCTATAATACCGATGAAATACCACTCGA-GCCTTTAAGC
27160459 CTA
1 CTA
27160462 GCAGGCTATA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 1 0.02
63 55 0.98
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (63 bp):
CTATTCAGGCCTTTGAGCCTAACAGGCTATAATACCGATGAAATACCACTCGAGCCTTTAAGC
Found at i:27160705 original size:20 final size:22
Alignment explanation
Indices: 27160663--27160705 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
27160653 TTGTATTTAT
*
27160663 ATGTGAGTATCATAAGTGTATA
1 ATGTGAGTATCATAAGTGAATA
*
27160685 ATGTGA-TA-CATATGTGAATA
1 ATGTGAGTATCATAAGTGAATA
27160705 A
1 A
27160706 ATGTTATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 2 0.11
22 6 0.32
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (22 bp):
ATGTGAGTATCATAAGTGAATA
Found at i:27162954 original size:16 final size:15
Alignment explanation
Indices: 27162929--27162958 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27162919 TGAGTAAAGG
27162929 GAAAAAAATAAAATA
1 GAAAAAAATAAAATA
27162944 GAAACAAAATAAAAT
1 GAAA-AAAATAAAAT
27162959 TTAAATCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (15 bp):
GAAAAAAATAAAATA
Found at i:27168509 original size:13 final size:13
Alignment explanation
Indices: 27168493--27168518 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27168483 AAATTATATT
27168493 TATTTAATTAAAA
1 TATTTAATTAAAA
27168506 TATTTAATTAAAA
1 TATTTAATTAAAA
27168519 ACTTAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTAATTAAAA
Found at i:27168888 original size:2 final size:2
Alignment explanation
Indices: 27168881--27168919 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
27168871 AAGAAATAGC
27168881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27168920 CCAAATAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27170025 original size:2 final size:2
Alignment explanation
Indices: 27170018--27170047 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27170008 TAATAGGATA
27170018 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27170048 AAAAAATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27188645 original size:86 final size:86
Alignment explanation
Indices: 27188500--27188673 Score: 321
Period size: 86 Copynumber: 2.0 Consensus size: 86
27188490 AATGTGATTT
* * *
27188500 TTTAATAAAAGTTATTTTAAATATAAAATGTGAAATTTATACCAATATAAAATTTTAACACGAAT
1 TTTAATAAAAGTTATTTTAAAGAAAAAATGTGAAATTGATACCAATATAAAATTTTAACACGAAT
27188565 ATTTTATGGCATAATTAATAA
66 ATTTTATGGCATAATTAATAA
27188586 TTTAATAAAAGTTATTTTAAAGAAAAAATGTGAAATTGATACCAATATAAAATTTTAACACGAAT
1 TTTAATAAAAGTTATTTTAAAGAAAAAATGTGAAATTGATACCAATATAAAATTTTAACACGAAT
27188651 ATTTTATGGCATAATTAATAA
66 ATTTTATGGCATAATTAATAA
27188672 TT
1 TT
27188674 CAATTTTAAT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.39
Consensus pattern (86 bp):
TTTAATAAAAGTTATTTTAAAGAAAAAATGTGAAATTGATACCAATATAAAATTTTAACACGAAT
ATTTTATGGCATAATTAATAA
Found at i:27189272 original size:9 final size:9
Alignment explanation
Indices: 27189258--27189294 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
27189248 TATAGTTTAA
27189258 TATTTGAAT
1 TATTTGAAT
27189267 TATTTGAAT
1 TATTTGAAT
* *
27189276 TATTCGAGT
1 TATTTGAAT
27189285 TATTTGAAT
1 TATTTGAAT
27189294 T
1 T
27189295 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.03, G:0.14, T:0.54
Consensus pattern (9 bp):
TATTTGAAT
Found at i:27189359 original size:9 final size:9
Alignment explanation
Indices: 27189345--27189377 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
27189335 ATTCGAGTTG
27189345 ACTCGAATA
1 ACTCGAATA
*
27189354 ACTCGATTA
1 ACTCGAATA
27189363 ACTCGAATA
1 ACTCGAATA
27189372 ACTCGA
1 ACTCGA
27189378 TTTTTTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:27189368 original size:18 final size:18
Alignment explanation
Indices: 27189345--27189379 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
27189335 ATTCGAGTTG
27189345 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
27189363 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
27189380 TTTTAACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:27190112 original size:114 final size:115
Alignment explanation
Indices: 27189912--27190141 Score: 390
Period size: 114 Copynumber: 2.0 Consensus size: 115
27189902 CTCTCACTCC
** *
27189912 CTTTGTAGAGCAATCAAAACCCTTAGGTTATCTCTCAAACTGTCCTCAAAATAAAGACATTTCTC
1 CTTTGTAGAGCAATCAAAACCCTTAGGTTATCTCTCAAACCATCCTCAAAATAAACACATTTCTC
* *
27189977 ATACTTAGATGCCACCATGCCTCGGGG-TAGCAGCTTAACCTTAGAAACT
66 ATACTCAAATGCCACCATGCCTCGGGGATAGCAGCTTAACCTTAGAAACT
*
27190026 CTTTGTAGAGCAATCAAAACCCTTAGGTTATCTCTCAAACCATCCTCAAAATAGACACATTTCTC
1 CTTTGTAGAGCAATCAAAACCCTTAGGTTATCTCTCAAACCATCCTCAAAATAAACACATTTCTC
*
27190091 ATACTCAAATGCCACCATGCCTCGGGGATAGTAGCTTAACCTTAGAAACT
66 ATACTCAAATGCCACCATGCCTCGGGGATAGCAGCTTAACCTTAGAAACT
27190141 C
1 C
27190142 GGCCTCATAC
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
114 86 0.80
115 22 0.20
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (115 bp):
CTTTGTAGAGCAATCAAAACCCTTAGGTTATCTCTCAAACCATCCTCAAAATAAACACATTTCTC
ATACTCAAATGCCACCATGCCTCGGGGATAGCAGCTTAACCTTAGAAACT
Found at i:27191448 original size:23 final size:21
Alignment explanation
Indices: 27191437--27191482 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
27191427 TCAGATACAG
27191437 ATATCGTGCCATTACGACACC
1 ATATCGTGCCATTACGACACC
27191458 ATATCGTGCCATTACGACA-C
1 ATATCGTGCCATTACGACACC
27191478 ATATC
1 ATATC
27191483 AGATAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (21 bp):
ATATCGTGCCATTACGACACC
Found at i:27191636 original size:13 final size:13
Alignment explanation
Indices: 27191620--27191661 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
27191610 ATCCCACCCT
27191620 AAAATAGATACAG
1 AAAATAGATACAG
* * *
27191633 AAAACAAATATAG
1 AAAATAGATACAG
27191646 AAAATAGATACAG
1 AAAATAGATACAG
27191659 AAA
1 AAA
27191662 TAATAGATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.67, C:0.07, G:0.12, T:0.14
Consensus pattern (13 bp):
AAAATAGATACAG
Found at i:27194245 original size:39 final size:39
Alignment explanation
Indices: 27194190--27194374 Score: 307
Period size: 39 Copynumber: 4.7 Consensus size: 39
27194180 TTCCAACCCA
* *
27194190 AATGCCTTCGGAACTTAGCCCGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
27194229 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
27194268 AATGCCTTCGGGACTTAGCCTGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
27194307 AATACCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
27194346 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
27194375 ATCTCAACAA
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 138 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:27202308 original size:38 final size:39
Alignment explanation
Indices: 27202237--27202449 Score: 285
Period size: 38 Copynumber: 5.6 Consensus size: 39
27202227 TTCCAACCCA
* *
27202237 AATGCCTTCGGAACTTAG--CGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
27202274 AATGCCTTCGGGACTTAGCCC-GATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
27202312 AATGCCTTC-GGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
27202350 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
27202389 AATTCCTTCGGGACTTAGCCCGGATATAAATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATAT-AATATCAGCACG
* * *
27202427 AAGGCCTGCGGGTCTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
27202450 TTAAAATCCT
Statistics
Matches: 159, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
37 28 0.18
38 69 0.43
39 58 0.36
40 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:27202375 original size:39 final size:39
Alignment explanation
Indices: 27202237--27202417 Score: 280
Period size: 39 Copynumber: 4.7 Consensus size: 39
27202227 TTCCAACCCA
* *
27202237 AATGCCTTCGGAACTTAG--CGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
27202274 AATGCCTTCGGGACTTAGCCC-GATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
27202312 AATGCCTTC-GGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
27202350 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
27202389 AATTCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
27202418 ATCTCACACA
Statistics
Matches: 135, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
37 28 0.21
38 50 0.37
39 57 0.42
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:27202444 original size:77 final size:77
Alignment explanation
Indices: 27202237--27202449 Score: 267
Period size: 77 Copynumber: 2.8 Consensus size: 77
27202227 TTCCAACCCA
* * *
27202237 AATGCCTTCGGAACTTAG--CGGATATAACATCAGCACGAATGCCTTCGGGACTTAGCCC-GATA
1 AATGCCTTCGG-ACTTAGCCCGGATATAATACCAGCACGAAGGCCTTCGGGACTTAGCCCGGATA
* *
27202299 TAATATCAGCACG
65 TAACACCAGCACG
*
27202312 AATGCCTTCGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATAT
1 AATGCCTTCGGACTTAGCCCGGATATAATACCAGCACGAAGGCCTTCGGGACTTAGCCCGGATAT
27202377 AACACCAGCACG
66 AACACCAGCACG
* * *
27202389 AATTCCTTCGGGACTTAGCCCGGATATAA-ATCTCA-CAC-AAGGCCTGCGGGTCTTAGCCCGG
1 AATGCCTTC-GGACTTAGCCCGGATATAATA-C-CAGCACGAAGGCCTTCGGGACTTAGCCCGG
27202450 TTAAAATCCT
Statistics
Matches: 124, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
74 6 0.05
75 11 0.09
76 38 0.31
77 44 0.35
78 23 0.19
79 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (77 bp):
AATGCCTTCGGACTTAGCCCGGATATAATACCAGCACGAAGGCCTTCGGGACTTAGCCCGGATAT
AACACCAGCACG
Found at i:27218577 original size:11 final size:11
Alignment explanation
Indices: 27218563--27218644 Score: 52
Period size: 11 Copynumber: 7.8 Consensus size: 11
27218553 AGATAATACT
27218563 TTAATATTAAA
1 TTAATATTAAA
27218574 TTAATA--AAA
1 TTAATATTAAA
* *
27218583 ATACTATTAAA
1 TTAATATTAAA
* *
27218594 ATAAGTATTAAC
1 TTAA-TATTAAA
27218606 TTAA-ATTAAA
1 TTAATATTAAA
27218616 TTAAATATT--A
1 TT-AATATTAAA
27218626 -TAATATTATAA
1 TTAATATTA-AA
27218637 -TAATATTA
1 TTAATATTA
27218645 TTTCTTGAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
8 6 0.11
9 8 0.14
10 8 0.14
11 23 0.40
12 12 0.21
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:27218578 original size:19 final size:18
Alignment explanation
Indices: 27218441--27218579 Score: 64
Period size: 19 Copynumber: 7.7 Consensus size: 18
27218431 TTCAACTATA
27218441 ATTAAATTTAATCACTTTAAT
1 ATTAAA-TTAAT-A-TTTAAT
*
27218462 ATTAAATTAATA-TAATAT
1 ATTAAATTAATATTTA-AT
*
27218480 ATTAGATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
27218497 ATTAAATCT--TA-TTAA-
1 ATTAAAT-TAATATTTAAT
* *
27218512 AAT-AATATAATGTTT-AT
1 ATTAAAT-TAATATTTAAT
*
27218529 CTTCTAAAATTAA-ATTTAAT
1 -AT-T-AAATTAATATTTAAT
27218549 ATTAAGA-TAATACTTTAAT
1 ATTAA-ATTAATA-TTTAAT
27218568 ATTAAATTAATA
1 ATTAAATTAATA
27218580 AAAATACTAT
Statistics
Matches: 90, Mismatches: 11, Indels: 36
0.66 0.08 0.26
Matches are distributed among these distances:
14 4 0.04
15 2 0.02
16 6 0.07
17 19 0.21
18 18 0.20
19 22 0.24
20 10 0.11
21 9 0.10
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:27224258 original size:32 final size:32
Alignment explanation
Indices: 27224222--27224285 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
27224212 ATATGGCTTC
*
27224222 CAACTACCGAAGCATATGGAACCTTACTCATA
1 CAACTACCAAAGCATATGGAACCTTACTCATA
*
27224254 CAACTACCAAAGCATATGGAACCTTTCTCATA
1 CAACTACCAAAGCATATGGAACCTTACTCATA
27224286 TGCACTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (32 bp):
CAACTACCAAAGCATATGGAACCTTACTCATA
Found at i:27227269 original size:19 final size:20
Alignment explanation
Indices: 27227227--27227270 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
27227217 CCATATTGAC
** *
27227227 ACAGTTGGACCCATTTTAAT
1 ACAGTTGGACCCATAATAAA
27227247 ACAGTTGG-CCCATAATAAA
1 ACAGTTGGACCCATAATAAA
27227266 ACAGT
1 ACAGT
27227271 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (20 bp):
ACAGTTGGACCCATAATAAA
Found at i:27231820 original size:28 final size:27
Alignment explanation
Indices: 27231770--27231883 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 27
27231760 CTATTCAGAA
*
27231770 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
27231797 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
* *
27231824 ATTACAATATCAGAGCATACTGGGCCTAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCTAGCCCAT
* *
27231858 ATCAGTATCATTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
27231884 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:27231825 original size:62 final size:60
Alignment explanation
Indices: 27231747--27231891 Score: 177
Period size: 61 Copynumber: 2.4 Consensus size: 60
27231737 TCAAGCTTTA
* * *
27231747 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
27231809 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCATT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
27231870 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
27231892 GTTGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 39 0.53
62 31 0.42
63 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:27231859 original size:26 final size:28
Alignment explanation
Indices: 27231830--27231883 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
27231820 CCCTATTACA
27231830 ATATCAG-AGCATACTGGGCC-TAGCCC
1 ATATCAGTAGCATACTGGGCCGTAGCCC
* *
27231856 ATATCAGTATCATTCTGGGCCGTAGCCC
1 ATATCAGTAGCATACTGGGCCGTAGCCC
27231884 TATTACAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.29
27 11 0.46
28 6 0.25
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (28 bp):
ATATCAGTAGCATACTGGGCCGTAGCCC
Found at i:27231937 original size:20 final size:19
Alignment explanation
Indices: 27231912--27231967 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
27231902 ATTGGGCCTT
*
27231912 GCCCATATTGACACAGTTGG
1 GCCCATATTAACACAGTT-G
* *
27231932 GCCCATTTTAATACAGTTG
1 GCCCATATTAACACAGTTG
* *
27231951 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
27231968 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (19 bp):
GCCCATATTAACACAGTTG
Found at i:27232581 original size:8 final size:8
Alignment explanation
Indices: 27232565--27232597 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
27232555 TTCATAAATG
27232565 TCGGCTTT
1 TCGGCTTT
*
27232573 TCAGCTTT
1 TCGGCTTT
27232581 TCGGCTTT
1 TCGGCTTT
27232589 TCGGCTTT
1 TCGGCTTT
27232597 T
1 T
27232598 ACCGATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.21, T:0.52
Consensus pattern (8 bp):
TCGGCTTT
Found at i:27237327 original size:28 final size:28
Alignment explanation
Indices: 27237295--27237351 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
27237285 CACATATCGA
27237295 TGCCAATGCCATGTCCTAGACATGGTCT
1 TGCCAATGCCATGTCCTAGACATGGTCT
27237323 TGCCAATGCCATGTCCTAGACATGGTCT
1 TGCCAATGCCATGTCCTAGACATGGTCT
27237351 T
1 T
27237352 ACATGGAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (28 bp):
TGCCAATGCCATGTCCTAGACATGGTCT
Found at i:27241268 original size:12 final size:12
Alignment explanation
Indices: 27241251--27241280 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27241241 AAATAAAAAA
27241251 TTCTCTACAAAT
1 TTCTCTACAAAT
*
27241263 TTCTCTACAACT
1 TTCTCTACAAAT
27241275 TTCTCT
1 TTCTCT
27241281 TGATTTCAAG
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:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (12 bp):
TTCTCTACAAAT
Found at i:27243182 original size:16 final size:16
Alignment explanation
Indices: 27243161--27243191 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27243151 CTATGCATGC
*
27243161 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
27243177 AAAATACAAAAGACA
1 AAAATACAAAAGACA
27243192 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:27248029 original size:15 final size:14
Alignment explanation
Indices: 27248011--27248048 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
27248001 AGATTATTAT
27248011 TAAATATAATTTAA
1 TAAATATAATTTAA
*
27248025 CTAAATACAATTTAA
1 -TAAATATAATTTAA
27248040 TAAA-ATAAT
1 TAAATATAAT
27248049 ATATAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.19
14 4 0.19
15 13 0.62
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAATATAATTTAA
Found at i:27250812 original size:29 final size:28
Alignment explanation
Indices: 27250780--27250882 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
27250770 GGGACGAGAT
* *
27250780 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
27250809 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
27250838 TGGCACTATGTGTGCGGGCTT-GAATCACA
1 TGGCACTA-GTGTGCGAGCTTGGAAT-ATA
*
27250867 CGGCACTAAGTGTGCG
1 TGGCACT-AGTGTGCG
27250883 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.07
29 56 0.92
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.28
Consensus pattern (28 bp):
TGGCACTAGTGTGCGAGCTTGGAATATA
Found at i:27252424 original size:30 final size:33
Alignment explanation
Indices: 27252386--27252461 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
27252376 TTTTTAGAAA
27252386 CATG-GGCTCACACG-CCCA-TGTGACC-TGCC
1 CATGTGGCTCACACGACCCATTGTGACCTTGCC
* *
27252415 CATGTGGCTCACATGACCCATTTTGACCTTGCC
1 CATGTGGCTCACACGACCCATTGTGACCTTGCC
* *
27252448 CGTGTGGATCACAC
1 CATGTGGCTCACAC
27252462 AGCCTTGCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 4 0.11
30 9 0.24
31 4 0.11
32 6 0.16
33 15 0.39
ACGTcount: A:0.18, C:0.36, G:0.22, T:0.24
Consensus pattern (33 bp):
CATGTGGCTCACACGACCCATTGTGACCTTGCC
Found at i:27254340 original size:27 final size:27
Alignment explanation
Indices: 27254259--27254516 Score: 220
Period size: 27 Copynumber: 9.6 Consensus size: 27
27254249 TTAGTTTACC
* * *
27254259 AAATTACTGAAATACCCT-TAGTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
27254285 AAATTACC-AAAGTACCC-CCAGTTTATA
1 AAATTACCGAAA-TACCCTCGA-TTTGTA
* *
27254312 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
27254339 AAATTACCGAAATACCATCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
27254365 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
27254392 AAATTACTGAAATACCCACGATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
27254419 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* **
27254446 AAATTACC-AAAGTACCCCCGATTTACA
1 AAATTACCGAAA-TACCCTCGATTTGTA
* *** **
27254473 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTGTA
**
27254500 AAATTATTGAAATACCC
1 AAATTACCGAAATACCC
27254517 CTGTAGGGTA
Statistics
Matches: 189, Mismatches: 35, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.02
26 39 0.21
27 142 0.75
28 5 0.03
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:27254367 original size:53 final size:53
Alignment explanation
Indices: 27254259--27254461 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
27254249 TTAGTTTACC
* * * * * *
27254259 AAATTACTGAAATACCCT-TAGTTGTAAAATTACC-AAAGTACCCCCAGTTTATA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAA-TACCACGA-TTTGTA
** *
27254312 AAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATACCATCGA-TTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCA-CGATTTGTA
* *
27254365 AAATTACTAAAATACCCTCGATTTGTAAAATTACTGAAATACCCACGATTTTTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATA-CCACGATTTGTA
* *
27254419 AAATTACTGAAATACCCTCGACTTGTAAAATTACC-AAAGTACC
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAA-TACC
27254462 CCCGATTTAC
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
53 64 0.50
54 59 0.46
55 5 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (53 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCACGATTTGTA
Found at i:27254394 original size:80 final size:80
Alignment explanation
Indices: 27254280--27254480 Score: 251
Period size: 80 Copynumber: 2.5 Consensus size: 80
27254270 ATACCCTTAG
* * *
27254280 TTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTA
1 TTGTAAAATTACCAAAGTACCCCGA-TTTATAAAATTACCCAAATACCCACGATTTGTAAAATTA
27254345 CCGAAATACCATCGA-
65 CCGAAATACCATCGAC
* * * ** *
27254360 TTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACTGAAATACCCACGATTTTTAAAATTA
1 TTGTAAAATTACCAAAGTACCC-CGATTTATAAAATTACCCAAATACCCACGATTTGTAAAATTA
* *
27254425 CTGAAATACCCTCGAC
65 CCGAAATACCATCGAC
* *
27254441 TTGTAAAATTACCAAAGTACCCCCGATTTACAGAATTACC
1 TTGTAAAATTACCAAAGTA-CCCCGATTTATAAAATTACC
27254481 GTTTTACCCT
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
80 66 0.65
81 32 0.32
82 3 0.03
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (80 bp):
TTGTAAAATTACCAAAGTACCCCGATTTATAAAATTACCCAAATACCCACGATTTGTAAAATTAC
CGAAATACCATCGAC
Found at i:27254531 original size:27 final size:27
Alignment explanation
Indices: 27254508--27255016 Score: 624
Period size: 27 Copynumber: 18.9 Consensus size: 27
27254498 CAAAATTATT
*
27254508 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27254535 AAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCTTGTAGGGTAGAATTACC
*
27254562 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27254589 GAAATACCCTTGTAGAGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27254616 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27254643 GAAATACCCTTATAAGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27254670 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27254697 AAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27254724 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27254751 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27254778 GAAATACCCCTGTAGGGTAGAATTACA
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27254805 TAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27254832 GAAATAACCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27254859 AAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27254886 GAAATACCCCTGTAGGGTAAAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27254913 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27254940 GAAATACCCTTATAGGGTA-AAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
27254966 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27254993 GAGATACCCTTGTGGGGTAAAATT
1 GAAATACCCTTGTAGGGTAGAATT
27255017 GCCATTTTGC
Statistics
Matches: 417, Mismatches: 64, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
26 23 0.06
27 394 0.94
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:27255499 original size:22 final size:22
Alignment explanation
Indices: 27255447--27255511 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
27255437 TTAAAGCCTT
* *
27255447 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
27255469 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
27255491 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
27255512 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:27255706 original size:26 final size:26
Alignment explanation
Indices: 27255662--27255749 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 26
27255652 TGCCACGTAT
* * *
27255662 TCTGTT-TAGTGGCTTTGCCACATTA
1 TCTGTTCTGGTGGCTCTGCCACAATA
27255687 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCTGGTGGCTCTGCCACAATA
** *
27255713 TCTGTATCTGGTACCTCTGTCACAATA
1 TCTGT-TCTGGTGGCTCTGCCACAATA
*
27255740 TTTGTTCTGG
1 TCTGTTCTGG
27255750 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
25 6 0.11
26 26 0.48
27 22 0.41
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (26 bp):
TCTGTTCTGGTGGCTCTGCCACAATA
Found at i:27255730 original size:27 final size:26
Alignment explanation
Indices: 27255677--27255749 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 26
27255667 TTAGTGGCTT
* **
27255677 TGCCACATTATCTGTTCTGGTGGCTC
1 TGCCACAATATCTGTTCTGGTACCTC
27255703 TGCCACAATATCTGTATCTGGTACCTC
1 TGCCACAATATCTGT-TCTGGTACCTC
* *
27255730 TGTCACAATATTTGTTCTGG
1 TGCCACAATATCTGTTCTGG
27255750 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTACCTC
Found at i:27255876 original size:6 final size:6
Alignment explanation
Indices: 27255867--27255952 Score: 50
Period size: 6 Copynumber: 14.0 Consensus size: 6
27255857 TTACATTCAC
* * *
27255867 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTA ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * * *
27255917 ATTCTA ATTCTA ATTCTC ATTTTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
27255953 GTAATGTTTC
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
5 3 0.05
6 50 0.82
7 6 0.10
8 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:27255902 original size:25 final size:25
Alignment explanation
Indices: 27255870--27255933 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
27255860 CATTCACATT
* *
27255870 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTAATTCTGTCACCTGATA
*
27255895 CTGATTCTAATTCTGTCACCTGATT
1 CTGATTCTAATTCTGTCACCTGATA
*
27255920 CTAATTCTAATTCT
1 CTGATTCTAATTCT
27255934 CATTTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (25 bp):
CTGATTCTAATTCTGTCACCTGATA
Found at i:27255975 original size:17 final size:18
Alignment explanation
Indices: 27255942--27255975 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27255932 CTCATTTTGA
27255942 TTCTAATTCTGGTAATGT
1 TTCTAATTCTGGTAATGT
*
27255960 TTCTTATTCT-GTAATG
1 TTCTAATTCTGGTAATG
27255976 GGCTAAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (18 bp):
TTCTAATTCTGGTAATGT
Found at i:27258077 original size:27 final size:26
Alignment explanation
Indices: 27257949--27258077 Score: 109
Period size: 27 Copynumber: 4.8 Consensus size: 26
27257939 ATACCCCCAG
* *
27257949 TTGTAAAATTACTAAAGTA-CCTCCGGT
1 TTGTAAAATTACCAAA-TACCCT-CGAT
* *
27257976 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
* * *
27258003 TTATAAAATTACCGAAATACCATCG-G
1 TTGTAAAATTACC-AAATACCCTCGAT
* *
27258029 TTGTAAAATTACTAAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
27258056 TTGTAAAATTACCAAAGTACCC
1 TTGTAAAATTACCAAA-TACCC
27258078 CCAATTTATA
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
26 26 0.31
27 52 0.61
28 7 0.08
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAT
Found at i:27258085 original size:80 final size:80
Alignment explanation
Indices: 27257928--27258093 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 80
27257918 TTAGTTTACC
* * * **
27257928 AAATTACTGAAATACCCCCAGTTGTAAAATTACTAAAGTACCTCCGGTTTATAAAATTACCCAAA
1 AAATTACCGAAATACCACCAGTTGTAAAATTACTAAAATACCTCCGACTTATAAAATTACCCAAA
* * *
27257993 TATCCTCGATTTATA
66 TACCCCCAATTTATA
* * *
27258008 AAATTACCGAAATACCATCGGTTGTAAAATTACTAAAATACC-CTCGACTTGTAAAATTA-CCAA
1 AAATTACCGAAATACCACCAGTTGTAAAATTACTAAAATACCTC-CGACTTATAAAATTACCCAA
27258071 AGTACCCCCAATTTATA
65 A-TACCCCCAATTTATA
*
27258088 GAATTA
1 AAATTA
27258094 TCGTTTTACC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
79 6 0.08
80 66 0.92
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
AAATTACCGAAATACCACCAGTTGTAAAATTACTAAAATACCTCCGACTTATAAAATTACCCAAA
TACCCCCAATTTATA
Found at i:27258107 original size:107 final size:106
Alignment explanation
Indices: 27257928--27258130 Score: 244
Period size: 107 Copynumber: 1.9 Consensus size: 106
27257918 TTAGTTTACC
* * * * **
27257928 AAATTACTGAAATACCCCCAGTTGTAAAATTACTAAAGTACCTCCGGTTTATAAAATTACCCAAA
1 AAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAAA
* *
27257993 TATCCTCGATTTATAAAATTACCGAAATACCATCGGTTGTA
66 TACCCTCGATTTACAAAATTACCGAAATACCATCGGTTGTA
* * * ***
27258034 AAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATAGAATTATCGTT
1 AAATTACTAAAATACCC-CCACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
* **
27258099 TTACCCTCGATTTACAAAATTATTGAAATACC
65 ATACCCTCGATTTACAAAATTACCGAAATACC
27258131 CCTGTAGGGT
Statistics
Matches: 79, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
106 16 0.20
107 63 0.80
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (106 bp):
AAATTACTAAAATACCCCCACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAAA
TACCCTCGATTTACAAAATTACCGAAATACCATCGGTTGTA
Found at i:27258146 original size:27 final size:27
Alignment explanation
Indices: 27258123--27258523 Score: 489
Period size: 27 Copynumber: 14.9 Consensus size: 27
27258113 CAAAATTATT
*
27258123 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27258150 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27258177 GAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27258204 AAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27258231 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
27258258 GAAATACCC-TGTAGGGTAGAATTACA
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27258284 TAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27258311 GAAATAACCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27258338 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
27258365 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27258392 GAAATACCCTTGTAGGGTAAAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
27258419 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27258446 GAAATACCCTTATAGGGTAAAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27258473 GAAATACCCCTATAGGATAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
27258500 GAGATACCTTTGTAGGGTAAAATT
1 GAAATACCCTTGTAGGGTAGAATT
27258524 GCCATTTTGC
Statistics
Matches: 324, Mismatches: 49, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.07
27 302 0.93
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:27259006 original size:22 final size:22
Alignment explanation
Indices: 27258954--27259018 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
27258944 TTAAAGCCTT
* *
27258954 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
27258976 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
27258998 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
27259019 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:27259224 original size:26 final size:26
Alignment explanation
Indices: 27259169--27259256 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 26
27259159 TGCCACGTAT
* * * *
27259169 TCTGTT-TAGTGGCTTTGCCACATTA
1 TCTGTTCTGGTGGCTCTGCTACAATA
27259194 TCTGTTCTGGTGGCTCTGCTACAATA
1 TCTGTTCTGGTGGCTCTGCTACAATA
* **
27259220 ACTGTATCTGGTAACTCTG-TCACAATA
1 TCTGT-TCTGGTGGCTCTGCT-ACAATA
27259247 TCTGTTCTGG
1 TCTGTTCTGG
27259257 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
25 6 0.12
26 25 0.48
27 21 0.40
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (26 bp):
TCTGTTCTGGTGGCTCTGCTACAATA
Found at i:27259383 original size:6 final size:6
Alignment explanation
Indices: 27259374--27259459 Score: 59
Period size: 6 Copynumber: 14.0 Consensus size: 6
27259364 TTGCATTCAC
* * *
27259374 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
27259424 ATTCTG ATTCTA ATTCTC ATTTTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
27259460 GTAATGTTTC
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
5 3 0.05
6 51 0.84
7 5 0.08
8 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:27259405 original size:25 final size:25
Alignment explanation
Indices: 27259377--27259440 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
27259367 CATTCACATT
* *
27259377 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
*
27259402 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
*
27259427 CTGATTCTAATTCT
1 CTGATTCTGATTCT
27259441 CATTTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:27259482 original size:17 final size:18
Alignment explanation
Indices: 27259449--27259482 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27259439 CTCATTTTGA
27259449 TTCTAATTCTGGTAATGT
1 TTCTAATTCTGGTAATGT
*
27259467 TTCTTATTCT-GTAATG
1 TTCTAATTCTGGTAATG
27259483 GGCTAAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (18 bp):
TTCTAATTCTGGTAATGT
Found at i:27262768 original size:20 final size:19
Alignment explanation
Indices: 27262739--27262800 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
27262729 TTAATATTTG
27262739 ATATAT-ATTATATTTTAA
1 ATATATAATTATATTTTAA
* * *
27262757 ATATAATCATTACAAATTTAA
1 ATAT-ATAATTA-TATTTTAA
*
27262778 ATATATAATCTATATTTGAA
1 ATATATAAT-TATATTTTAA
27262798 ATA
1 ATA
27262801 AATTTTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 16 0.47
21 12 0.35
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (19 bp):
ATATATAATTATATTTTAA
Found at i:27275646 original size:25 final size:26
Alignment explanation
Indices: 27275583--27275644 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
27275573 TCAAAATTTT
* *
27275583 AATTAAAAAATTATTAATGATTCAATA
1 AATTAAAAAATTA-TAATAATTAAATA
*
27275610 AATTGAAAAATTA-AATAATTAAATAA
1 AATTAAAAAATTATAATAATTAAAT-A
27275636 AATTAAAAA
1 AATTAAAAA
27275645 TTTAGGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 9 0.30
26 9 0.30
27 12 0.40
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (26 bp):
AATTAAAAAATTATAATAATTAAATA
Found at i:27276577 original size:29 final size:30
Alignment explanation
Indices: 27276520--27276577 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
27276510 CTTTTGAAAA
* * *
27276520 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
27276550 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
27276578 AAAATACTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:27279332 original size:40 final size:39
Alignment explanation
Indices: 27279287--27279494 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
27279277 CGGAATACAA
*
27279287 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
27279327 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
27279367 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
27279407 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
27279447 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
27279487 CCGGATAT
1 CCGGATAT
27279495 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:27279427 original size:80 final size:80
Alignment explanation
Indices: 27279287--27279493 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
27279277 CGGAATACAA
* * *
27279287 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
27279351 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
27279367 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
27279431 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
27279447 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
27279494 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:27285877 original size:40 final size:40
Alignment explanation
Indices: 27285808--27286032 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
27285798 AAACCAAGTA
* * *
27285808 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
27285847 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
27285887 CCTTCGGGTCTTAGCCCGAAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
27285927 CCTTTGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
*
27285970 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
27286010 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
27286033 CATCCGAATA
Statistics
Matches: 158, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
39 12 0.08
40 110 0.70
42 1 0.01
43 35 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:27285995 original size:83 final size:80
Alignment explanation
Indices: 27285808--27286032 Score: 283
Period size: 83 Copynumber: 2.8 Consensus size: 80
27285798 AAACCAAGTA
* * * *
27285808 CCTTCGGGATTTAG-CCGGATATCG-CAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
27285871 GTAACTCGCACACATG
65 GAAACTCGCACAAATG
* * * * *
27285887 CCTTCGGGTCTTAGCCCGAAAATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGGGTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
27285952 CAACTACTCGCACAAATG
66 -AA--ACTCGCACAAATG
* *
27285970 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
27286033 CATCCGAATA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 12 0.10
80 41 0.33
81 2 0.02
83 68 0.55
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
AAACTCGCACAAATG
Found at i:27295937 original size:26 final size:26
Alignment explanation
Indices: 27295908--27295965 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
27295898 CCCAATAATT
* *
27295908 TTTTGATGATTTAACCCACAGTAAAA
1 TTTTGACGATTTAACACACAGTAAAA
* **
27295934 TTTTGACGATTTTACACATGGTAAAA
1 TTTTGACGATTTAACACACAGTAAAA
27295960 TTTTGA
1 TTTTGA
27295966 GAAAATTTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (26 bp):
TTTTGACGATTTAACACACAGTAAAA
Found at i:27305152 original size:27 final size:28
Alignment explanation
Indices: 27305096--27305165 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
27305086 AAATTTGTAC
27305096 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
27305124 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
27305151 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
27305166 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:27305176 original size:27 final size:27
Alignment explanation
Indices: 27305096--27305177 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
27305086 AAATTTGTAC
* *
27305096 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
27305124 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
27305151 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
27305178 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:27308559 original size:13 final size:13
Alignment explanation
Indices: 27308538--27308574 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
27308528 ATTGTCTAAA
*
27308538 ATTTTAAGAAATG
1 ATTTCAAGAAATG
27308551 ATTTCAAGAAATG
1 ATTTCAAGAAATG
27308564 ATTTCAAGAAA
1 ATTTCAAGAAA
27308575 ATATCGTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (13 bp):
ATTTCAAGAAATG
Found at i:27328442 original size:44 final size:42
Alignment explanation
Indices: 27328382--27328544 Score: 145
Period size: 44 Copynumber: 3.8 Consensus size: 42
27328372 CCAATATGTG
* *
27328382 TTTACGTGTAAAACCACGTCTGGGACATTGGCATCGACTTATGA
1 TTTATGTGTAAGACCACGTCTGGGACATTGGCATCGA-TT-TGA
* * *
27328426 TTTTTGTGTAAGACCACTTCTGGGACGTTGGCATCGTATTTGA
1 TTTATGTGTAAGACCACGTCTGGGACATTGGCATCG-ATTTGA
* * *
27328469 TTTCATGTG--AGACC-CTATCTGGGACAGTGACATCGATATTTGA
1 TTT-ATGTGTAAGACCAC-GTCTGGGACATTGGCATCG--ATTTGA
**
27328512 -TTACATGTAAGACCACGTCTGGGACATTGGCAT
1 TTTATGTGTAAGACCACGTCTGGGACATTGGCAT
27328545 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
41 4 0.04
42 22 0.23
43 32 0.33
44 38 0.39
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
TTTATGTGTAAGACCACGTCTGGGACATTGGCATCGATTTGA
Found at i:27328537 original size:43 final size:43
Alignment explanation
Indices: 27328383--27328544 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 43
27328373 CAATATGTGT
* * * *
27328383 TTACGTGTAAAACCACGTCTGGGACATTGGCATCGACT-TATGA
1 TTACATGTAAGACCACGTCTGGGACAGTGGCATCGA-TATTTGA
*** *
27328426 TTTTTGTGTAAGACCACTTCTGGGAC-GTTGGCATCG-TATTTGA
1 -TTACATGTAAGACCACGTCTGGGACAG-TGGCATCGATATTTGA
* * * *
27328469 TTTCATGTGAGACC-CTATCTGGGACAGTGACATCGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTTGA
*
27328512 TTACATGTAAGACCACGTCTGGGACATTGGCAT
1 TTACATGTAAGACCACGTCTGGGACAGTGGCAT
27328545 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 38 0.40
44 30 0.31
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
TTACATGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGA
Found at i:27330506 original size:39 final size:39
Alignment explanation
Indices: 27330452--27330762 Score: 460
Period size: 39 Copynumber: 8.0 Consensus size: 39
27330442 ATTATATTAT
* *
27330452 CAGCACAAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
27330491 CAGCACGAAGCCTGCGAGACTTTAGTCTGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
27330530 CAGCACGAAGCCTGCGGGACTTTGGCCCAGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
27330569 CAGCACGAAGCCTGCGGGACTTTAGCCCGGAAATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
27330608 CAGCACGAAGCCTGCGGGACTTTGGCCCAGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
27330647 CAGCACGAAGCCTGCGGGACTTTAGCTCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
27330686 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
27330725 CAGCACGAAGCCTGTGGGAATTTATCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
27330763 TCAGTGTCTT
Statistics
Matches: 247, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 247 1.00
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:27339890 original size:42 final size:42
Alignment explanation
Indices: 27339786--27339943 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 42
27339776 TATGTGTTTA
* *
27339786 CGTGTAA-AGCCAC-GTCTGGGATGTTGGCATCAACTTATGATTT
1 CGTGTAAGA-CCACTGTCTGGGACGTTGGCATCGA-TT-TGATTT
*
27339829 ATGTGTAAGACCACT-TCTGGGACGTTGGCATCGTATTTGATTT
1 -CGTGTAAGACCACTGTCTGGGACGTTGGCATCG-ATTTGATTT
* *
27339872 CGTGTAAGTCC-CTGTCTGGGACAG-TGGCATCGATATTGATTA
1 CGTGTAAGACCACTGTCTGGGAC-GTTGGCATCGAT-TTGATTT
*
27339914 CATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 CGTGTAAGACCACTGTCTGGGACGTTGGCAT
27339944 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 8, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
41 5 0.05
42 55 0.56
43 8 0.08
44 28 0.29
45 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCACTGTCTGGGACGTTGGCATCGATTTGATTT
Found at i:27350232 original size:29 final size:29
Alignment explanation
Indices: 27350198--27350358 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
27350188 TACTCGATTT
** * *
27350198 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
27350227 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
27350256 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
27350285 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27350314 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27350343 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27350359 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:27358124 original size:29 final size:29
Alignment explanation
Indices: 27358090--27358250 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
27358080 TACTCGATTT
** * *
27358090 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
27358119 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
27358148 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
27358177 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27358206 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27358235 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27358251 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:27361507 original size:13 final size:13
Alignment explanation
Indices: 27361469--27361508 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
27361459 AGTTTGGCAA
27361469 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
27361482 TGCTGTGGTAAAG
1 TGCTTTTGAAAAG
27361495 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
27361508 T
1 T
27361509 TTGGTTTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:27363651 original size:27 final size:27
Alignment explanation
Indices: 27363621--27363786 Score: 136
Period size: 27 Copynumber: 6.0 Consensus size: 27
27363611 AGTTTTCCAA
* *
27363621 AAAGGCTTCATTTTCATAAATCGCCAC
1 AAAGACTTCATTTTCATAGATCGCCAC
* * * * *
27363648 AAAGGCTTCTTTTTTAATAGATAGCCAT
1 AAAGACTTC-ATTTTCATAGATCGCCAC
* * *
27363676 AAATACTTTATTTTTTCATAGATCACCAC
1 AAAGACTTCA--TTTTCATAGATCGCCAC
* *
27363705 AAATG-CTTCCTTTTAATAGATCGCCAC
1 AAA-GACTTCATTTTCATAGATCGCCAC
* *
27363732 AAAGACTTCCTTTTCAAAGATCGCCAC
1 AAAGACTTCATTTTCATAGATCGCCAC
* *
27363759 AAAGACTTCATTTTTTATAGATCACCAC
1 AAAGACTTCA-TTTTCATAGATCGCCAC
27363787 GAATGGTTCC
Statistics
Matches: 109, Mismatches: 24, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
26 1 0.01
27 56 0.51
28 33 0.30
29 19 0.17
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (27 bp):
AAAGACTTCATTTTCATAGATCGCCAC
Found at i:27377816 original size:21 final size:18
Alignment explanation
Indices: 27377770--27377806 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
27377760 AACATCTATC
*
27377770 GCATCATGCACCACTAAT
1 GCATCATGCACCACAAAT
27377788 GCATCATGCACCACAAAT
1 GCATCATGCACCACAAAT
27377806 G
1 G
27377807 AGTCATCATG
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:0.35, C:0.32, G:0.14, T:0.19
Consensus pattern (18 bp):
GCATCATGCACCACAAAT
Found at i:27379979 original size:40 final size:39
Alignment explanation
Indices: 27379922--27380106 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 39
27379912 ATTAAATGAT
* * *
27379922 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
27379962 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
27380002 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
27380042 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
*
27380082 ATCCGGGCTACGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
27380107 CGTGCATGTG
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 121 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:27380058 original size:80 final size:80
Alignment explanation
Indices: 27379921--27380127 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
27379911 AATTAAATGA
* * ** * *
27379921 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
27379986 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
27379999 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
27380064 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * * *
27380081 TATCCGGGCTACGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
27380128 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:27380112 original size:40 final size:40
Alignment explanation
Indices: 27379920--27380127 Score: 204
Period size: 40 Copynumber: 5.2 Consensus size: 40
27379910 CAATTAAATG
* * ** * *
27379920 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * * * *
27379960 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TT
* *
27380000 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
27380040 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * * *
27380080 CTATCCGGGCTACGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
27380120 ATATCCGG
1 ATATCCGG
27380128 TTGTATTCCG
Statistics
Matches: 144, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
39 4 0.03
40 136 0.94
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:27382704 original size:25 final size:25
Alignment explanation
Indices: 27382676--27382741 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
27382666 AAATTTTTTC
27382676 GGAAGCATTTGTGGCAATTTACTTG
1 GGAAGCATTTGTGGCAATTTACTTG
* * ** *
27382701 GGAAGCCTTTATGAAAATTTATTTG
1 GGAAGCATTTGTGGCAATTTACTTG
*
27382726 GGAAGCTTTTGTGGCA
1 GGAAGCATTTGTGGCA
27382742 GGTTACTCGT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (25 bp):
GGAAGCATTTGTGGCAATTTACTTG
Found at i:27388996 original size:42 final size:42
Alignment explanation
Indices: 27388937--27389035 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
27388927 AGATTACATG
* *
27388937 AAGACCATATCTAGGATATGCCATC-ATTATGAAACTTTGTGT
1 AAGACCATATCTGGGATATGCCATCGA-TATGAAACTTCGTGT
** *
27388979 AAGACCATATCTGGGATATGGTATCGATATGAGACTTCGTGT
1 AAGACCATATCTGGGATATGCCATCGATATGAAACTTCGTGT
*
27389021 AAGACCATAACTGGG
1 AAGACCATATCTGGG
27389036 CTATTGGCGT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (42 bp):
AAGACCATATCTGGGATATGCCATCGATATGAAACTTCGTGT
Found at i:27390107 original size:83 final size:83
Alignment explanation
Indices: 27389968--27390150 Score: 278
Period size: 83 Copynumber: 2.2 Consensus size: 83
27389958 CGTGTGGATG
* * * * *
27389968 ACACAGCCTCAGC-CATGGGCATGTGCCCTAGGCGTGTGAAGCCTGCACCTATTTTATGAAAAAT
1 ACACAGCCT-AGCACACGAGCATCTGCCCTAGGCGTGTGAAGCCTACACCTATTTTATGAAAAAC
27390032 CATAAATTTTAAATCGACC
65 CATAAATTTTAAATCGACC
* *
27390051 ACACAGCCTAGCACACGAGCATCTGCCCTGGGCGTGTGAAGTCTACACCTATTTTATGAAAAACC
1 ACACAGCCTAGCACACGAGCATCTGCCCTAGGCGTGTGAAGCCTACACCTATTTTATGAAAAACC
27390116 ATAAATTTTAAATCGACC
66 ATAAATTTTAAATCGACC
*
27390134 ACACGGCCTAGCACACG
1 ACACAGCCTAGCACACG
27390151 GGCGTATGAC
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
82 3 0.03
83 88 0.97
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (83 bp):
ACACAGCCTAGCACACGAGCATCTGCCCTAGGCGTGTGAAGCCTACACCTATTTTATGAAAAACC
ATAAATTTTAAATCGACC
Found at i:27390164 original size:83 final size:83
Alignment explanation
Indices: 27389998--27390171 Score: 267
Period size: 83 Copynumber: 2.1 Consensus size: 83
27389988 ATGTGCCCTA
* *
27389998 GGCGTGTGAAGCCTGCACCTATTTTATGAAAAATCATAAATTTTAAATCGACCACACAGCCTAGC
1 GGCGTGTGAAGCCTACACCTATTTTATGAAAAACCATAAATTTTAAATCGACCACACAGCCTAGC
* *
27390063 ACACGAGCATCTGCCCTG
66 ACACGAGCATATGACCTG
* *
27390081 GGCGTGTGAAGTCTACACCTATTTTATGAAAAACCATAAATTTTAAATCGACCACACGGCCTAGC
1 GGCGTGTGAAGCCTACACCTATTTTATGAAAAACCATAAATTTTAAATCGACCACACAGCCTAGC
* *
27390146 ACACGGGCGTATGACCTG
66 ACACGAGCATATGACCTG
*
27390164 GTCGTGTG
1 GGCGTGTG
27390172 TCTTCAATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (83 bp):
GGCGTGTGAAGCCTACACCTATTTTATGAAAAACCATAAATTTTAAATCGACCACACAGCCTAGC
ACACGAGCATATGACCTG
Found at i:27391508 original size:29 final size:29
Alignment explanation
Indices: 27391311--27391509 Score: 102
Period size: 29 Copynumber: 6.8 Consensus size: 29
27391301 TTTGTGGTGG
* * *
27391311 TCTCTAGTAAAAGAAAGCCTTTGTGGCAA
1 TCTCTATTAAAAGGAAGCCTTTGTAGCAA
* *
27391340 TTTCTATTAAAAGGAAGCCTTTGTGGCAA
1 TCTCTATTAAAAGGAAGCCTTTGTAGCAA
*
27391369 TACTC---TAAAGGGAAAGCCTTTGTAGCAA
1 T-CTCTATTAAAAGG-AAGCCTTTGTAGCAA
** * *
27391397 GTACTGAATGTTAAAGGAATGCCTTTGT-GACGA
1 -T-CTCTAT-TAAAAGGAA-GCCTTTGTAG-CAA
* * * ** * *
27391430 TCTCTATTAAAAAGAAACCCTTACACCTA
1 TCTCTATTAAAAGGAAGCCTTTGTAGCAA
* * * *
27391459 TCTTTGTTAAATGGACA-CCTTTGTAGCTA
1 TCTCTATTAAAAGGA-AGCCTTTGTAGCAA
27391488 TCTCTATTAAAAGGAAGCCTTT
1 TCTCTATTAAAAGGAAGCCTTT
27391510 ATGGCAACAT
Statistics
Matches: 127, Mismatches: 31, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
27 6 0.05
28 15 0.12
29 73 0.57
30 10 0.08
31 4 0.03
32 4 0.03
33 15 0.12
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (29 bp):
TCTCTATTAAAAGGAAGCCTTTGTAGCAA
Found at i:27401086 original size:42 final size:43
Alignment explanation
Indices: 27401022--27401129 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
27401012 CCGATATGTG
* * *
27401022 TTTTCGTGTAAGACCACGTCTGGGAT-GTTGTCATCG-TATTTGA
1 TTTT-GTGTAAGACCATGTCTGGGATAG-TGGCATCGATATTTCA
*
27401065 TTTTGTGTAAGACCTTGTCTGGGATAGTGGCATCGATATTTCA
1 TTTTGTGTAAGACCATGTCTGGGATAGTGGCATCGATATTTCA
***
27401108 TTACATGTAAGACCATGTCTGG
1 TTTTGTGTAAGACCATGTCTGG
27401130 AACGTTGGCA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 26 0.47
43 29 0.53
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (43 bp):
TTTTGTGTAAGACCATGTCTGGGATAGTGGCATCGATATTTCA
Found at i:27410549 original size:24 final size:24
Alignment explanation
Indices: 27410522--27410728 Score: 360
Period size: 24 Copynumber: 8.6 Consensus size: 24
27410512 CTTATTATGT
* * *
27410522 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
27410546 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
27410570 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
27410594 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
27410618 TCGCACACATAGTGCCATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
27410642 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
27410666 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
27410690 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
27410714 TCGCACACATAGTGC
1 TCGCACACATAGTGC
27410729 ATTTGAGATA
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:27418446 original size:24 final size:24
Alignment explanation
Indices: 27418416--27418569 Score: 228
Period size: 24 Copynumber: 6.5 Consensus size: 24
27418406 CTTATTATGT
* *
27418416 TCGCACACATA--GCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
27418438 TCGCACACATAGTG-TATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
27418461 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
27418485 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
27418509 TCGCACACATAGTGCCATAG-AAA
1 TCGCACACATAGTGCCATAGTAAA
27418532 TCGCACACATAGTAGCCCATAGT-AA
1 TCGCACACATAGT-G-CCATAGTAAA
27418557 TCGCACACATAGT
1 TCGCACACATAGT
27418570 ANNNNNNNNN
Statistics
Matches: 124, Mismatches: 2, Indels: 9
0.92 0.01 0.07
Matches are distributed among these distances:
22 11 0.09
23 38 0.31
24 54 0.44
25 21 0.17
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:27418536 original size:71 final size:72
Alignment explanation
Indices: 27418416--27418569 Score: 228
Period size: 71 Copynumber: 2.2 Consensus size: 72
27418406 CTTATTATGT
* *
27418416 TCGCACACATA--GCTATAGCAAATCGCACACATAGTGTATAGTAAATCGCACACATAGT-G-CC
1 TCGCACACATAGTGCCATAGCAAATCGCACACATAGTGCATAGTAAATCGCACACATAGTAGCCC
27418477 ATAGTAAA
66 ATAGT-AA
*
27418485 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAG-AAATCGCACACATAGTAGCC
1 TCGCACACATAGTGCCATAGCAAATCGCACACATAGTG-CATAGTAAATCGCACACATAGTAGCC
27418549 CATAGTAA
65 CATAGTAA
27418557 TCGCACACATAGT
1 TCGCACACATAGT
27418570 ANNNNNNNNN
Statistics
Matches: 77, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
69 11 0.14
71 39 0.51
72 20 0.26
73 7 0.09
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (72 bp):
TCGCACACATAGTGCCATAGCAAATCGCACACATAGTGCATAGTAAATCGCACACATAGTAGCCC
ATAGTAA
Found at i:27418569 original size:15 final size:15
Alignment explanation
Indices: 27418524--27418570 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
27418514 CACATAGTGC
*
27418524 CATAGAAATCGCACA
1 CATAGTAATCGCACA
27418539 CATAGT-A--GC-C-
1 CATAGTAATCGCACA
27418549 CATAGTAATCGCACA
1 CATAGTAATCGCACA
27418564 CATAGTA
1 CATAGTA
27418571 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 1, Indels: 10
0.70 0.03 0.27
Matches are distributed among these distances:
10 6 0.23
11 2 0.08
12 2 0.08
13 2 0.08
14 2 0.08
15 12 0.46
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (15 bp):
CATAGTAATCGCACA
Found at i:27423398 original size:30 final size:30
Alignment explanation
Indices: 27423343--27423473 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
27423333 ATAGTGAATC
*
27423343 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
27423372 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
27423402 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
27423430 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
27423460 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27423474 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:27423453 original size:58 final size:58
Alignment explanation
Indices: 27423342--27423473 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
27423332 TATAGTGAAT
* * * * *
27423342 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
27423401 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
27423459 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
27423474 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:27430744 original size:40 final size:39
Alignment explanation
Indices: 27430699--27430828 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
27430689 CGGAATATAA
27430699 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
27430739 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
27430779 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
27430819 CCGGATATAA
1 CCGGATATAA
27430829 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:27430843 original size:40 final size:40
Alignment explanation
Indices: 27430715--27430866 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
27430705 ATAACCATGT
* * *
27430715 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
27430755 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
27430795 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
27430835 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
27430867 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:27430849 original size:80 final size:80
Alignment explanation
Indices: 27430715--27430864 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
27430705 ATAACCATGT
*
27430715 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
27430779 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
27430795 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
27430858 CCCGGAT
64 CCCGGAT
27430865 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:27434527 original size:46 final size:46
Alignment explanation
Indices: 27434460--27434588 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
27434450 TGTAACCCGC
* *
27434460 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
*
27434506 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
27434552 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27434589 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:27434607 original size:46 final size:44
Alignment explanation
Indices: 27434468--27434607 Score: 133
Period size: 46 Copynumber: 3.0 Consensus size: 44
27434458 GCCCATAAGC
* * * *
27434468 GAACTCGGACTCAACTCAACGAGCTCAGGCTTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GGATCTCACCATCC-T-AGT
*
27434514 GAACTCGGACTCAACTCAACGAGTTCGGA-CATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATC--TCACCATCC-T-AGT
27434560 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGAT-CTC-ACCATCCTAGT
27434606 GA
1 GA
27434608 CATGTCACTT
Statistics
Matches: 84, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
45 2 0.02
46 75 0.89
47 1 0.01
48 6 0.07
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATCTCACCATCCTAGT
Found at i:27437157 original size:31 final size:31
Alignment explanation
Indices: 27437081--27437158 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
27437071 ACTACAAAAA
*
27437081 TAGTCACTTTTATTTGTCTCAGATTACATTT
1 TAGTCACTTTTGTTTGTCTCAGATTACATTT
*
27437112 TAGTCACTTTTGTTTGTCTCATATTACATTT
1 TAGTCACTTTTGTTTGTCTCAGATTACATTT
*
27437143 TAGTCACTTATGTTTG
1 TAGTCACTTTTGTTTG
27437159 AAATGTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.53
Consensus pattern (31 bp):
TAGTCACTTTTGTTTGTCTCAGATTACATTT
Found at i:27445728 original size:3 final size:3
Alignment explanation
Indices: 27445708--27445762 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
27445698 ATACTGCTAT
* *
27445708 TTC TTT TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
27445756 TT- TTC TT
1 TTC TTC TT
27445763 TTTTGGTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:27448262 original size:52 final size:52
Alignment explanation
Indices: 27448169--27448268 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
27448159 AAAATCAATT
* * * *
27448169 ATATTAATTTTATTTCATTTTAAAATATTTAATATTAAAATAATAATAAAAA
1 ATATTAATATTATTTAATATTAAAATATTTAATATTAAAATAAAAATAAAAA
*
27448221 ATATTAATATTATATTAATATTAATATATTATAAT-TT-AAATAAAAATA
1 ATATTAATATTAT-TTAATATTAAAATATT-TAATATTAAAATAAAAATA
27448269 TTACTAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
52 22 0.54
53 15 0.37
54 4 0.10
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (52 bp):
ATATTAATATTATTTAATATTAAAATATTTAATATTAAAATAAAAATAAAAA
Found at i:27450384 original size:39 final size:39
Alignment explanation
Indices: 27450308--27450384 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
27450298 AATAATTATA
* * * **
27450308 AAGTGTAAAATTAAATTATTACATTATAAATGGATTAAT
1 AAGTGTAAAATTAAATAATTACAATAGAAATAAATTAAT
27450347 AAGTGTAAAATTAAATAATTACAATAGAAATAAATTAA
1 AAGTGTAAAATTAAATAATTACAATAGAAATAAATTAA
27450385 GAATTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.34
Consensus pattern (39 bp):
AAGTGTAAAATTAAATAATTACAATAGAAATAAATTAAT
Found at i:27450925 original size:23 final size:24
Alignment explanation
Indices: 27450899--27450958 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
27450889 TTTAAAAATG
27450899 ATAAAATTATAATTTT-ATATATA
1 ATAAAATTATAATTTTGATATATA
* *
27450922 ATAAATTTAT-ATTTTGATCTATA
1 ATAAAATTATAATTTTGATATATA
27450945 A-AAATATTATAATT
1 ATAAA-ATTATAATT
27450959 AATTTCAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 8 0.26
23 20 0.65
24 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
ATAAAATTATAATTTTGATATATA
Found at i:27451501 original size:18 final size:19
Alignment explanation
Indices: 27451466--27451505 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
27451456 ACTTAGTTCT
* *
27451466 AAATGAAAATTTTTAAGAA
1 AAATGAAAATGTTAAAGAA
27451485 AAAT-AAAATGTTAAAGAA
1 AAATGAAAATGTTAAAGAA
27451503 AAA
1 AAA
27451506 AGCTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (19 bp):
AAATGAAAATGTTAAAGAA
Found at i:27458519 original size:40 final size:40
Alignment explanation
Indices: 27458452--27458603 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
27458442 AAATTGAATG
* * * * *
27458452 ATATCCGGGCTAAGCCCCAAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
27458492 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
27458532 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
27458572 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
27458604 ACATGCTTAT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:27458617 original size:40 final size:39
Alignment explanation
Indices: 27458490--27458619 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
27458480 ATGCTGGAAA
* * *
27458490 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
27458531 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
27458569 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
27458610 TTATATCCGG
1 TTATATCCGG
27458620 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:27461140 original size:8 final size:8
Alignment explanation
Indices: 27461120--27461156 Score: 65
Period size: 8 Copynumber: 4.5 Consensus size: 8
27461110 CTCTATCATC
27461120 ACTCATCAG
1 ACTCAT-AG
27461129 ACTCATAG
1 ACTCATAG
27461137 ACTCATAG
1 ACTCATAG
27461145 ACTCATAG
1 ACTCATAG
27461153 ACTC
1 ACTC
27461157 CAACACACCG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (8 bp):
ACTCATAG
Found at i:27468449 original size:42 final size:42
Alignment explanation
Indices: 27468402--27468483 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
27468392 GCCAATGTGT
**
27468402 ATATATAGTCGAAGCTATCTCAATCTCACACACTAAGTGCAA
1 ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGCAA
* * *
27468444 ATATATAACCGAAGCTATCTCGATTTCGCACACTAAGTGC
1 ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGC
27468484 CCACAATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.27
Consensus pattern (42 bp):
ATATATAACCGAAGCTATCTCAATCTCACACACTAAGTGCAA
Found at i:27476142 original size:26 final size:26
Alignment explanation
Indices: 27476111--27476218 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
27476101 TGAAATGCCC
*
27476111 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
27476137 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27476163 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
27476189 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27476215 ATCA
1 ATCA
27476219 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27477112 original size:60 final size:61
Alignment explanation
Indices: 27477045--27477180 Score: 211
Period size: 61 Copynumber: 2.2 Consensus size: 61
27477035 TTATACTAAA
* *
27477045 TTATTTAAATAAACTTTTATAATA-TTCTTTTACCTAAATAAACCCTTAAGCTATAATGGC
1 TTATTTAAATAAACCTTTATAATATTTCTTTTACCTAAATAAACCCTTAAGCTATAATGAC
* * * *
27477105 TTATTTAAATAAGCCTTTATAGTATTTTTTTTACCTAAATAAACCCTTGAGCTATAATGAC
1 TTATTTAAATAAACCTTTATAATATTTCTTTTACCTAAATAAACCCTTAAGCTATAATGAC
27477166 TTATTTAAATAAACC
1 TTATTTAAATAAACC
27477181 CTTAAATCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
60 21 0.31
61 47 0.69
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (61 bp):
TTATTTAAATAAACCTTTATAATATTTCTTTTACCTAAATAAACCCTTAAGCTATAATGAC
Found at i:27477116 original size:31 final size:31
Alignment explanation
Indices: 27477079--27477185 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 31
27477069 TTCTTTTACC
*
27477079 TAAATAAACCCTTAAGCTATAATGGCTTATT
1 TAAATAAACCCTTAAGCTATAATGACTTATT
* * * *** **
27477110 TAAATAAGCCTTTATAG-TAT-TTTTTTTACC
1 TAAATAAACCCTTA-AGCTATAATGACTTATT
*
27477140 TAAATAAACCCTTGAGCTATAATGACTTATT
1 TAAATAAACCCTTAAGCTATAATGACTTATT
27477171 TAAATAAACCCTTAA
1 TAAATAAACCCTTAA
27477186 ATCTAGTTGA
Statistics
Matches: 55, Mismatches: 18, Indels: 6
0.70 0.23 0.08
Matches are distributed among these distances:
29 2 0.04
30 18 0.33
31 33 0.60
32 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (31 bp):
TAAATAAACCCTTAAGCTATAATGACTTATT
Found at i:27511872 original size:42 final size:42
Alignment explanation
Indices: 27511766--27511872 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 42
27511756 AGTTATCATG
* * * *
27511766 TAAGACCATATCTGGGATATAGAGTTGATATGAGATTTCGTG
1 TAAGACCATATCTGGGATATGGCGTTGAAATGAGATTTCGTA
** * *
27511808 TAAGACCACGTCTAGGACATGGCGTTGAAATGAGAATTT-GTA
1 TAAGACCATATCTGGGATATGGCGTTGAAATGAG-ATTTCGTA
27511850 TAAGACCATATCTGGGATATGGC
1 TAAGACCATATCTGGGATATGGC
27511873 ATCGATGTGA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 48 0.92
43 4 0.08
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCGTTGAAATGAGATTTCGTA
Found at i:27511884 original size:42 final size:43
Alignment explanation
Indices: 27511716--27511884 Score: 121
Period size: 42 Copynumber: 3.9 Consensus size: 43
27511706 TGAGATCCCA
* * *
27511716 TATAAGACCATATTTGGGATATGGCATTGGCATCA-GTATGAGTTATCA
1 TATAAGACCATATCTGGGATATGGCATT-G-AT-ATG-A-GAATT-TCG
* *
27511764 TGTAAGACCATATCTGGGATATAG-AGTTGATATGAG-ATTTCG
1 TATAAGACCATATCTGGGATATGGCA-TTGATATGAGAATTTCG
* ** * * * *
27511806 TGTAAGACCACGTCTAGGACATGGCGTTGAAATGAGAATTT-G
1 TATAAGACCATATCTGGGATATGGCATTGATATGAGAATTTCG
* *
27511848 TATAAGACCATATCTGGGATATGGCATCGATGTGAGA
1 TATAAGACCATATCTGGGATATGGCATTGATATGAGA
27511885 TCCCATGTAA
Statistics
Matches: 96, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
42 59 0.61
43 6 0.06
44 1 0.01
45 2 0.02
46 3 0.03
47 2 0.02
48 23 0.24
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (43 bp):
TATAAGACCATATCTGGGATATGGCATTGATATGAGAATTTCG
Found at i:27531292 original size:14 final size:12
Alignment explanation
Indices: 27531257--27531294 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
27531247 CGCTTGAAGG
27531257 ACACGGGTGTGC
1 ACACGGGTGTGC
27531269 ACACGGGTGTGC
1 ACACGGGTGTGC
27531281 ACACAGGCGTGTGC
1 ACAC-GG-GTGTGC
27531295 TTTTCCTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 16 0.67
13 2 0.08
14 6 0.25
ACGTcount: A:0.18, C:0.26, G:0.39, T:0.16
Consensus pattern (12 bp):
ACACGGGTGTGC
Found at i:27531306 original size:23 final size:23
Alignment explanation
Indices: 27531278--27531339 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
27531268 CACACGGGTG
*
27531278 TGCACACAGGCGTGTGCTTT-TCC
1 TGCACACGGGCGTGTGCTTTGT-C
*
27531301 TGCACACGGGCATGTGCTTTGTC
1 TGCACACGGGCGTGTGCTTTGTC
*
27531324 TTCACACGGGCGTGTG
1 TGCACACGGGCGTGTG
27531340 AGGCATAACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.13, C:0.27, G:0.31, T:0.29
Consensus pattern (23 bp):
TGCACACGGGCGTGTGCTTTGTC
Found at i:27535393 original size:25 final size:25
Alignment explanation
Indices: 27535365--27535420 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
27535355 TAGCTATGTT
* *
27535365 CCGATCCATATCTTGTGTGAGCATA
1 CCGATCCATAGCTTGTGAGAGCATA
**
27535390 CCGATTTATAGCTTGTGAGAGCATA
1 CCGATCCATAGCTTGTGAGAGCATA
27535415 CCGATC
1 CCGATC
27535421 TACAGCTCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (25 bp):
CCGATCCATAGCTTGTGAGAGCATA
Found at i:27535427 original size:25 final size:25
Alignment explanation
Indices: 27535376--27535427 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
27535366 CGATCCATAT
* * *
27535376 CTTGTGTGAGCATACCGATTTATAG
1 CTTGTGAGAGCATACCGATCTACAG
27535401 CTTGTGAGAGCATACCGATCTACAG
1 CTTGTGAGAGCATACCGATCTACAG
27535426 CT
1 CT
27535428 CGAGTGATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (25 bp):
CTTGTGAGAGCATACCGATCTACAG
Found at i:27538270 original size:24 final size:25
Alignment explanation
Indices: 27538230--27538282 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
27538220 GCATAATTGA
27538230 AATTTTGAATTAATAA-T-AAGGTT
1 AATTTTGAATTAATAATTAAAGGTT
* *
27538253 AATTTTGTCATTAGTAATTAAAGGTT
1 AATTTTG-AATTAATAATTAAAGGTT
27538279 AATT
1 AATT
27538283 AAATAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.28
24 7 0.28
25 1 0.04
26 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (25 bp):
AATTTTGAATTAATAATTAAAGGTT
Found at i:27539228 original size:29 final size:28
Alignment explanation
Indices: 27539181--27539235 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
27539171 GAGTTATACC
* *
27539181 GATTTGGATTTGGGCCATGCATATCAGCT
1 GATTTGGATTCGGGACATG-ATATCAGCT
*
27539210 GATTTGGCTTCGGGACATGATATCAG
1 GATTTGGATTCGGGACATGATATCAG
27539236 TACTTCGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (28 bp):
GATTTGGATTCGGGACATGATATCAGCT
Found at i:27539755 original size:23 final size:23
Alignment explanation
Indices: 27539735--27539778 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27539725 TGAATATAGG
* *
27539735 TTGATAATGATTTTGGTTATAAC
1 TTGATAATGAATTTGGCTATAAC
*
27539758 TTGTTAATGAATTTGGCTATA
1 TTGATAATGAATTTGGCTATA
27539779 TGAATTGGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (23 bp):
TTGATAATGAATTTGGCTATAAC
Found at i:27542966 original size:28 final size:28
Alignment explanation
Indices: 27542934--27542992 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
27542924 TCGTTTCGTG
27542934 AGTAAACGTATGTTTACGTGGTACGGTA
1 AGTAAACGTATGTTTACGTGGTACGGTA
27542962 AGTAAACGTATGTTTACGTGGTACGGTA
1 AGTAAACGTATGTTTACGTGGTACGGTA
27542990 AGT
1 AGT
27542993 TATGTTTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (28 bp):
AGTAAACGTATGTTTACGTGGTACGGTA
Found at i:27542996 original size:23 final size:24
Alignment explanation
Indices: 27542942--27542999 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 24
27542932 TGAGTAAACG
27542942 TATGTTTACGTGGTACGGTAAGTAAA
1 TATGTTTACGTGGTACGGTAAGT--A
27542968 CGTATGTTTACGTGGTACGGTAAGT-
1 --TATGTTTACGTGGTACGGTAAGTA
27542993 TATGTTT
1 TATGTTT
27543000 CTACTTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 7 0.23
28 23 0.77
ACGTcount: A:0.24, C:0.09, G:0.28, T:0.40
Consensus pattern (24 bp):
TATGTTTACGTGGTACGGTAAGTA
Found at i:27553081 original size:20 final size:20
Alignment explanation
Indices: 27553056--27553097 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
27553046 ATCTCGAGTA
27553056 TTCCTCCGCTTGAGTAAGAT
1 TTCCTCCGCTTGAGTAAGAT
27553076 TTCCTCCGCTTGAGTAAGAT
1 TTCCTCCGCTTGAGTAAGAT
27553096 TT
1 TT
27553098 TACCCGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (20 bp):
TTCCTCCGCTTGAGTAAGAT
Found at i:27553354 original size:93 final size:93
Alignment explanation
Indices: 27553195--27553366 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
27553185 CGCCCATAAG
* * * *
27553195 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATGAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
27553260 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
27553288 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
27553353 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
27553367 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Done.