Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 86 of 352
Found at i:27043338 original size:14 final size:14
Alignment explanation
Indices: 27043319--27043345 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27043309 AAACCAAAAT
27043319 AAAACAAAAATAAA
1 AAAACAAAAATAAA
27043333 AAAACAAAAATAA
1 AAAACAAAAATAA
27043346 TTAGGTCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAACAAAAATAAA
Found at i:27045654 original size:13 final size:12
Alignment explanation
Indices: 27045638--27045667 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
27045628 TAAAATTTTG
27045638 TTATATATATAAT
1 TTATATATAT-AT
27045651 TTATATATATAT
1 TTATATATATAT
27045663 TTATA
1 TTATA
27045668 CATTATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATATATATAT
Found at i:27052003 original size:39 final size:38
Alignment explanation
Indices: 27051936--27052270 Score: 420
Period size: 39 Copynumber: 8.6 Consensus size: 38
27051926 ACAAAGCATG
* * * *
27051936 CGGGACTTTAAGCCCGAATATAATACCAGCACAAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAATGCCTT
*
27051976 CGGGACTTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCAC-AATGCCTT
* *
27052016 CGGGGCTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
27052055 CGAGG-CTTAGCCCGGATATAACACCAGCACATATGCCTT
1 CG-GGACTTAGCCCGGATATAACACCAGCACA-ATGCCTT
*
27052094 CGGGGCTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
* ** *
27052133 CGAGACTTAGCCCAAATATAACACCAGTACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
27052172 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
**
27052211 TAGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
* *
27052250 CGAGCCTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
27052271 TTCTCCATTA
Statistics
Matches: 264, Mismatches: 26, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
38 3 0.01
39 238 0.90
40 23 0.09
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (38 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAATGCCTT
Found at i:27052269 original size:117 final size:116
Alignment explanation
Indices: 27051936--27052270 Score: 465
Period size: 117 Copynumber: 2.8 Consensus size: 116
27051926 ACAAAGCATG
* * * * *
27051936 CGGGACTTTAAGCCCGAATATAATACCAGCACAAAGCCTACGGGACTTTAGCCCAGATATAACAC
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAATGCCTTCGGGAC-TTAGCCCGGATATAACAC
* * * *
27052001 CAGCACGAATGCCTTCGGGGCTTAGCTCGGATATAACACCAGCACGAATGCCTT
63 CAGCACAAATGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
27052055 CGAGG-CTTAGCCCGGATATAACACCAGCACATATGCCTTCGGGGCTTAGCCCGGATATAACACC
1 CG-GGACTTAGCCCGGATATAACACCAGCACA-ATGCCTTCGGGACTTAGCCCGGATATAACACC
** *
27052119 AGCACAAATGCCTTCGAGACTTAGCCCAAATATAACACCAGTACGAATGCCTT
64 AGCACAAATGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
**
27052172 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTTAGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTTCGGGACTTAGCCCGGATATAACACCA
*
27052237 GCACAAATGCCTTCGAGCCTTAGCCCGGATATAA
65 GCACAAATGCCTTCGAGACTTAGCCCGGATATAA
27052271 TTCTCCATTA
Statistics
Matches: 193, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
116 2 0.01
117 173 0.90
118 13 0.07
119 3 0.02
120 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (116 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
CACAAATGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:27055805 original size:27 final size:27
Alignment explanation
Indices: 27055772--27055930 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
27055762 CTGCCAGAAT
* *
27055772 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
*
27055799 AAATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
*
27055826 AGATATATGTGGCAGAGCCGCCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
* * *
27055853 AGATAATCATGGCATAGCCACCAGA-AG
1 AGATAAT-GTGGCAGAGCCACCAGATAC
27055880 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
27055907 AGATAATTGTGGCATAGCCACCAG
1 AGATAA-TGTGGCAGAGCCACCAG
27055931 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 3 0.03
27 89 0.80
28 19 0.17
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:27055830 original size:54 final size:54
Alignment explanation
Indices: 27055765--27055930 Score: 235
Period size: 54 Copynumber: 3.1 Consensus size: 54
27055755 AGCATGGCTG
* * * * *
27055765 CCAGAATAGATA-ATGTGACAGAGTCACCAGATACAAATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCATAGCCA
* *
27055819 CCAGAACAGATATATGTGGCAGAGCCGCCAGATCAGATAATCATGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
* *
27055873 CCAGAAGAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
27055927 CCAG
1 CCAG
27055931 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 83 0.83
55 17 0.17
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCA
Found at i:27057564 original size:26 final size:26
Alignment explanation
Indices: 27057521--27057627 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
27057511 TGAAATGCCC
27057521 ATCATGGAA-ATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27057546 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
27057572 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
27057598 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
27057624 ATCA
1 ATCA
27057628 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
25 12 0.16
26 63 0.84
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:27057597 original size:52 final size:51
Alignment explanation
Indices: 27057521--27057627 Score: 187
Period size: 52 Copynumber: 2.1 Consensus size: 51
27057511 TGAAATGCCC
27057521 ATCATGGAAATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAAATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
27057572 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCTATT
1 ATCATGGAA-ATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
27057624 ATCA
1 ATCA
27057628 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 9 0.17
52 44 0.83
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (51 bp):
ATCATGGAAATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:27062569 original size:27 final size:28
Alignment explanation
Indices: 27062532--27062724 Score: 222
Period size: 27 Copynumber: 7.1 Consensus size: 28
27062522 AGCATGGCTG
* *
27062532 CCAGA-ACAGATAAT-GTGACAGAGTCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
*
27062558 CCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
27062586 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
* *
27062614 CCAGA-ACAGATATAT-GTGTCAAAGCCA
1 CCAGATACAGATA-ATCGTGGCAGAGCCA
* *
27062641 CCAGAT-CAGATAATCATGGCAAAGCCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
*
27062668 CCAGA-ACAAATATAT-GTGGCAGAGCCA
1 CCAGATACAGATA-ATCGTGGCAGAGCCA
* *
27062695 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
27062722 CCA
1 CCA
27062725 AGACGCTTCC
Statistics
Matches: 147, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
26 9 0.06
27 91 0.62
28 47 0.32
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (28 bp):
CCAGATACAGATAATCGTGGCAGAGCCA
Found at i:27064377 original size:26 final size:26
Alignment explanation
Indices: 27064347--27064506 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
27064337 TGAAATGCCC
27064347 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27064373 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
27064399 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27064425 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27064451 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
27064477 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27064503 ATCA
1 ATCA
27064507 ATTTGTACCA
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 126 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27064441 original size:78 final size:78
Alignment explanation
Indices: 27064347--27064506 Score: 311
Period size: 78 Copynumber: 2.1 Consensus size: 78
27064337 TGAAATGCCC
*
27064347 ATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGGAATATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGGAACATT
27064412 TACCTAACCCATT
66 TACCTAACCCATT
27064425 ATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGGAACATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGGAACATT
27064490 TACCTAACCCATT
66 TACCTAACCCATT
27064503 ATCA
1 ATCA
27064507 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (78 bp):
ATCATGGAACATTTACCTAACCCATTATCATGGAATATTTACCTAATCCATTATCATGGAACATT
TACCTAACCCATT
Found at i:27069057 original size:43 final size:43
Alignment explanation
Indices: 27068996--27069080 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
27068986 AAACGAGATT
27068996 GAGGAATAAATTCCTTTGAATTAGCTTCTAGCAAAGCTAAGTC
1 GAGGAATAAATTCCTTTGAATTAGCTTCTAGCAAAGCTAAGTC
27069039 GAGGAATAAATTCCTTTGAATTAGCTTCTAGCAAAGCTAAGT
1 GAGGAATAAATTCCTTTGAATTAGCTTCTAGCAAAGCTAAGT
27069081 ATTTTTCTCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (43 bp):
GAGGAATAAATTCCTTTGAATTAGCTTCTAGCAAAGCTAAGTC
Found at i:27072207 original size:48 final size:48
Alignment explanation
Indices: 27072151--27072330 Score: 243
Period size: 48 Copynumber: 3.8 Consensus size: 48
27072141 CACAAAGTAA
* *
27072151 GATGCCAATGCCATATCCCGGATATGGTCTTAAATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
27072199 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * * *
27072247 AATGCCAATGCCATGTCCCAGACATGGTATTACATGGGATCACATAAC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
** * ** *
27072295 GATGGAAATGCCATGTCGTAGACATGGTCTTACATG
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATG
27072331 ACGTCACATA
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
Found at i:27081359 original size:46 final size:45
Alignment explanation
Indices: 27081179--27081359 Score: 136
Period size: 46 Copynumber: 3.9 Consensus size: 45
27081169 GGTTATTGTG
* * *
27081179 AGCTAGTGTAAGACATGTCTGAGACATGCATAGGCCA-TATTATGA
1 AGCTAGTGTAAGACATGTCTGAGACATGCATAGGCTACGA-GATGA
* * * * * *
27081224 GAGCTTGTGTAAGACCATGTGTGGGACATGGAATCGGC-GCTGAGATG-
1 -AGCTAGTGTAAGA-CATGTCTGAGACAT-GCATAGGCTAC-GAGATGA
* * *
27081271 AGTCTAGTATAAGACATGTCTGGGACATGCATTAGCCT-CGAGATGTA
1 AG-CTAGTGTAAGACATGTCTGAGACATGCA-TAGGCTACGAGATG-A
* *
27081318 AGCTAGTGTAAGACATGTCTGAGACATTCATCGGCTACGAGA
1 AGCTAGTGTAAGACATGTCTGAGACATGCATAGGCTACGAGA
27081360 CGTGTCAGTG
Statistics
Matches: 106, Mismatches: 19, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
45 12 0.11
46 61 0.58
47 23 0.22
48 9 0.08
49 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGAGACATGCATAGGCTACGAGATGA
Found at i:27083303 original size:46 final size:44
Alignment explanation
Indices: 27083113--27083430 Score: 197
Period size: 46 Copynumber: 6.8 Consensus size: 44
27083103 CATGGGTAAG
* * *
27083113 GAGCCGATGCCATATCCCAAACATGGTCTTACACTGGCTATCATCTTC
1 GAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTC-TC
* * * * * *
27083161 GAGCCCGATGCCATGTCCCGGGCATGGTCTTACACTAGATCTCACATAATC
1 GAG-CCGATG-CATGTCCCAGACAT-GTCTTACACT-G-GCT-TCGT-CTC
* * * * * *
27083212 GTGTCGATGCCATGTCCCAGACAAGGTCTTACACTGAC-ACATCTC
1 GAGCCGATG-CATGTCCCAGAC-ATGTCTTACACTGGCTTCGTCTC
* *
27083257 GCAGCCGATGCATGTCCCATACATGTCTTACATTGGCTTACGTCTC
1 G-AGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTC
* * *
27083303 GAGCTCAATGCATGTCCCAGACATGTCTTACACTAGCAGTCGTCTC
1 GAGC-CGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTC
* * * *
27083349 GATGCCGATGCCACGTCCCAGACATGGTCTTACACTGGCTCTCATATT
1 GA-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTC
* *
27083397 GTGGCCGATGCATGTCCTAGACATGTCTTACACT
1 G-AGCCGATGCATGTCCCAGACATGTCTTACACT
27083431 AGCTCACACG
Statistics
Matches: 217, Mismatches: 38, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
44 12 0.06
45 17 0.08
46 66 0.30
47 28 0.13
48 28 0.13
49 29 0.13
50 27 0.12
51 10 0.05
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (44 bp):
GAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTC
Found at i:27083379 original size:94 final size:90
Alignment explanation
Indices: 27083222--27083433 Score: 216
Period size: 94 Copynumber: 2.3 Consensus size: 90
27083212 GTGTCGATGC
* * *
27083222 CATGTCCCAGACAAGGTCTTACACT-GACACATCTCGCAGCCGATGCATGTCCCATACATGTCTT
1 CATGTCCCAGAC-ATGTCTTACACTAG-CACATCTCGCAGCCGATGCACGTCCCAGACATGTCTT
* * *
27083286 ACATTGGCT-TACGTCTCG-AGCTCAATG
64 ACACTGGCTCT-CATATCGTAGC-CAATG
*
27083313 CATGTCCCAGACATGTCTTACACTAGCAGTCGTCTCG-ATGCCGATGCCACGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCA--CATCTCGCA-GCCGATG-CACGTCCCAGACAT-GT
* * *
27083377 CTTACACTGGCTCTCATATTGTGGCCGATG
61 CTTACACTGGCTCTCATATCGTAGCCAATG
*
27083407 CATGTCCTAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
27083434 TCACACGAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
90 13 0.13
91 14 0.14
92 13 0.13
93 12 0.12
94 47 0.46
95 3 0.03
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (90 bp):
CATGTCCCAGACATGTCTTACACTAGCACATCTCGCAGCCGATGCACGTCCCAGACATGTCTTAC
ACTGGCTCTCATATCGTAGCCAATG
Found at i:27087607 original size:28 final size:29
Alignment explanation
Indices: 27087571--27087629 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
27087561 AAAGTCATTT
*
27087571 TTGACAAAAATGTAAAT-TAGGGATTAAA
1 TTGACAAAAATGTAAATAGAGGGATTAAA
* *
27087599 TTGAGAAAAATGTAAATAGAGGGGTTAAA
1 TTGACAAAAATGTAAATAGAGGGATTAAA
27087628 TT
1 TT
27087630 ATGAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (29 bp):
TTGACAAAAATGTAAATAGAGGGATTAAA
Found at i:27088214 original size:43 final size:43
Alignment explanation
Indices: 27088167--27088264 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
27088157 TTGTGTTTAT
* * *
27088167 GTGTAAGACCATGTCTGCGACATTGGTATCGTTATATGATT-TC
1 GTGTAAGACCATGTCTGCGACATTGGCATCATTATATG-TTAAC
* * *
27088210 GTGTAAGACCACGTCTGGGACGTTGGCATCATTATATGTTAAC
1 GTGTAAGACCATGTCTGCGACATTGGCATCATTATATGTTAAC
*
27088253 ATGTAAGACCAT
1 GTGTAAGACCAT
27088265 ATCTAGGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.04
43 44 0.96
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGCGACATTGGCATCATTATATGTTAAC
Found at i:27096350 original size:5 final size:4
Alignment explanation
Indices: 27096323--27096363 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
27096313 TTGCTTGTAC
27096323 ATAA ATAA ATAA ATAA ATAAA ATGAA AT-- ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA A
27096364 GGCTCAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
2 2 0.06
4 23 0.70
5 8 0.24
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:27120569 original size:13 final size:13
Alignment explanation
Indices: 27120551--27120576 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27120541 ATATTTTTAT
27120551 CCCATGCTTAGCA
1 CCCATGCTTAGCA
27120564 CCCATGCTTAGCA
1 CCCATGCTTAGCA
27120577 TATTTTTGGA
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:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
CCCATGCTTAGCA
Found at i:27123369 original size:22 final size:21
Alignment explanation
Indices: 27123330--27123370 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27123320 CACTTGACAC
* *
27123330 AGGGGCACACGCCTGTGTGGG
1 AGGGGCACACACCCGTGTGGG
27123351 AGGGGCAACACACCCGTGTG
1 AGGGGC-ACACACCCGTGTG
27123371 AGCATTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.27, G:0.41, T:0.12
Consensus pattern (21 bp):
AGGGGCACACACCCGTGTGGG
Found at i:27124569 original size:47 final size:48
Alignment explanation
Indices: 27124499--27124713 Score: 176
Period size: 47 Copynumber: 4.6 Consensus size: 48
27124489 GTAAGGTGCT
* * *
27124499 GATGCCATGTCCTAGACACGGTCTTACATTGGCTCAT-ATCTCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCATCTCAAGCC
* * * *
27124546 GATGCCATGTCTCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCATCTC-AAGCC
* * * * * * *
27124594 GATG-CATATCCCAGACAT-TTCTCACAGTAGC-CCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCATCTCAA-GCC
* ***
27124640 GATGCCATGTCCCAGACATGGTCTTACATTGGCTC-TCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCAT-CTCAAGCC
*
27124688 GGTG-CATGTCCCAGACAT-GTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
27124714 CTAGCTCACA
Statistics
Matches: 132, Mismatches: 28, Indels: 17
0.75 0.16 0.10
Matches are distributed among these distances:
45 1 0.01
46 31 0.23
47 73 0.55
48 25 0.19
49 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACATTGGCTCATCATCTCAAGCC
Found at i:27150837 original size:21 final size:22
Alignment explanation
Indices: 27150811--27150851 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27150801 CACTTGACAC
27150811 AGGGGCA-CACGCCCGTGTGGG
1 AGGGGCACCACGCCCGTGTGGG
*
27150832 AGGGGCACCACGTCCGTGTG
1 AGGGGCACCACGCCCGTGTG
27150852 AGCATTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.15, C:0.29, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCACCACGCCCGTGTGGG
Found at i:27152370 original size:19 final size:19
Alignment explanation
Indices: 27152354--27152391 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
27152344 GGGTAAGCAT
27152354 TTACATGCTTAGTAAGCTC
1 TTACATGCTTAGTAAGCTC
27152373 TTACATGCTTAGTAAGCTC
1 TTACATGCTTAGTAAGCTC
27152392 AAATAGCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (19 bp):
TTACATGCTTAGTAAGCTC
Found at i:27155055 original size:46 final size:44
Alignment explanation
Indices: 27154901--27155166 Score: 160
Period size: 47 Copynumber: 5.7 Consensus size: 44
27154891 AGGGTAAAGT
* * *
27154901 GCCGATGTCATGTCCTAGACACGGTCTTACACTGGC-TCATATCTCAAA
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTGGCTTC--ATCTC-GA
* * * **
27154949 TCC-ATGCCATGTCCCAAACATGGTCTTATACTAACTATCATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCG-A
* *
27154996 GCCAATGCATGTCCCAGACATGTTTTACACTGGCTTACATCTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGA
* * * * *
27155041 GGCCGATGAATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAA
1 -GCCGATGCATGTCCCAGACATGTCTTACACT-GGCTTCATCTCGA
* * *
27155087 TGCCGATGCCATGTACCAGACATGGTCTTACACTGGCTTTCATAAT-GTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TTCAT-CTCG-A
* * *
27155136 GCCGATACATGTCCTAGACATATCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
27155167 AGCTCACACA
Statistics
Matches: 170, Mismatches: 35, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
45 2 0.01
46 67 0.39
47 74 0.44
48 24 0.14
49 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGA
Found at i:27159670 original size:3 final size:3
Alignment explanation
Indices: 27159662--27159688 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27159652 TTTTAAAGCA
27159662 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
27159689 AGGGAGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:27160037 original size:3 final size:3
Alignment explanation
Indices: 27160029--27160080 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
27160019 TGGATTTCTC
*
27160029 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT TCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
27160077 CCT C
1 CCT C
27160081 ATTATTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CCT
Found at i:27170923 original size:22 final size:21
Alignment explanation
Indices: 27170898--27170941 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
27170888 TTAAATATAT
*
27170898 ATAGAAAAAGTAAAAAGTAAAA
1 ATAGAAAAAG-AAAAAGAAAAA
27170920 ATAGAAAAAGAAAAAGAAAAA
1 ATAGAAAAAGAAAAAGAAAAA
27170941 A
1 A
27170942 GTATGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (21 bp):
ATAGAAAAAGAAAAAGAAAAA
Found at i:27171405 original size:18 final size:18
Alignment explanation
Indices: 27171382--27171417 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27171372 TACCAACAAC
27171382 ATTTAGACTGATGACATG
1 ATTTAGACTGATGACATG
27171400 ATTTAGACTGATGACATG
1 ATTTAGACTGATGACATG
27171418 TGAGGTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (18 bp):
ATTTAGACTGATGACATG
Found at i:27173149 original size:17 final size:18
Alignment explanation
Indices: 27173110--27173153 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
27173100 TTGGTTTAAT
* *
27173110 ATTGTATTTTTTTATACA
1 ATTGTATCTTTTGATACA
*
27173128 GTTGTATCTTTTGA-ACA
1 ATTGTATCTTTTGATACA
27173145 ATTGTATCT
1 ATTGTATCT
27173154 ATTGGTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.25, C:0.09, G:0.11, T:0.55
Consensus pattern (18 bp):
ATTGTATCTTTTGATACA
Found at i:27178614 original size:25 final size:26
Alignment explanation
Indices: 27178565--27178614 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
27178555 CCAAAATTCT
**
27178565 AAGGAAAATATTTTTTTTGAACAATCC
1 AAGGAAAATATTTTAATTG-ACAATCC
27178592 AAGGAAAATATTTTAATTG-CAAT
1 AAGGAAAATATTTTAATTGACAAT
27178615 AAGATGGGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
27 17 0.81
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (26 bp):
AAGGAAAATATTTTAATTGACAATCC
Found at i:27189055 original size:21 final size:21
Alignment explanation
Indices: 27189029--27189070 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27189019 TGCTTGAGTA
*
27189029 TTTAAATGTTTAATGATAGAT
1 TTTAAAGGTTTAATGATAGAT
27189050 TTTAAAGGTTTAATGATAGAT
1 TTTAAAGGTTTAATGATAGAT
27189071 ATACAAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (21 bp):
TTTAAAGGTTTAATGATAGAT
Found at i:27189585 original size:34 final size:34
Alignment explanation
Indices: 27189542--27189613 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
27189532 AATGAATGCC
27189542 TTGATGATATGTTGTATTCGTTACCGAGCCTCGT
1 TTGATGATATGTTGTATTCGTTACCGAGCCTCGT
27189576 TTGATGATATGTTGTATTCGTTACCGAGCCTCGT
1 TTGATGATATGTTGTATTCGTTACCGAGCCTCGT
27189610 TTGA
1 TTGA
27189614 ACTATGTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.18, C:0.17, G:0.24, T:0.42
Consensus pattern (34 bp):
TTGATGATATGTTGTATTCGTTACCGAGCCTCGT
Found at i:27189734 original size:23 final size:22
Alignment explanation
Indices: 27189698--27189786 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 22
27189688 AGACTCACCA
*
27189698 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCAT-AGAGCTTACTGTTT
* * *
27189721 CAGCTCATTGGAGCTTACCGATT
1 CAGCTCA-TAGAGCTTACTGTTT
* *
27189744 CAGCTTGATAGAGCTTACTATTTT
1 CAGC-TCATAGAGCTTACT-GTTT
27189768 CAGCTCAATAGAGCTTACT
1 CAGCTC-ATAGAGCTTACT
27189787 ATTTATCAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
23 31 0.60
24 21 0.40
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (22 bp):
CAGCTCATAGAGCTTACTGTTT
Found at i:27189778 original size:24 final size:24
Alignment explanation
Indices: 27189707--27189799 Score: 93
Period size: 24 Copynumber: 3.9 Consensus size: 24
27189697 ACAGCTCGTA
* *
27189707 AGAGCTTACT-GTTTCAGCTCATT
1 AGAGCTTACTATTTTCAGCTCAAT
* * **
27189730 GGAGCTTACCGA--TTCAGCTTGAT
1 AGAGCTTA-CTATTTTCAGCTCAAT
27189753 AGAGCTTACTATTTTCAGCTCAAT
1 AGAGCTTACTATTTTCAGCTCAAT
27189777 AGAGCTTACTATTTATCAGCTCA
1 AGAGCTTACTATTT-TCAGCTCA
27189800 GGAGGAGCTT
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
22 2 0.04
23 22 0.39
24 24 0.43
25 8 0.14
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (24 bp):
AGAGCTTACTATTTTCAGCTCAAT
Found at i:27190272 original size:13 final size:13
Alignment explanation
Indices: 27190256--27190295 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
27190246 TCTGTGCTTA
27190256 TTGTATGTGGAAT
1 TTGTATGTGGAAT
27190269 TTGTATGTGGAAT
1 TTGTATGTGGAAT
27190282 TTGTATGTGTGAAT
1 TTGTATGTG-GAAT
27190296 ATTTCGTGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (13 bp):
TTGTATGTGGAAT
Found at i:27191699 original size:37 final size:37
Alignment explanation
Indices: 27191640--27191748 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
27191630 AGCTCAGACG
* *
27191640 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
27191677 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
27191714 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
27191749 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:27191949 original size:48 final size:48
Alignment explanation
Indices: 27191895--27192029 Score: 207
Period size: 48 Copynumber: 2.8 Consensus size: 48
27191885 GCACATCGCC
*
27191895 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
1 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATACATACCTCA
* *
27191943 TACATATTTCGCACTAGCCATGCGGCTTTACCACATATACATATCTCA
1 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATACATACCTCA
* * * *
27191991 TACATATTTCGCATTGGCCATTCGGCCTTATCACATATA
1 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATA
27192030 TGCATGTTCA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (48 bp):
TACATATTTCGCACTAGCCATTCGGCTTTACCACATATACATACCTCA
Found at i:27192059 original size:47 final size:47
Alignment explanation
Indices: 27192002--27192286 Score: 471
Period size: 47 Copynumber: 6.1 Consensus size: 47
27191992 ACATATTTCG
* * *
27192002 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
*
27192049 TATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
* * * *
27192096 CATTGGCCATTCGGCCTTATCACATATATGTATGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
*
27192143 TATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
27192190 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
* *
27192237 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
27192284 CAT
1 CAT
27192287 AAAATCCTAA
Statistics
Matches: 221, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 221 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
Found at i:27192190 original size:25 final size:25
Alignment explanation
Indices: 27192161--27192238 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
27192151 ATTCGGCCTT
27192161 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
27192186 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
27192208 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
27192233 ATCACA
1 ATCACA
27192239 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:27192213 original size:22 final size:22
Alignment explanation
Indices: 27192186--27192261 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
27192176 GCTCACATTC
27192186 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
27192208 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
27192232 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
27192255 ATCACAT
1 ATCACAT
27192262 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:27194159 original size:29 final size:28
Alignment explanation
Indices: 27194123--27194200 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
27194113 TCATGAGATT
27194123 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
27194153 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
27194180 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
27194201 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:27194460 original size:172 final size:174
Alignment explanation
Indices: 27194153--27194478 Score: 575
Period size: 172 Copynumber: 1.9 Consensus size: 174
27194143 AAATTGTACA
*
27194153 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAGCACTATG
* *
27194218 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
27194283 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
27194327 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAA-CATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAGCACTATG
27194391 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
27194455 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
27194479 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
172 81 0.56
173 11 0.08
174 53 0.37
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:27218530 original size:40 final size:40
Alignment explanation
Indices: 27218465--27219050 Score: 947
Period size: 40 Copynumber: 14.6 Consensus size: 40
27218455 CCAGCATGAT
* * * * *
27218465 TGCTCTTTCGGGACCTAGCCTGGATATAACACCAGCACGAA
1 TGCTC-TTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
27218506 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27218546 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
27218586 TGCTCTTCGGGACTTAACCTGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
27218626 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27218666 TGCTCTTCGGGACTTAGCCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
27218706 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
27218746 TGCTCTTCGAGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27218786 TGCTCTTCGGGACTTAGCCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27218826 TGCTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
27218866 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
27218906 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
27218946 TGCTCTTCGGGACTTAGCCCGGTTACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27218986 TGCTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
27219026 TGCTCTTTGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATA
27219051 TATATATAAC
Statistics
Matches: 505, Mismatches: 40, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
40 500 0.99
41 5 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:27220389 original size:37 final size:37
Alignment explanation
Indices: 27220330--27220438 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
27220320 AGCTCAGACG
* * *
27220330 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
27220367 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
27220404 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
27220439 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:27220638 original size:48 final size:48
Alignment explanation
Indices: 27220584--27220719 Score: 200
Period size: 48 Copynumber: 2.8 Consensus size: 48
27220574 GCACATCGCC
*
27220584 TACATATTTCACACTAGCCATTCGGCTTTACCACATATATATACCTCA
1 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATATATACCTCA
* *
27220632 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATATATACCTCA
* * * * *
27220680 TACATATTTCGCATTGGCCATTCAGCCTTATCACATATAT
1 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATAT
27220720 GCATGTTCAT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (48 bp):
TACATATTTCGCACTAGCCATTCGGCTTTACCACATATATATACCTCA
Found at i:27220755 original size:47 final size:47
Alignment explanation
Indices: 27220691--27220975 Score: 453
Period size: 47 Copynumber: 6.1 Consensus size: 47
27220681 ACATATTTCG
* * * *
27220691 CATTGGCCATTCAGCCTTATCACATATATGCATGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
*
27220738 TATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
* * * *
27220785 CATTGGCCATTCGGCCTTATCACATATATGAATGTTCATATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
*
27220832 TATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
27220879 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
* * *
27220926 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATTA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
27220973 CAT
1 CAT
27220976 AAAATCCTAA
Statistics
Matches: 219, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 219 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
Found at i:27220879 original size:25 final size:25
Alignment explanation
Indices: 27220850--27220927 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
27220840 ATTCGGCCTT
27220850 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
27220875 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
27220897 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
27220922 ATCACA
1 ATCACA
27220928 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:27220902 original size:22 final size:22
Alignment explanation
Indices: 27220875--27220950 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
27220865 GCTCACATTC
27220875 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
27220897 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
27220921 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
27220944 ATCACAT
1 ATCACAT
27220951 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:27223942 original size:69 final size:70
Alignment explanation
Indices: 27223827--27223960 Score: 225
Period size: 69 Copynumber: 1.9 Consensus size: 70
27223817 TAGTTTATTA
* * * *
27223827 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
27223892 CTTAG
66 CTTAG
27223897 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
27223961 TTATGTGCTA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 37 0.62
70 23 0.38
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:27225087 original size:45 final size:45
Alignment explanation
Indices: 27225019--27225192 Score: 225
Period size: 45 Copynumber: 4.0 Consensus size: 45
27225009 TTGTTGATTT
*
27225019 GATTATTCGGGCCTTTGAACCTAGCAGGCTATAATGCCGGTGAGA
1 GATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
27225064 GATTATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCGGTGAGA
1 GATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
27225109 TACTA-TCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A
1 GATTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
27225152 -ATGATATCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 GATTAT-TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
27225193 ATGAATTCGG
Statistics
Matches: 116, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
42 13 0.11
43 19 0.16
44 37 0.32
45 47 0.41
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (45 bp):
GATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:27228258 original size:29 final size:29
Alignment explanation
Indices: 27228211--27228267 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
27228201 ATCCCAGAAG
27228211 TTAGTCTTTTCAAAAGGGGGAACATTTGT
1 TTAGTCTTTTCAAAAGGGGGAACATTTGT
27228240 TTAGT-TTTTCAAAAGGGGGAACATTTGT
1 TTAGTCTTTTCAAAAGGGGGAACATTTGT
27228268 GGGATGGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.39
Consensus pattern (29 bp):
TTAGTCTTTTCAAAAGGGGGAACATTTGT
Found at i:27234747 original size:40 final size:40
Alignment explanation
Indices: 27234654--27234878 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
27234644 GCTCCTCGTT
* * * *
27234654 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
27234694 C-AATGCCTTCGGGACTTAACCTGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
27234733 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
27234773 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
27234813 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
27234854 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
27234879 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 104 0.66
41 15 0.10
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:27234887 original size:41 final size:41
Alignment explanation
Indices: 27234810--27234887 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27234800 TTTGTATCTC
* * *
27234810 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
27234851 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
27234888 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:27239318 original size:16 final size:17
Alignment explanation
Indices: 27239279--27239319 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
27239269 AAACTTCAGG
*
27239279 TTAATAAT-ATGTTATA
1 TTAATAATAATGTAATA
*
27239295 TTATTAATAATGTAAT-
1 TTAATAATAATGTAATA
27239311 TTAATAATA
1 TTAATAATA
27239320 TAAAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
TTAATAATAATGTAATA
Found at i:27239999 original size:19 final size:18
Alignment explanation
Indices: 27239975--27240022 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
27239965 ATTTTTGTTA
*
27239975 AAAATTTGAATATATATTT
1 AAAATTTGAA-ACATATTT
*
27239994 AAAA-TTGCAACCATATTT
1 AAAATTTG-AAACATATTT
27240012 AAAATTTGAAA
1 AAAATTTGAAA
27240023 AATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AAAATTTGAAACATATTT
Found at i:27245058 original size:40 final size:40
Alignment explanation
Indices: 27245014--27245089 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
27245004 TTGTGCCTCA
* *
27245014 TATAGTCGAAGCTATTCT-AATTCGCACACTAAGTGCTATT
1 TATAGCCGAAGCTATTCTGAAAT-GCACACTAAGTGCTATT
*
27245054 TATAGCCGAAGCTATTTTGAAATGCACACTAAGTGC
1 TATAGCCGAAGCTATTCTGAAATGCACACTAAGTGC
27245090 CAAACGTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (40 bp):
TATAGCCGAAGCTATTCTGAAATGCACACTAAGTGCTATT
Found at i:27245676 original size:20 final size:20
Alignment explanation
Indices: 27245641--27245682 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
27245631 ACTCATGAAT
27245641 TCATTAATGGAATTTCACAAAA
1 TCATTAAT-GAATTTCA-AAAA
27245663 TCATTAAT-AATTTCAAAAA
1 TCATTAATGAATTTCAAAAA
27245682 T
1 T
27245683 TAAGGTACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
22 8 0.40
ACGTcount: A:0.48, C:0.12, G:0.05, T:0.36
Consensus pattern (20 bp):
TCATTAATGAATTTCAAAAA
Found at i:27266263 original size:24 final size:25
Alignment explanation
Indices: 27266231--27266282 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
27266221 AGTTTATAAA
*
27266231 TTAGTTTTTTG-AAGTCTTT-TTTAT
1 TTAGGTTTTTGTAA-TCTTTATTTAT
*
27266255 TTAGGTTTTTGTTATCTTTATTTAT
1 TTAGGTTTTTGTAATCTTTATTTAT
27266280 TTA
1 TTA
27266283 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.17, C:0.04, G:0.12, T:0.67
Consensus pattern (25 bp):
TTAGGTTTTTGTAATCTTTATTTAT
Found at i:27266738 original size:10 final size:10
Alignment explanation
Indices: 27266719--27266752 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
27266709 ATGTGATACC
*
27266719 AAATGGATAG
1 AAATGAATAG
27266729 AAATGAATAG
1 AAATGAATAG
*
27266739 AAATAAATAG
1 AAATGAATAG
27266749 AAAT
1 AAAT
27266753 AATGAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.21
Consensus pattern (10 bp):
AAATGAATAG
Found at i:27266753 original size:10 final size:10
Alignment explanation
Indices: 27266725--27266754 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
27266715 TACCAAATGG
*
27266725 ATAGAAATGA
1 ATAGAAATAA
27266735 ATAGAAATAA
1 ATAGAAATAA
27266745 ATAGAAATAA
1 ATAGAAATAA
27266755 TGAAGTAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (10 bp):
ATAGAAATAA
Found at i:27268592 original size:21 final size:21
Alignment explanation
Indices: 27268548--27268589 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
27268538 TTAAGATTAA
* *
27268548 TAATTTAATATTCATTAATTT
1 TAATTTAATATTAATAAATTT
27268569 TAATTTAAT-TTAATAAATTT
1 TAATTTAATATTAATAAATTT
27268589 T
1 T
27268590 TAAAATAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTTAATATTAATAAATTT
Found at i:27269349 original size:9 final size:8
Alignment explanation
Indices: 27269314--27269371 Score: 64
Period size: 9 Copynumber: 7.0 Consensus size: 8
27269304 TAAAAACTAT
27269314 TTTTAAAA
1 TTTTAAAA
27269322 TTTTAAAA
1 TTTTAAAA
*
27269330 TCATTAAAA
1 T-TTTAAAA
27269339 TTATTAAAA
1 TT-TTAAAA
27269348 TTTATAAAA
1 TTT-TAAAA
*
27269357 TTAT-AAA
1 TTTTAAAA
27269364 TTTTAAAA
1 TTTTAAAA
27269372 AATAATTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
7 6 0.14
8 14 0.33
9 22 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (8 bp):
TTTTAAAA
Found at i:27269368 original size:17 final size:18
Alignment explanation
Indices: 27269312--27269381 Score: 65
Period size: 17 Copynumber: 4.0 Consensus size: 18
27269302 TATAAAAACT
*
27269312 ATTTTTAAAATT-TTAAA
1 ATTTATAAAATTATTAAA
*
27269329 A-TCATTAAAATTATTAAA
1 ATTTA-TAAAATTATTAAA
27269347 ATTTATAAAATTA-TAAA
1 ATTTATAAAATTATTAAA
* * *
27269364 TTTTAAAAAATAATTAAA
1 ATTTATAAAATTATTAAA
27269382 TATTAATATC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
16 1 0.02
17 22 0.51
18 18 0.42
19 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTATAAAATTATTAAA
Found at i:27269506 original size:16 final size:18
Alignment explanation
Indices: 27269469--27269511 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
27269459 ATTTGACAAA
*
27269469 AAATATAAATTAAAAGATT
1 AAATA-AAATGAAAAGATT
27269488 AAA-AAAATGAAAA-ATT
1 AAATAAAATGAAAAGATT
27269504 AAATAAAA
1 AAATAAAA
27269512 AATTATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 12 0.55
18 1 0.05
19 3 0.14
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAAATGAAAAGATT
Found at i:27279879 original size:43 final size:42
Alignment explanation
Indices: 27279760--27279917 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 42
27279750 AAGCTCGTAA
* ***
27279760 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATA-CG
* * **
27279803 ATGCC-ACTATCCCAAACAAGGTCTTACACAAAATCAAATACG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACAAAATCAAATACG
*
27279845 ATGCCAACGTCCCAGACGTGGTCCTACACAAAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAATCA-AA-TACG
* * *
27279889 ATGCCAACGTACCAGATGTGATCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
27279918 GACTACACAT
Statistics
Matches: 93, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 24 0.26
43 39 0.42
44 29 0.31
45 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATACG
Found at i:27279917 original size:44 final size:42
Alignment explanation
Indices: 27279824--27279917 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 42
27279814 CCAAACAAGG
* *
27279824 TCTTACACAAAATCAAATACGATGCCAACGTCCCAGACGTGG
1 TCTTACACAAAATCAAATACGATGCCAACGTACCAGACGTGA
* *
27279866 TCCTACACAAAAATCATAAGT-CGATGCCAACGTACCAGATGTGA
1 TCTTACAC-AAAATCA-AA-TACGATGCCAACGTACCAGACGTGA
27279910 TCTTACAC
1 TCTTACAC
27279918 GACTACACAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
42 7 0.16
43 7 0.16
44 29 0.66
45 1 0.02
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (42 bp):
TCTTACACAAAATCAAATACGATGCCAACGTACCAGACGTGA
Found at i:27282146 original size:12 final size:12
Alignment explanation
Indices: 27282129--27282154 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27282119 CCTAGCCCTA
27282129 TTTTTTATGTTT
1 TTTTTTATGTTT
27282141 TTTTTTATGTTT
1 TTTTTTATGTTT
27282153 TT
1 TT
27282155 GAGATCCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTTTATGTTT
Found at i:27283026 original size:48 final size:47
Alignment explanation
Indices: 27282857--27283041 Score: 137
Period size: 48 Copynumber: 3.9 Consensus size: 47
27282847 TAGGGACATG
*
27282857 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC-ATA
* * * * *
27282905 TGAGA-CTTCGTGTAAGACCATAGCTGGG-CTATCGGC-TTTG-AT-ATA
1 TGTGATC-CCATGTAAGACCATATCTGGGAC-AT-GGCATTGGCATCATA
*** * ** * *
27282950 CACGATCCTATGTAAGATTATGTTTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC-ATA
* * *
27282998 TGTGATCCCATTTAAGACCATATCTGGGATATAGCATTGGCATC
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC
27283042 TTACTATGTG
Statistics
Matches: 99, Mismatches: 29, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
44 3 0.03
45 23 0.23
46 4 0.04
47 4 0.04
48 62 0.63
49 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (47 bp):
TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCATA
Found at i:27284620 original size:23 final size:23
Alignment explanation
Indices: 27284590--27284635 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
27284580 AGGGGTGTTA
27284590 CATGTTAAAGATTTTAGATTTTT
1 CATGTTAAAGATTTTAGATTTTT
*
27284613 CATGTTAAAGATTTTATATTTTT
1 CATGTTAAAGATTTTAGATTTTT
27284636 TTCATTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (23 bp):
CATGTTAAAGATTTTAGATTTTT
Found at i:27285871 original size:21 final size:21
Alignment explanation
Indices: 27285840--27285913 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
27285830 TGTGTCTAAT
27285840 TTTGAAATATTGATGTATACCA
1 TTTG-AATATTGATGTATACCA
* **
27285862 TTTGAATATTGTAT-CA-AGAA
1 TTTGAATATTG-ATGTATACCA
*
27285882 TGAT-AATATTGATGTATACCA
1 T-TTGAATATTGATGTATACCA
27285903 TTTGAATATTG
1 TTTGAATATTG
27285914 TATCAAGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
19 2 0.05
20 12 0.31
21 19 0.49
22 6 0.15
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (21 bp):
TTTGAATATTGATGTATACCA
Found at i:27285902 original size:41 final size:41
Alignment explanation
Indices: 27285845--27285926 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
27285835 CTAATTTTGA
27285845 AATATTGATGTATACCATTTGAATATTGTATCAAGAATGAT
1 AATATTGATGTATACCATTTGAATATTGTATCAAGAATGAT
27285886 AATATTGATGTATACCATTTGAATATTGTATCAAGAATGAT
1 AATATTGATGTATACCATTTGAATATTGTATCAAGAATGAT
27285927 TTTTTAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (41 bp):
AATATTGATGTATACCATTTGAATATTGTATCAAGAATGAT
Found at i:27286225 original size:13 final size:13
Alignment explanation
Indices: 27286199--27286242 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
27286189 ATTATGTGTT
27286199 AAATGTGTAAATG
1 AAATGTGTAAATG
27286212 AAATG-GTAAGATG
1 AAATGTGTAA-ATG
*
27286225 AAATGTTTAAATG
1 AAATGTGTAAATG
27286238 AAATG
1 AAATG
27286243 GCTATACGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 4 0.14
13 21 0.75
14 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.30
Consensus pattern (13 bp):
AAATGTGTAAATG
Found at i:27286312 original size:13 final size:13
Alignment explanation
Indices: 27286209--27286303 Score: 52
Period size: 13 Copynumber: 7.4 Consensus size: 13
27286199 AAATGTGTAA
* *
27286209 ATGAAATGGTAAG
1 ATGAAATGGTTAT
* *
27286222 ATGAAATGTTTAA
1 ATGAAATGGTTAT
*
27286235 ATGAAATGGCTAT
1 ATGAAATGGTTAT
* *
27286248 ACGAACATGCTTAT
1 ATGAA-ATGGTTAT
***
27286262 ATGAAA-AAATAT
1 ATGAAATGGTTAT
*
27286274 AT-ATAT-GTATAT
1 ATGAAATGGT-TAT
27286286 ATGAAATGGTTAT
1 ATGAAATGGTTAT
27286299 ATGAA
1 ATGAA
27286304 GTGTTTATAC
Statistics
Matches: 60, Mismatches: 17, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
11 2 0.03
12 10 0.17
13 36 0.60
14 12 0.20
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:27289900 original size:50 final size:48
Alignment explanation
Indices: 27289641--27289999 Score: 162
Period size: 48 Copynumber: 7.6 Consensus size: 48
27289631 ATTTGTGTGC
* * * * *
27289641 CAGTGTAGGA-CATGTC-GAGGACAT-GCATCGGCCACAT-TATAAGAGC
1 CAGTGTAAGACCATGTCTG-GGACATGGCATCGG-CACGTATAGAAGTGG
* * * * * * *
27289687 CAGTGTAGGACAATGTCTGGGACATGGCGTCGGTA-TTA-AGACGAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAAGTG-G
* * * *
27289734 CTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCTGCG---AGATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTATAGAAGTGG
* *
27289779 CGGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAAGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAAGTGG
* * *
27289827 CAGTATAAGACCATGTCTAGGACATGGCCTCGGCACG-A-A-AATGTGAAAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAA-GTG---G
* * * *
27289876 CTAGTGTAAGACCATGTCTGGGACATGGCGTTGGC-CTTGATTTTGATAGT--
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--G-TATAGA-AGTGG
* * * * * * *
27289926 CAGTGTAAGACCACGTTTGGGACATGGCATC-G-ACTTCATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-ATAGAAGTGG
27289973 CAGTGTAAGACCATGTCTGGGACATGG
1 CAGTGTAAGACCATGTCTGGGACATGG
27290000 TGTCGGTATT
Statistics
Matches: 241, Mismatches: 43, Indels: 57
0.71 0.13 0.17
Matches are distributed among these distances:
44 8 0.03
45 20 0.08
46 42 0.17
47 51 0.21
48 57 0.24
49 28 0.12
50 30 0.12
51 1 0.00
55 3 0.01
56 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAAGTGG
Found at i:27291176 original size:21 final size:21
Alignment explanation
Indices: 27291152--27291212 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
27291142 GTTACAATGA
27291152 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
27291173 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
27291194 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
27291213 GTTTCAAGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
20 6 0.15
21 34 0.85
ACGTcount: A:0.10, C:0.39, G:0.30, T:0.21
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:27294338 original size:16 final size:16
Alignment explanation
Indices: 27294317--27294350 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
27294307 TAGAGTTTTC
27294317 TTTATGTTTTGTTATT
1 TTTATGTTTTGTTATT
27294333 TTTATGTTTTGTTATT
1 TTTATGTTTTGTTATT
27294349 TT
1 TT
27294351 CATACTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (16 bp):
TTTATGTTTTGTTATT
Found at i:27298656 original size:12 final size:11
Alignment explanation
Indices: 27298622--27298647 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27298612 CTGAATTAAT
27298622 CCTCACTTTTC
1 CCTCACTTTTC
27298633 CCTCACTTTTC
1 CCTCACTTTTC
27298644 CCTC
1 CCTC
27298648 TATTTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.50, G:0.00, T:0.42
Consensus pattern (11 bp):
CCTCACTTTTC
Found at i:27300319 original size:5 final size:6
Alignment explanation
Indices: 27300304--27300342 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
27300294 TCTTATTATC
* *
27300304 TTTTTA TTTTTA TTTTTC TTTTTC TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
27300343 CCATTTCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:27309038 original size:58 final size:60
Alignment explanation
Indices: 27308957--27309157 Score: 156
Period size: 69 Copynumber: 3.2 Consensus size: 60
27308947 ATCACTTTAA
* **
27308957 TATTAAATTAATATAATACTTA-T-CAAGATAAATATTAGGTTGAATTTAATATTAAATC
1 TATTAAATTAATAAAATACTTACTACAAGATAAATATTAAATTGAATTTAATATTAAATC
** * *
27309015 TATTAAATTAATAAAATTTTTATCTACAAGATAAATATTAAATTTAATTTAATATTAAGATAA
1 TATTAAATTAATAAAATACTTA-CTACAAGATAAATATTAAATTGAATTTAATATTAA-AT-C
** * ** *
27309078 TCACTTTAATATTAAATTAACAA-AAATACTATTAAGATAGGTATTAAATTAAATTTAATATTAA
1 T-A--TTAA-ATT-AA-TAA-AATACTTACTA-CAAGATAAATATTAAATTGAATTTAATATTAA
27309142 ATC
58 ATC
*
27309145 TATTAAAATAATA
1 TATTAAATTAATA
27309158 TTATTTTTGG
Statistics
Matches: 114, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
58 19 0.17
60 1 0.01
61 31 0.27
62 4 0.04
63 3 0.03
64 5 0.04
66 5 0.04
67 4 0.04
68 7 0.06
69 33 0.29
70 2 0.02
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (60 bp):
TATTAAATTAATAAAATACTTACTACAAGATAAATATTAAATTGAATTTAATATTAAATC
Found at i:27324532 original size:21 final size:22
Alignment explanation
Indices: 27324508--27324563 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
27324498 AGCTAGAGAA
* *
27324508 TGAAATGAAATTAGATTG-AAT
1 TGAAATGAAATAAGAATGAAAT
27324529 TGAAATGAAATAAGAATGACAAT
1 TGAAATGAAATAAGAATGA-AAT
*
27324552 TGATATGAAATA
1 TGAAATGAAATA
27324564 GTACAGAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 16 0.53
23 14 0.47
ACGTcount: A:0.52, C:0.02, G:0.18, T:0.29
Consensus pattern (22 bp):
TGAAATGAAATAAGAATGAAAT
Found at i:27327869 original size:14 final size:14
Alignment explanation
Indices: 27327843--27327876 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
27327833 TGACAGAATC
27327843 AAGAAAGGAAGAGG
1 AAGAAAGGAAGAGG
27327857 AAAGAAA-GAAGAGG
1 -AAGAAAGGAAGAGG
27327871 AAGAAA
1 AAGAAA
27327877 AACATCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 7 0.37
15 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (14 bp):
AAGAAAGGAAGAGG
Found at i:27331331 original size:27 final size:27
Alignment explanation
Indices: 27331291--27331377 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
27331281 AGGAAGTGTC
*
27331291 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
27331318 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
27331345 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
27331372 CTGGTG
1 CTGGTG
27331378 ACTTCGTCAC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.15
27 44 0.83
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:27331388 original size:27 final size:26
Alignment explanation
Indices: 27331304--27331395 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 26
27331294 GTGGCTATGC
*
27331304 CACAATTATCTG-ATCTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTC-GT
27331331 CACATATATCTGT-TCTGGTGGCTC-T
1 CACA-ATATCTGTATCTGGTGGCTCGT
*
27331356 ACCACAATATCTGTATCTGGTGACTTCGT
1 --CACAATATCTGTATCTGGTGGC-TCGT
27331385 CACAATATCTG
1 CACAATATCTG
27331396 GCAGCCTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
26 8 0.14
27 44 0.79
28 3 0.05
29 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (26 bp):
CACAATATCTGTATCTGGTGGCTCGT
Found at i:27333026 original size:9 final size:9
Alignment explanation
Indices: 27332999--27333044 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
27332989 ACCTATAAAC
*
27332999 AAACATATT
1 AAACACATT
*
27333008 AAAACTCATT
1 -AAACACATT
27333018 AAACACATT
1 AAACACATT
27333027 AAACACATTT
1 AAACACA-TT
27333037 AAACACAT
1 AAACACAT
27333045 ATTATACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (9 bp):
AAACACATT
Found at i:27333159 original size:54 final size:54
Alignment explanation
Indices: 27333097--27333225 Score: 186
Period size: 54 Copynumber: 2.4 Consensus size: 54
27333087 CAACAATAAA
* * ** * ** *
27333097 TTATTCCAGTAACTAAATTAGGTAAGATGAACTTAATTAACTAAGGTGAGTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGACGAGGAAT
27333151 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGACGAGGAAT
1 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGACGAGGAAT
27333205 TTATTCCAGCAACTTAATTAA
1 TTATTCCAGCAACTTAATTAA
27333226 TTAAACTAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (54 bp):
TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGACGAGGAAT
Found at i:27334105 original size:16 final size:16
Alignment explanation
Indices: 27334084--27334115 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27334074 TTTCCAGAAT
27334084 CAATAACACAATTCAC
1 CAATAACACAATTCAC
27334100 CAATAACACAATTCAC
1 CAATAACACAATTCAC
27334116 AAGCTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
CAATAACACAATTCAC
Found at i:27342533 original size:23 final size:26
Alignment explanation
Indices: 27342482--27342539 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 26
27342472 TATTATAAAA
27342482 ATATTAT-TTAATTAAAACATTATAG
1 ATATTATATTAATTAAAACATTATAG
27342507 --ATTATATTAATT-AAA-ATTA-AG
1 ATATTATATTAATTAAAACATTATAG
27342528 ATATTATATTAA
1 ATATTATATTAA
27342540 AGGAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 2 0.07
22 4 0.13
23 18 0.60
24 6 0.20
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (26 bp):
ATATTATATTAATTAAAACATTATAG
Found at i:27342701 original size:18 final size:19
Alignment explanation
Indices: 27342667--27342702 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27342657 TATTATTTAT
27342667 TATAATTATTAAATTAAAA
1 TATAATTATTAAATTAAAA
*
27342686 TATATTTATT-AATTAAA
1 TATAATTATTAAATTAAA
27342703 TAACTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAATTATTAAATTAAAA
Found at i:27342859 original size:24 final size:24
Alignment explanation
Indices: 27342819--27342870 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
27342809 TTTATACTTG
27342819 TTATTAAATAGATATTTATTATT-A
1 TTATTAAATAGATATTTA-TATTAA
*
27342843 TTATTAAAT-TATAATTTATATTAA
1 TTATTAAATAGAT-ATTTATATTAA
27342867 TTAT
1 TTAT
27342871 ATTATGAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTATTAAATAGATATTTATATTAA
Found at i:27343913 original size:6 final size:6
Alignment explanation
Indices: 27343898--27343928 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
27343888 ATTGAGTTGT
27343898 AATT-A AATTGA AATTGA AATTGA AATTGA AA
1 AATTGA AATTGA AATTGA AATTGA AATTGA AA
27343929 AGTAATATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (6 bp):
AATTGA
Found at i:27349896 original size:15 final size:15
Alignment explanation
Indices: 27349876--27349929 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
27349866 ATACTACAAA
27349876 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
27349891 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
27349908 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
27349925 ATATT
1 ATATT
27349930 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:27351326 original size:3 final size:3
Alignment explanation
Indices: 27351318--27351345 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27351308 TAATATCAGA
27351318 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
27351346 TTCATACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:27355424 original size:3 final size:3
Alignment explanation
Indices: 27355416--27355446 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
27355406 ACTAGTAGAA
27355416 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
27355447 AATTAAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:27355715 original size:2 final size:2
Alignment explanation
Indices: 27355708--27355756 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
27355698 GAAAGACACC
27355708 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27355750 CT CT CT C
1 CT CT CT C
27355757 ATGGGCATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:27356491 original size:2 final size:2
Alignment explanation
Indices: 27356484--27356553 Score: 81
Period size: 2 Copynumber: 36.0 Consensus size: 2
27356474 CAGCTTTAAT
* *
27356484 TC TC TC TC TC TC TC TC TC TC TC TC TC GC TC TT TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
27356526 TC TC TT TC TT TC -C T- TT TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27356554 ATATCAAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
1 2 0.04
2 55 0.96
ACGTcount: A:0.00, C:0.44, G:0.01, T:0.54
Consensus pattern (2 bp):
TC
Found at i:27361512 original size:22 final size:22
Alignment explanation
Indices: 27361481--27361525 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
27361471 TGAGCAGCAG
27361481 TAAGTCTAAGCTTCAATAACTT
1 TAAGTCTAAGCTTCAATAACTT
*
27361503 TAAGTTTAAGCTTCAATAACTT
1 TAAGTCTAAGCTTCAATAACTT
27361525 T
1 T
27361526 CTCCAGTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (22 bp):
TAAGTCTAAGCTTCAATAACTT
Found at i:27363719 original size:920 final size:920
Alignment explanation
Indices: 27361939--27363770 Score: 3457
Period size: 920 Copynumber: 2.0 Consensus size: 920
27361929 GAGGGCTATG
*
27361939 AACTGATTGGTTTTCTCGATGGCACTTTGGCTAGTCCACTGCGGTTTGTGCAATCTCTAGACGGC
1 AACTGATCGGTTTTCTCGATGGCACTTTGGCTAGTCCACTGCGGTTTGTGCAATCTCTAGACGGC
*
27362004 TCGCTCATTCCGAATCCTGATGCTTCAACCTTTGTGCAACAAGATCGGTTATTAACCTCATGGCT
66 TCGCTCATTCCGAATCCTAATGCTTCAACCTTTGTGCAACAAGATCGGTTATTAACCTCATGGCT
27362069 TCTTTCCACAATTAATCATTCTATTTTGTCTTCTTTTACAGAGGCTCGATCTGCTTGTGATGTAT
131 TCTTTCCACAATTAATCATTCTATTTTGTCTTCTTTTACAGAGGCTCGATCTGCTTGTGATGTAT
27362134 GGACTACCGCAACCCGTCTTTTTGCCCCTTTCACTAGGGCGAAGCTTGCTCGTCTTCGACACGAT
196 GGACTACCGCAACCCGTCTTTTTGCCCCTTTCACTAGGGCGAAGCTTGCTCGTCTTCGACACGAT
*
27362199 TTGCTTTCTCTCAAGAAAGGCAGTCTTTCAATCAAAGAATTTGTGGCCAAAATCCAGAATATGAG
261 TTACTTTCTCTCAAGAAAGGCAGTCTTTCAATCAAAGAATTTGTGGCCAAAATCCAGAATATGAG
27362264 TGCTTTGATAACTGTCTCTGGTTCGTGCATCTCTGAAGAAGAGAAGGTCCAAACTCTACTTGTGG
326 TGCTTTGATAACTGTCTCTGGTTCGTGCATCTCTGAAGAAGAGAAGGTCCAAACTCTACTTGTGG
27362329 GCTTACCCTCTGATTTTGATTCTGTCATTACGCTCGCCTCGTTCTCATCGGAACCTTTGCGATTT
391 GCTTACCCTCTGATTTTGATTCTGTCATTACGCTCGCCTCGTTCTCATCGGAACCTTTGCGATTT
*
27362394 CAACAACTTGTTGAAGTGCTTCTTGAGTTCGAGAATCGTCAGGCGCGTGTGGCTTCAGAGATACC
456 CAACAACTTGTTGAAGAGCTTCTTGAGTTCGAGAATCGTCAGGCGCGTGTGGCTTCAGAGATACC
*
27362459 TCTTCATGCTAATCTCTTGGAGACTGTTCCTTTACCGATCATAGGGGGTTATGTTCGTGGTGTTC
521 TCTTCATGCTAATCTCTTGGAGACTGTTCCTTTACCGATCATAGGGGGTTATGTTCGTGGTATTC
* *
27362524 GTCCCCCATCTAGAGGTCGTGGGCGTGGGTTCTGATCCCGAGTTCAATGCCAAATCTGTGAATGG
586 GTCCCCCATCTAGAGGTCGTGGACGTGGGTTCTGATCCCGAGTTCAATGCCAAATCTGCGAATGG
*
27362589 TTTGGGCATCTTACTCAATGGTGTTTCTACCGTTACGACCGTGACCATGAGGGATCGTCGTCTGA
651 TTTGGGCATCTTACTCAATGGTGTTTCTACCGTTACGACCGTGACCATGAGGGATCGTCGTCGGA
27362654 TGCTTGAGCATCGTCTTCGGTAGGTCGTCGATGGACATCCATCTGACTCTGTTGTCAAATCTGTT
716 TGCTTGAGCATCGTCTTCGGTAGGTCGTCGATGGACATCCATCTGACTCTGTTGTCAAATCTGTT
27362719 TTGAATAAATGTAGTATTTCTTCAAATAAATTTTGTATGGACACTGCATGCTCTGCATGTCAAAA
781 TTGAATAAATGTAGTATTTCTTCAAATAAATTTTGTATGGACACTGCATGCTCTGCATGTCAAAA
*
27362784 AAGGAAATCACATAAATTACCCTTTACCGATTCGACCACTAAATACACTAATCCGTTTACTTTGG
846 AAAGAAATCACATAAATTACCCTTTACCGATTCGACCACTAAATACACTAATCCGTTTACTTTGG
27362849 TTATGTTAAC
911 TTATGTTAAC
*
27362859 AACTGATCGGTTTTCTCGATGGCACTTTGGCTAGTCCACTGCGGTTTGTGCAGTCTCTAGACGGC
1 AACTGATCGGTTTTCTCGATGGCACTTTGGCTAGTCCACTGCGGTTTGTGCAATCTCTAGACGGC
27362924 TCGCTCATTCCGAATCCTAATGCTTCAACCTTTGTGCAACAAGATCGGTTATTAACCTCATGGCT
66 TCGCTCATTCCGAATCCTAATGCTTCAACCTTTGTGCAACAAGATCGGTTATTAACCTCATGGCT
27362989 TCTTTCCACAATTAATCATTCTATTTTGTCTTCTTTTACAGAGGCTCGATCTGCTTGTGATGTAT
131 TCTTTCCACAATTAATCATTCTATTTTGTCTTCTTTTACAGAGGCTCGATCTGCTTGTGATGTAT
* *
27363054 GGACTACCGTAACCCGTCTTTTTGCCCCTTTCACTAGGGCGAAGCTTGCTCGTCTTTGACACGAT
196 GGACTACCGCAACCCGTCTTTTTGCCCCTTTCACTAGGGCGAAGCTTGCTCGTCTTCGACACGAT
27363119 TTACTTTCTCTCAAGAAAGGCAGTCTTTCAATCAAAGAATTTGTGGCCAAAATCCAGAATATGAG
261 TTACTTTCTCTCAAGAAAGGCAGTCTTTCAATCAAAGAATTTGTGGCCAAAATCCAGAATATGAG
*
27363184 TGCTTTGATAACTGTCTCTGGTTCGTGCATCTCTGAAGAAGAGAAGGTCCAAACTCTGCTTGTGG
326 TGCTTTGATAACTGTCTCTGGTTCGTGCATCTCTGAAGAAGAGAAGGTCCAAACTCTACTTGTGG
*
27363249 GCTTACCCTCTGATTTTGATTCTGTCATTACGCTCGCCTCGTTCTCATCGGAACCTTTTCGATTT
391 GCTTACCCTCTGATTTTGATTCTGTCATTACGCTCGCCTCGTTCTCATCGGAACCTTTGCGATTT
*
27363314 CAACAACTTGTTGAAGAGCTTCTTGAGTTCGAGAATCTTCAGGCGCGTGTGGCTTCAGAGATACC
456 CAACAACTTGTTGAAGAGCTTCTTGAGTTCGAGAATCGTCAGGCGCGTGTGGCTTCAGAGATACC
* *
27363379 TCTTCATGCTAATCTCTTGGAGACTGTTCCTTTACCGATCATAGGGGGTTCTGTTCGTGTTATTC
521 TCTTCATGCTAATCTCTTGGAGACTGTTCCTTTACCGATCATAGGGGGTTATGTTCGTGGTATTC
* * *
27363444 GTCCCTCATCTAGAGGTCGTGGACGTGGGTTCTGATCCTGAGTTCAATGCCAAATCTGCGGATGG
586 GTCCCCCATCTAGAGGTCGTGGACGTGGGTTCTGATCCCGAGTTCAATGCCAAATCTGCGAATGG
*
27363509 TTTGGGCATCTTGCTCAATGGTGTTTCTACCGTTACGACCGTGACCATGAGGGATCGTCGTCGGA
651 TTTGGGCATCTTACTCAATGGTGTTTCTACCGTTACGACCGTGACCATGAGGGATCGTCGTCGGA
27363574 TGCTTGAGCATCGTCTTCGGTAGGTCGTCGATGGACATCCATCTGACTCTGTTGTCAAATCTGTT
716 TGCTTGAGCATCGTCTTCGGTAGGTCGTCGATGGACATCCATCTGACTCTGTTGTCAAATCTGTT
27363639 TTGAATAAATGTAGTATTTCTTCAAATAAATTTTGTATGGACACTGCATGCTCTGCATGTCAAAA
781 TTGAATAAATGTAGTATTTCTTCAAATAAATTTTGTATGGACACTGCATGCTCTGCATGTCAAAA
* *
27363704 AAAGAAATCACATAAATTGCCCTTTACCGATTCGACCACTAAATACACTGATCCGTTTACTTTGG
846 AAAGAAATCACATAAATTACCCTTTACCGATTCGACCACTAAATACACTAATCCGTTTACTTTGG
27363769 TT
911 TT
27363771 GTTTCTGATC
Statistics
Matches: 889, Mismatches: 23, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
920 889 1.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (920 bp):
AACTGATCGGTTTTCTCGATGGCACTTTGGCTAGTCCACTGCGGTTTGTGCAATCTCTAGACGGC
TCGCTCATTCCGAATCCTAATGCTTCAACCTTTGTGCAACAAGATCGGTTATTAACCTCATGGCT
TCTTTCCACAATTAATCATTCTATTTTGTCTTCTTTTACAGAGGCTCGATCTGCTTGTGATGTAT
GGACTACCGCAACCCGTCTTTTTGCCCCTTTCACTAGGGCGAAGCTTGCTCGTCTTCGACACGAT
TTACTTTCTCTCAAGAAAGGCAGTCTTTCAATCAAAGAATTTGTGGCCAAAATCCAGAATATGAG
TGCTTTGATAACTGTCTCTGGTTCGTGCATCTCTGAAGAAGAGAAGGTCCAAACTCTACTTGTGG
GCTTACCCTCTGATTTTGATTCTGTCATTACGCTCGCCTCGTTCTCATCGGAACCTTTGCGATTT
CAACAACTTGTTGAAGAGCTTCTTGAGTTCGAGAATCGTCAGGCGCGTGTGGCTTCAGAGATACC
TCTTCATGCTAATCTCTTGGAGACTGTTCCTTTACCGATCATAGGGGGTTATGTTCGTGGTATTC
GTCCCCCATCTAGAGGTCGTGGACGTGGGTTCTGATCCCGAGTTCAATGCCAAATCTGCGAATGG
TTTGGGCATCTTACTCAATGGTGTTTCTACCGTTACGACCGTGACCATGAGGGATCGTCGTCGGA
TGCTTGAGCATCGTCTTCGGTAGGTCGTCGATGGACATCCATCTGACTCTGTTGTCAAATCTGTT
TTGAATAAATGTAGTATTTCTTCAAATAAATTTTGTATGGACACTGCATGCTCTGCATGTCAAAA
AAAGAAATCACATAAATTACCCTTTACCGATTCGACCACTAAATACACTAATCCGTTTACTTTGG
TTATGTTAAC
Found at i:27366541 original size:26 final size:26
Alignment explanation
Indices: 27366511--27366591 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
27366501 TCGATCACAT
27366511 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
*
27366537 GTGTA-T-CAAATGGTG-AGG-T-C-AC
1 GTGTAGTACTAA--GTGCAGGCTACTAC
27366559 GTGTGTAGTACTAAGTGCAGGCTACTAC
1 --GTGTAGTACTAAGTGCAGGCTACTAC
27366587 GTGTA
1 GTGTA
27366592 CCGGATTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
22 2 0.05
23 1 0.02
24 12 0.28
25 8 0.19
26 17 0.40
27 1 0.02
28 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAC
Found at i:27366642 original size:99 final size:101
Alignment explanation
Indices: 27366455--27366643 Score: 276
Period size: 99 Copynumber: 1.9 Consensus size: 101
27366445 ATTGTGAATA
*
27366455 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACATGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAATGACTTCGATCACATGTGTAGTAC
*
27366520 TAAGTGCAGGCTACTACGTGTATCAAATGGTGAGGT
66 TAAGTGCAGGCTACTACGCGTATCAAATGGTGAGGT
* * * * *
27366556 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATTA-TT-GGTCGCATGTGTAGTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTC-AATGACTTCGATCACATGTGTAGTA
*
27366618 CTAAGTGCAGGCTACTATGCGTATCA
65 CTAAGTGCAGGCTACTACGCGTATCA
27366644 GATAGCTTCG
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
99 38 0.48
100 3 0.04
101 38 0.48
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAATGACTTCGATCACATGTGTAGTAC
TAAGTGCAGGCTACTACGCGTATCAAATGGTGAGGT
Found at i:27368714 original size:42 final size:46
Alignment explanation
Indices: 27368650--27368815 Score: 148
Period size: 47 Copynumber: 3.6 Consensus size: 46
27368640 CTTCGTTTTC
**
27368650 TCGATGCCATAGTTCA-ATTATGGTCTTACAC-AT-C-T-TCACATAA
1 TCGATGCCATAGCCCAGA-TATGGTCTTACACAATACATATCACAT-A
*
27368693 T-GATGCCATAGCCCAGCTATGGTCTTACACATAATCACATATCACATA
1 TCGATGCCATAGCCCAGATATGGTCTTACAC--AAT-ACATATCACATA
* * *
27368741 TCGATGCCATAGCCCAGATATGGTCTTATACAGTAGCATAT-ATCACA
1 TCGATGCCATAGCCCAGATATGGTCTTACACAATA-CATATCA-CATA
* *
27368788 CCGATGCCATATCCCAGATATGGTCTTA
1 TCGATGCCATAGCCCAGATATGGTCTTA
27368816 TACGGAAATC
Statistics
Matches: 103, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
42 25 0.24
43 1 0.01
45 2 0.02
46 2 0.02
47 37 0.36
48 3 0.03
49 33 0.32
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (46 bp):
TCGATGCCATAGCCCAGATATGGTCTTACACAATACATATCACATA
Found at i:27368804 original size:47 final size:48
Alignment explanation
Indices: 27368694--27368818 Score: 164
Period size: 49 Copynumber: 2.6 Consensus size: 48
27368684 TTCACATAAT
* * * *
27368694 GATGCCATAGCCCAGCTATGGTCTTACACATAATCACATATCACATATC
1 GATGCCATAGCCCAGATATGGTCTTATACATAAGCACATATCACA-ACC
*
27368743 GATGCCATAGCCCAGATATGGTCTTATACAGT-AGCATATATCAC-ACC
1 GATGCCATAGCCCAGATATGGTCTTATACA-TAAGCACATATCACAACC
*
27368790 GATGCCATATCCCAGATATGGTCTTATAC
1 GATGCCATAGCCCAGATATGGTCTTATAC
27368819 GGAAATCACT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
47 30 0.43
49 38 0.55
50 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (48 bp):
GATGCCATAGCCCAGATATGGTCTTATACATAAGCACATATCACAACC
Found at i:27368880 original size:31 final size:31
Alignment explanation
Indices: 27368837--27368954 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
27368827 CTTGTTACTT
* *
27368837 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
27368868 GTAGTCTGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
27368899 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
***
27368930 GTAGCAAAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
27368955 TGTCATTTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:27369029 original size:50 final size:51
Alignment explanation
Indices: 27368937--27369058 Score: 210
Period size: 50 Copynumber: 2.4 Consensus size: 51
27368927 CAGGTAGCAA
* *
27368937 AAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
*
27368988 AAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
27369038 AAGCTATCACTTATCACTTGT
1 AAGCTATCACTTATCACTTGT
27369059 TGCCATGGTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 49 0.73
51 18 0.27
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
Found at i:27396820 original size:15 final size:16
Alignment explanation
Indices: 27396800--27396832 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27396790 GACAATGTGA
*
27396800 TTATGT-TTGATGGAT
1 TTATGTGTTAATGGAT
27396815 TTATGTGTTAATGGAT
1 TTATGTGTTAATGGAT
27396831 TT
1 TT
27396833 TCATGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (16 bp):
TTATGTGTTAATGGAT
Found at i:27403288 original size:13 final size:12
Alignment explanation
Indices: 27403266--27403295 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
27403256 TTTTTTCTAG
27403266 AAAAAATAATAA
1 AAAAAATAATAA
27403278 AAAATAATAATAA
1 AAAA-AATAATAA
27403291 AAAAA
1 AAAAA
27403296 GAGAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAAATAATAA
Found at i:27403902 original size:22 final size:24
Alignment explanation
Indices: 27403877--27403924 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
27403867 TTAATTTTAA
27403877 TATTAC-TTA-TACTATTATATTT
1 TATTACGTTATTACTATTATATTT
*
27403899 TATTACTGTTATTATTATTATATTT
1 TATTAC-GTTATTACTATTATATTT
27403924 T
1 T
27403925 TATTTATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
24 3 0.14
25 13 0.59
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTACGTTATTACTATTATATTT
Found at i:27404118 original size:14 final size:15
Alignment explanation
Indices: 27404100--27404137 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
27404090 TTATATTACG
27404100 TATATTATTTTTTTA
1 TATATTATTTTTTTA
*
27404115 -ATATTAGATTTTTTA
1 TATATTA-TTTTTTTA
27404130 TATATTAT
1 TATATTAT
27404138 GTATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
14 6 0.32
15 7 0.37
16 6 0.32
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TATATTATTTTTTTA
Found at i:27404167 original size:24 final size:22
Alignment explanation
Indices: 27404122--27404196 Score: 73
Period size: 24 Copynumber: 3.3 Consensus size: 22
27404112 TTAATATTAG
27404122 ATTTTTTATATATTATGTATAT
1 ATTTTTTATATATTATGTATAT
27404144 ATTTTTATATCATATTAT-TCATAT
1 ATTTTT-TAT-ATATTATGT-ATAT
* * *
27404168 ATCTTAT-TATCTTATGTATAT
1 ATTTTTTATATATTATGTATAT
27404189 ATATTTTT
1 AT-TTTTT
27404197 TAATAACTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
21 12 0.28
22 11 0.26
23 5 0.12
24 15 0.35
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (22 bp):
ATTTTTTATATATTATGTATAT
Found at i:27404221 original size:29 final size:29
Alignment explanation
Indices: 27404179--27404240 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
27404169 TCTTATTATC
27404179 TTATGTATATATATT-TTTTAATAACTATA
1 TTATGTATATATATTCTTTTAATAACT-TA
*
27404208 TTATGTATATATATTCTTTTAATATCTTA
1 TTATGTATATATATTCTTTTAATAACTTA
27404237 TTAT
1 TTAT
27404241 CTTATTATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (29 bp):
TTATGTATATATATTCTTTTAATAACTTA
Found at i:27404291 original size:25 final size:25
Alignment explanation
Indices: 27404263--27404323 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
27404253 ATACTCAAAA
* *
27404263 ATATTATGTATGTATTTTTAACACT
1 ATATTACGTACGTATTTTTAACACT
27404288 ATATTACGTACGTATTTTTAACACT
1 ATATTACGTACGTATTTTTAACACT
27404313 ATATTACGTAC
1 ATATTACGTAC
27404324 ATGCTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (25 bp):
ATATTACGTACGTATTTTTAACACT
Found at i:27404379 original size:27 final size:26
Alignment explanation
Indices: 27404132--27404382 Score: 91
Period size: 25 Copynumber: 9.6 Consensus size: 26
27404122 ATTTTTTATA
27404132 TATTATGTATATATTTTT-ATATCA-
1 TATTATGTATATATTTTTAATATCAT
* *
27404156 TATTAT-TCATATA-TCTTATTATC-T
1 TATTATGT-ATATATTTTTAATATCAT
* *
27404180 TATGTATATATAT-TTTTTAATAAC-T
1 TAT-TATGTATATATTTTTAATATCAT
27404205 ATATTATGTATATATATTCTTTTAATATC-T
1 -TATTATG--TATATA-T-TTTTAATATCAT
* * *
27404235 TATTATCT-TAT-TATCTTAATACTCAAAAA
1 TATTATGTATATAT-TTTTAATA-TC---AT
* *
27404264 TATTATGTATGTATTTTTAACA-C-T
1 TATTATGTATATATTTTTAATATCAT
* ** *
27404288 ATATTACGTACGTATTTTTAACA-C-T
1 -TATTATGTATATATTTTTAATATCAT
* * **
27404313 ATATTACGTACATGCTTTTAATATCAT
1 -TATTATGTATATATTTTTAATATCAT
27404340 TATTATGTATATATTTTTAATAT-AT
1 TATTATGTATATATTTTTAATATCAT
*
27404365 ATATATATGTGTATATTT
1 -TAT-TATGTATATATTT
27404383 ATGTAGTATT
Statistics
Matches: 176, Mismatches: 27, Indels: 45
0.71 0.11 0.18
Matches are distributed among these distances:
23 4 0.02
24 26 0.15
25 63 0.36
26 30 0.17
27 19 0.11
28 1 0.01
29 14 0.08
30 18 0.10
31 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (26 bp):
TATTATGTATATATTTTTAATATCAT
Found at i:27404472 original size:21 final size:20
Alignment explanation
Indices: 27404440--27404489 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
27404430 ATGTAAATAA
27404440 TATATATTTTTAATACTATG
1 TATATATTTTTAATACTATG
*
27404460 TATATACTTTTTAGTACTAT-
1 TATATA-TTTTTAATACTATG
27404480 TATTATATTT
1 TA-TATATTT
27404490 ATATTTTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (20 bp):
TATATATTTTTAATACTATG
Found at i:27404610 original size:21 final size:21
Alignment explanation
Indices: 27404584--27404627 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
27404574 TATATGTATA
*
27404584 TATATTTATTATTATTATCAT
1 TATATTTATTATTAATATCAT
*
27404605 TATATTTATTATTAATATTAT
1 TATATTTATTATTAATATCAT
27404626 TA
1 TA
27404628 GTACTAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTTATTATTAATATCAT
Found at i:27404778 original size:24 final size:24
Alignment explanation
Indices: 27404750--27404900 Score: 108
Period size: 25 Copynumber: 6.0 Consensus size: 24
27404740 ATCATTTCTA
*
27404750 ATATATATATATTGTATATGTTTTTT
1 ATATATAT-TA-TGTATATATTTTTT
*
27404776 ATATATATTATGTATATATTTTTA
1 ATATATATTATGTATATATTTTTT
* * *
27404800 ATACCATACTAT-TCATATACTTTTT
1 ATA-TATATTATGT-ATATATTTTTT
*
27404825 ATGT-TATCTCATGTATATATTTTTT
1 ATATATAT-T-ATGTATATATTTTTT
* *
27404850 AATAACTATATTATGTATGTATTTTTA
1 -AT-A-TATATTATGTATATATTTTTT
* *
27404877 ACACTATATTATGTACATATTTTT
1 ATA-TATATTATGTATATATTTTT
27404901 AATACTATGT
Statistics
Matches: 100, Mismatches: 16, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
23 2 0.02
24 17 0.17
25 51 0.51
26 12 0.12
27 13 0.13
28 2 0.02
29 3 0.03
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATATATATTATGTATATATTTTTT
Found at i:27407530 original size:50 final size:50
Alignment explanation
Indices: 27407394--27407569 Score: 309
Period size: 49 Copynumber: 3.5 Consensus size: 50
27407384 CCATGGCAAT
*
27407394 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
27407444 AAGTGATAAGT-ATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
*
27407493 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
*
27407543 CAAGTGAAAAGTGATAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
27407570 CTGATCAGTG
Statistics
Matches: 121, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
49 48 0.40
50 48 0.40
51 25 0.21
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
Found at i:27407580 original size:31 final size:31
Alignment explanation
Indices: 27407545--27407661 Score: 189
Period size: 31 Copynumber: 3.8 Consensus size: 31
27407535 ACAAATGACA
27407545 AGTGAAAAGTGATAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGATAGCTTCGGCTACCTGATC
*
27407576 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGATAGCTTCGGCTACCTGATC
* *
27407607 AGTGAAAAATGATAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGATAGCTTCGGCTACCTGATC
* *
27407638 AGTGAATAGTGGTAGCTTCGGCTA
1 AGTGAAAAGTGATAGCTTCGGCTA
27407662 AAAGTGACAA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGATAGCTTCGGCTACCTGATC
Found at i:27407803 original size:10 final size:10
Alignment explanation
Indices: 27407788--27407815 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
27407778 ATGCTATGGC
27407788 ATCAGTGATT
1 ATCAGTGATT
27407798 ATCAGTGATT
1 ATCAGTGATT
27407808 ATCAGTGA
1 ATCAGTGA
27407816 AATTCAGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (10 bp):
ATCAGTGATT
Found at i:27410059 original size:21 final size:21
Alignment explanation
Indices: 27409998--27410120 Score: 102
Period size: 21 Copynumber: 5.9 Consensus size: 21
27409988 AAGCCCAAAG
* *
27409998 GCTGAACAGAAGCTCATGAGA
1 GCTGAACAGAAACTCATAAGA
* * * *
27410019 GCTAAACATAAACCCATAAGG
1 GCTGAACAGAAACTCATAAGA
* * *
27410040 GTTGAACGGAAGCTCATAAGA
1 GCTGAACAGAAACTCATAAGA
* * *
27410061 GCTGAACGGAAACTTATAAGG
1 GCTGAACAGAAACTCATAAGA
* * * *
27410082 GTTAAACAGAAGCTCAAAAGA
1 GCTGAACAGAAACTCATAAGA
27410103 GCTGAACAGAAACTCATA
1 GCTGAACAGAAACTCATA
27410121 TGAGTTAAAT
Statistics
Matches: 74, Mismatches: 28, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
GCTGAACAGAAACTCATAAGA
Found at i:27410062 original size:42 final size:42
Alignment explanation
Indices: 27410000--27410155 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 42
27409990 GCCCAAAGGC
* * * *
27410000 TGAACAGAAGCTCATGAGAGCTAAACATAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGGGT
* * *
27410042 TGAACGGAAGCTCATAAGAGCTGAACGGAAACTTATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGGGT
* * * *
27410084 TAAACAGAAGCTCAAAAGAGCTGAACAGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGGGT
* * * * *
27410126 TAAATAGAAGCTTATGAGAGCTAAAC-GAAA
1 TGAACAGAAGCTCATAAGAGCTGAACAGAAA
27410156 GTAAACAAGA
Statistics
Matches: 95, Mismatches: 19, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
41 4 0.04
42 91 0.96
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.18
Consensus pattern (42 bp):
TGAACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGGGT
Done.