Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 199 of 297
Found at i:67482747 original size:40 final size:40
Alignment explanation
Indices: 67482540--67482735 Score: 266
Period size: 40 Copynumber: 4.8 Consensus size: 40
67482530 GAGAATTGAG
*
67482540 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGAT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
67482580 AGCGATATATCCGGGCTAAGTCCCGAAGAGAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCC---GA-AGAGCATTCGTGCT
*
67482624 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
67482664 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
67482704 GGTGTTATATCCGGGCTAGGTCTCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
67482736 ATCATGCTGG
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
40 97 0.71
41 2 0.01
43 2 0.01
44 36 0.26
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:67499225 original size:93 final size:93
Alignment explanation
Indices: 67499113--67499284 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
67499103 CGCCCATAAG
* * *
67499113 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGAACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTC-GGACATTCGCATCCATAAATGAACTCGAACTCAACTC
67499177 AACGAGCTCGGATGCCTAGTTACATTTCA
65 AACGAGCTCGGATGCCTAGTTACATTTCA
* *
67499206 CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCA
*
67499271 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
67499285 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:67499281 original size:46 final size:45
Alignment explanation
Indices: 67499114--67499280 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 45
67499104 GCCCATAAGC
* *
67499114 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCATCCATAAAT
* * * ** *
67499160 GAACTCGAACTCAACTCAACGAGCTCGG-ATGC-CTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--TCCA-TAAAT
* *
67499207 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAAT
*
67499253 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGCTCGG
67499281 ATGCTCAACC
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 57 0.59
47 29 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAAT
Found at i:67504984 original size:41 final size:42
Alignment explanation
Indices: 67504875--67505025 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 42
67504865 ACACCAATGG
* * * ** *
67504875 CATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGTC
1 CATATCCCAAACATGGTCTTACACGAAATCTCATAACGATG-C
* * * * * *
67504918 AATAGCCC-ATCTATGGTTTTACACG-ATTCTCATATCGATGC
1 CATATCCCAAAC-ATGGTCTTACACGAAATCTCATAACGATGC
*
67504959 CATGTCCCAAACATGGTCTTACACGAAATCTCATAACGATGC
1 CATATCCCAAACATGGTCTTACACGAAATCTCATAACGATGC
* *
67505001 CATATCCCAGATATGGTCTTACACG
1 CATATCCCAAACATGGTCTTACACG
67505026 TTAACACATA
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
41 18 0.21
42 51 0.59
43 17 0.20
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
CATATCCCAAACATGGTCTTACACGAAATCTCATAACGATGC
Found at i:67507094 original size:27 final size:27
Alignment explanation
Indices: 67507055--67507223 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
67507045 AGTTTAACTC
* * *
67507055 AGTGCTATATAATCAACTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* *
67507082 AGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
67507109 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAGTCAAA-TCGCACACTT
** * *
67507137 AGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* **
67507164 AGTGC-ATCATATTCATTTCGCACACTT
1 AGTGCTA-CATAGTCAAATCGCACACTT
*
67507191 AGTGCAACATAGTCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
67507218 AGTGCT
1 AGTGCT
67507224 GTACAATTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
AGTGCTACATAGTCAAATCGCACACTT
Found at i:67507192 original size:82 final size:81
Alignment explanation
Indices: 67507067--67507222 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
67507057 TGCTATATAA
* *
67507067 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
67507132 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
67507149 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
67507213 CACTTAGTGC
65 CACTTAGTGC
67507223 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:67512510 original size:42 final size:42
Alignment explanation
Indices: 67512449--67512556 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
67512439 TAAACTAGCT
* * *
67512449 ATGGTCTTACACG-ATTCTCATATCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCTCATAACGATGCCATATCCCAGAC
* *
67512490 ATGGTCTTACACGAAATCTCATAACGATGCCATATCTCAGAT
1 ATGGTCTTACACGAAATCTCATAACGATGCCATATCCCAGAC
*
67512532 ACGGTCTTACACGTAAA-CTCATAAC
1 ATGGTCTTACACG-AAATCTCATAAC
67512557 CCTAATGTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 13 0.22
42 43 0.73
43 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATAACGATGCCATATCCCAGAC
Found at i:67520673 original size:20 final size:20
Alignment explanation
Indices: 67520616--67520673 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
67520606 TAAGTTTATG
* *
67520616 CTAAGCAAATGGAATGGAAA
1 CTAAGAAAATGGAATGGTAA
* *
67520636 GTAAGTAAATGGAATGGTAA
1 CTAAGAAAATGGAATGGTAA
67520656 CTAAGAAAATGGAATGGT
1 CTAAGAAAATGGAATGGT
67520674 TCTTAAACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.47, C:0.05, G:0.28, T:0.21
Consensus pattern (20 bp):
CTAAGAAAATGGAATGGTAA
Found at i:67530306 original size:31 final size:31
Alignment explanation
Indices: 67530268--67530330 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
67530258 CTTTTCAGAC
67530268 TTCATATTTCATAACACTGGGCCAAAGCCTT
1 TTCATATTTCATAACACTGGGCCAAAGCCTT
** *
67530299 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCAAAGCCTT
67530330 T
1 T
67530331 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCAAAGCCTT
Found at i:67530566 original size:25 final size:24
Alignment explanation
Indices: 67530524--67530597 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 24
67530514 GCTTTATCAT
*
67530524 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
67530549 ATAACTGGGGCATAAGCCCTTTATT
1 ATAACTGGGGCATAAGCCCTTT-TA
67530574 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
67530598 CACTTCCTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
24 9 0.20
25 35 0.80
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:67530671 original size:20 final size:20
Alignment explanation
Indices: 67530646--67530712 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
67530636 TTATGAATAC
67530646 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
67530666 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
67530686 GTCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
*
67530706 ACCATGT
1 ATCATGT
67530713 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:67532493 original size:28 final size:28
Alignment explanation
Indices: 67532452--67532604 Score: 182
Period size: 28 Copynumber: 5.5 Consensus size: 28
67532442 TGTACGATAG
* * **
67532452 TTAGTGTGTGAGATATCAAGTATACCAC
1 TTAGTGTGCGAGATATCGAGTATGGCAC
*
67532480 TTAGAGTGCGAGATATCGAGTATGGCAC
1 TTAGTGTGCGAGATATCGAGTATGGCAC
*
67532508 TTAGTGTGCGAGATAACGAGTATGGCAC
1 TTAGTGTGCGAGATATCGAGTATGGCAC
* *
67532536 TTAGTGTGGGAGATATCGAGTGTGGCAC
1 TTAGTGTGCGAGATATCGAGTATGGCAC
* * *
67532564 TTAGTG-GCGAAATATTGAATATGGCAC
1 TTAGTGTGCGAGATATCGAGTATGGCAC
* *
67532591 TAAGTGTGTGAGAT
1 TTAGTGTGCGAGAT
67532605 TTAAGTATTC
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 21 0.20
28 85 0.80
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (28 bp):
TTAGTGTGCGAGATATCGAGTATGGCAC
Found at i:67534953 original size:47 final size:47
Alignment explanation
Indices: 67534836--67534964 Score: 145
Period size: 47 Copynumber: 2.7 Consensus size: 47
67534826 TTCTTCGGGA
** * *
67534836 CTTATCACAGTTATACACTTCCAC-TTCCATCACATTGGCCATTCGGC
1 CTTATCACACATACACACTTTCACATT-CATCACATTGGCCATTCGGC
* * * *
67534883 CTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGC
*
67534930 CTTATCACACATACGCA-TGTTCACATTCATCACAT
1 CTTATCACACATACACACT-TTCACATTCATCACAT
67534965 AAAATCCTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 1 0.01
47 67 0.96
48 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:67540223 original size:21 final size:21
Alignment explanation
Indices: 67540199--67540239 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67540189 TGCAGCCCAT
* *
67540199 CCCATACCAGCCAGCACACCA
1 CCCATACCAACCAACACACCA
67540220 CCCATACCAACCAACACACC
1 CCCATACCAACCAACACACC
67540240 TGTAGGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.54, G:0.05, T:0.05
Consensus pattern (21 bp):
CCCATACCAACCAACACACCA
Found at i:67559430 original size:11 final size:12
Alignment explanation
Indices: 67559398--67559430 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
67559388 GAGCTATAGC
67559398 AAACTTAATTAT
1 AAACTTAATTAT
*
67559410 AAACTGAATTA-
1 AAACTTAATTAT
67559421 AAACTTAATT
1 AAACTTAATT
67559431 TATTAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
AAACTTAATTAT
Found at i:67559498 original size:20 final size:21
Alignment explanation
Indices: 67559461--67559508 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
67559451 GAGCTGAATT
*
67559461 GAGCTGAATTCTAGCTCAAAC
1 GAGCTGAATTCAAGCTCAAAC
**
67559482 GAGCTGAA-TCAAGCTCAAGT
1 GAGCTGAATTCAAGCTCAAAC
67559502 GAGCTGA
1 GAGCTGA
67559509 TGGGAGCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (21 bp):
GAGCTGAATTCAAGCTCAAAC
Found at i:67562863 original size:10 final size:10
Alignment explanation
Indices: 67562850--67562895 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
67562840 AGCTAACTTG
67562850 AGCTCGTTTT
1 AGCTCGTTTT
*
67562860 AGCTCGTTTG
1 AGCTCGTTTT
67562870 AGCTCGATTTT
1 AGCTCG-TTTT
*
67562881 AGCTCGTTTC
1 AGCTCGTTTT
67562891 AGCTC
1 AGCTC
67562896 ATTTCTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:67562882 original size:21 final size:21
Alignment explanation
Indices: 67562847--67562899 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
67562837 ATCAGCTAAC
67562847 TTGAGCTCG-TTTTAGCTCGT
1 TTGAGCTCGATTTTAGCTCGT
67562867 TTGAGCTCGATTTTAGCTCGT
1 TTGAGCTCGATTTTAGCTCGT
*
67562888 TTCAGCTC-ATTT
1 TTGAGCTCGATTT
67562900 CTTTTCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (21 bp):
TTGAGCTCGATTTTAGCTCGT
Found at i:67569215 original size:6 final size:6
Alignment explanation
Indices: 67569199--67569268 Score: 57
Period size: 5 Copynumber: 12.7 Consensus size: 6
67569189 AGTGGAAAAA
*
67569199 AAAAGTG AAAATG AAAAAG -AAA-G AAAA-G AAAATG AAAATG -AAA-G
1 AAAA-TG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
67569243 AAAA-G AAAATG AAAGA-G AAAAT- AAAA
1 AAAATG AAAATG AAA-ATG AAAATG AAAA
67569269 AGACTTATGA
Statistics
Matches: 56, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
4 2 0.04
5 27 0.48
6 22 0.39
7 5 0.09
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.09
Consensus pattern (6 bp):
AAAATG
Found at i:67569229 original size:15 final size:15
Alignment explanation
Indices: 67569223--67569258 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
67569213 AAAAGAAAGA
67569223 AAAGAAAATGAAAATG
1 AAAGAAAA-GAAAATG
67569239 AAAGAAAAGAAAATG
1 AAAGAAAAGAAAATG
67569254 AAAGA
1 AAAGA
67569259 GAAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.08
Consensus pattern (15 bp):
AAAGAAAAGAAAATG
Found at i:67569231 original size:21 final size:21
Alignment explanation
Indices: 67569205--67569262 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
67569195 AAAAAAAAGT
67569205 GAAAATGAAAAAGAAAGAAAA
1 GAAAATGAAAAAGAAAGAAAA
*
67569226 GAAAATGAAAATGAAAGAAAA
1 GAAAATGAAAAAGAAAGAAAA
*
67569247 GAAAATGAAAGAGAAA
1 GAAAATGAAAAAGAAA
67569263 ATAAAAAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.07
Consensus pattern (21 bp):
GAAAATGAAAAAGAAAGAAAA
Found at i:67569234 original size:27 final size:27
Alignment explanation
Indices: 67569193--67569271 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
67569183 AATGAGAGTG
*
67569193 GAAAAAAAAAGTGAAAATGAAAAAGAAA
1 GAAAAGAAAA-TGAAAATGAAAAAGAAA
*
67569221 GAAAAGAAAATGAAAATGAAAGA-AAA
1 GAAAAGAAAATGAAAATGAAAAAGAAA
67569247 GAAAATGAAAGA-GAAAAT-AAAAAGA
1 GAAAA-GAAA-ATGAAAATGAAAAAGA
67569272 CTTATGATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
26 12 0.27
27 23 0.51
28 10 0.22
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (27 bp):
GAAAAGAAAATGAAAATGAAAAAGAAA
Found at i:67572213 original size:16 final size:16
Alignment explanation
Indices: 67572192--67572246 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
67572182 AAAACTTTTC
*
67572192 AAGCCAAAATTATTAT
1 AAGCCAAAATCATTAT
** *
67572208 AAGCCAAATAGGATTAC
1 AAGCCAAA-ATCATTAT
*
67572225 AAGCCAAAATCAATAT
1 AAGCCAAAATCATTAT
67572241 AAGCCA
1 AAGCCA
67572247 CATCTCATAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.20
Consensus pattern (16 bp):
AAGCCAAAATCATTAT
Found at i:67574058 original size:27 final size:27
Alignment explanation
Indices: 67574028--67574080 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
67574018 CATACAACCT
* * *
67574028 ATGTAATAGTAATTTAATATTCAATTC
1 ATGTAACAATAATTTAACATTCAATTC
*
67574055 ATGTAACAATAATTTGACATTCAATT
1 ATGTAACAATAATTTAACATTCAATT
67574081 TCACATGACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (27 bp):
ATGTAACAATAATTTAACATTCAATTC
Found at i:67575301 original size:20 final size:20
Alignment explanation
Indices: 67575276--67575320 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
67575266 CACACAAGCT
67575276 CGTGTGGCTTGGGACACACC
1 CGTGTGGCTTGGGACACACC
*
67575296 CGTGTGGCTTGGGACACGCC
1 CGTGTGGCTTGGGACACACC
67575316 CGTGT
1 CGTGT
67575321 AACTCTCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.29, G:0.38, T:0.22
Consensus pattern (20 bp):
CGTGTGGCTTGGGACACACC
Found at i:67582072 original size:38 final size:39
Alignment explanation
Indices: 67581982--67582089 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 39
67581972 TGAAAACAAG
* * * *
67581982 TATTAAAGATGTTTAAACTATGCCATAATTAAAGACCCA
1 TATTAATGATGTTCAAATTATGACATAATTAAAGACCCA
* *
67582021 TATTAATGATGTTCAGATTATGACATAATTAAA-ACTCA
1 TATTAATGATGTTCAAATTATGACATAATTAAAGACCCA
* *
67582059 TATTAATGGTGTTCAAATTATGACATGATTA
1 TATTAATGATGTTCAAATTATGACATAATTA
67582090 TATACTCAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 32 0.53
39 28 0.47
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (39 bp):
TATTAATGATGTTCAAATTATGACATAATTAAAGACCCA
Found at i:67583931 original size:93 final size:93
Alignment explanation
Indices: 67583819--67583989 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
67583809 CGCCCATAAG
*
67583819 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACGTTCACATCCATAAGTGAACTCGAACTCAACTC
*
67583883 AATGAGTCCGGATGCCTAGTTACATTTCA
65 AACGAGTCCGGATGCCTAGTTACATTTCA
* * *
67583912 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTTAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGAACTCAACTCA
*
67583977 ACGAGTTCGGATG
66 ACGAGTCCGGATG
67583990 TTCGTATCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTCCGGATGCCTAGTTACATTTCA
Found at i:67584034 original size:46 final size:46
Alignment explanation
Indices: 67583812--67584035 Score: 247
Period size: 46 Copynumber: 4.8 Consensus size: 46
67583802 TGTAACCCGC
* * * *
67583812 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* * * * *
67583858 CCATAAGTGAACTCGGACTCAACTCAATGAGTCCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * *
67583904 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * *
67583951 CCATAAGTGAACTCGAACTTAACTCAACGAGTTCGGATGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
67583997 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
67584036 CCCAAATATC
Statistics
Matches: 145, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
45 4 0.03
46 107 0.74
47 32 0.22
48 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:67584261 original size:18 final size:18
Alignment explanation
Indices: 67584238--67584274 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
67584228 TATAAATAGC
67584238 ATTAAATGATTTAAAATA
1 ATTAAATGATTTAAAATA
67584256 ATTAAATGATTTAAAATA
1 ATTAAATGATTTAAAATA
67584274 A
1 A
67584275 CAATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
ATTAAATGATTTAAAATA
Found at i:67597005 original size:39 final size:40
Alignment explanation
Indices: 67596920--67597005 Score: 147
Period size: 40 Copynumber: 2.2 Consensus size: 40
67596910 GGACTAAGAT
*
67596920 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAATC
*
67596960 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAATC
67596999 CCGAAGG
1 CCGAAGG
67597006 TACTTGGGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 15 0.34
40 29 0.66
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAATC
Found at i:67604867 original size:48 final size:48
Alignment explanation
Indices: 67604796--67604976 Score: 254
Period size: 48 Copynumber: 3.8 Consensus size: 48
67604786 AGATAAATAT
* * * * * *
67604796 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAGTATATGTGCG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGAG
* * *
67604844 ATATGTGTATGCGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGAG
* *
67604892 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGAG
*
67604940 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
67604977 TGTAGTAACA
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGAG
Found at i:67605071 original size:37 final size:37
Alignment explanation
Indices: 67605021--67605123 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
67605011 GGAAATGTAT
67605021 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
**
67605058 TCCGGGTAAGACCCGATGACTACGTGCAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
67605095 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
67605124 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:67609508 original size:46 final size:46
Alignment explanation
Indices: 67609441--67609611 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
67609431 AACCCGCCCC
*
67609441 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
*
67609487 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCACATCCA
* * * * *
67609535 TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
67609580 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
67609612 AATGCTCAAC
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 57 0.54
47 26 0.25
48 3 0.03
49 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
Found at i:67609554 original size:93 final size:93
Alignment explanation
Indices: 67609446--67609616 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
67609436 GCCCCTAAGT
*
67609446 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
67609511 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGAATGCCTAGTTACATCTCAC
* * *
67609539 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
67609604 CGAGTTCGAATGC
66 CAAGTTCGAATGC
67609617 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGAATGCCTAGTTACATCTCAC
Found at i:67612111 original size:93 final size:93
Alignment explanation
Indices: 67611999--67612169 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
67611989 GCCCCTAAGT
* *
67611999 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCAAACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCACCCATAAGTGAACTCAAACTCAACTCA
*
67612063 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTCCGGATGCCTAGTTACATCTCAC
* **
67612092 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCACCCATAAGTGAACTCGCACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCACCCATAAGTGAACTCAAACTCAACTCAA
67612157 CGAGTCCGGATGC
66 CGAGTCCGGATGC
67612170 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCACCCATAAGTGAACTCAAACTCAACTCAA
CGAGTCCGGATGCCTAGTTACATCTCAC
Found at i:67612159 original size:46 final size:45
Alignment explanation
Indices: 67611994--67612166 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 45
67611984 AACCCGCCCC
* *
67611994 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCA-CCA
** * *
67612040 TAAGTGAACTCAAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATC-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCACCA
* *
67612088 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCACCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA-CCA
* *
67612133 TAAGTGAACTCGCACTCAACTCAACGAGTCCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
67612167 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 55 0.54
47 27 0.27
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCACCA
Found at i:67613267 original size:68 final size:68
Alignment explanation
Indices: 67613153--67613305 Score: 166
Period size: 68 Copynumber: 2.2 Consensus size: 68
67613143 AGCAGACTTA
* * * * *
67613153 ATTTCGTGTTTATTGT-CCAGGAGGACTTACCCTATTCCATGTTTACTTTCCCAGTGGACTTTAT
1 ATTTCGTGTTTACTGTCCCAGCA-AACTTACCCTATTCCATGTTTACTATCCCAGTGAACTTTAT
67613217 -ATCT
65 CA-CT
* * * * **
67613221 ATTTTGTGTTTACTGTCCCAGCAAACTTACTCTATTTCGTGTTTACTATCCTGGTGAACTTTATC
1 ATTTCGTGTTTACTGTCCCAGCAAACTTACCCTATTCCATGTTTACTATCCCAGTGAACTTTATC
67613286 ACT
66 ACT
*
67613289 GTTTCGTGTTTACTGTC
1 ATTTCGTGTTTACTGTC
67613306 TTGATGGACT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
68 64 0.91
69 6 0.09
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (68 bp):
ATTTCGTGTTTACTGTCCCAGCAAACTTACCCTATTCCATGTTTACTATCCCAGTGAACTTTATC
ACT
Found at i:67617101 original size:12 final size:12
Alignment explanation
Indices: 67617084--67617113 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
67617074 TGAATTTTTT
67617084 TATTTTGATGAA
1 TATTTTGATGAA
67617096 TATTTTGATGAA
1 TATTTTGATGAA
67617108 TATTTT
1 TATTTT
67617114 TACAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (12 bp):
TATTTTGATGAA
Found at i:67619642 original size:27 final size:26
Alignment explanation
Indices: 67619612--67619698 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
67619602 CCCCAGTTTA
67619612 TAAAATTATCGAAATACCCTAATAGTG
1 TAAAATTATCGAAATACCCT-ATAGTG
** * *
67619639 TAAAATTGCCGAAATACCTTTGTAGTG
1 TAAAATTATCGAAATACC-CTATAGTG
* *
67619666 CAAAATTATCGAAATATCCCTATAGAG
1 TAAAATTATCGAAATA-CCCTATAGTG
67619693 TAAAAT
1 TAAAAT
67619699 GACTATTTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 44 0.94
28 3 0.06
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (26 bp):
TAAAATTATCGAAATACCCTATAGTG
Found at i:67620135 original size:27 final size:27
Alignment explanation
Indices: 67620097--67620200 Score: 82
Period size: 27 Copynumber: 3.9 Consensus size: 27
67620087 CTATCTTGAT
* *
67620097 TATGGCTTTGTGCCAATCGTATTTACC
1 TATGGCTATGTGCCAATCATATTTACC
* *
67620124 TATGGCTATGTGCCTATCATATTTATC
1 TATGGCTATGTGCCAATCATATTTACC
* * ** * *
67620151 GATGACCCTGTGTCGATCATATTTACC
1 TATGGCTATGTGCCAATCATATTTACC
* * * *
67620178 CATGGCTGTGTGCCGATTATATT
1 TATGGCTATGTGCCAATCATATT
67620201 ACCATCGCTG
Statistics
Matches: 60, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (27 bp):
TATGGCTATGTGCCAATCATATTTACC
Found at i:67621455 original size:23 final size:24
Alignment explanation
Indices: 67621429--67621478 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
67621419 GCCGAGCCTC
67621429 TTTAATAACTGGGGCA-AAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
67621452 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
67621476 TTT
1 TTT
67621479 GCACTTCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (24 bp):
TTTAATAACTGGGGCATAAGCCCT
Found at i:67621559 original size:11 final size:11
Alignment explanation
Indices: 67621528--67621583 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
67621518 TTATGAATAC
67621528 ATCATGTGCAT
1 ATCATGTGCAT
*
67621539 ATCA--TACAT
1 ATCATGTGCAT
67621548 ATCATGTGCAT
1 ATCATGTGCAT
*
67621559 ATCA--TACAT
1 ATCATGTGCAT
*
67621568 GTCATGTGCAT
1 ATCATGTGCAT
67621579 ATCAT
1 ATCAT
67621584 ACATTCCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:67621594 original size:20 final size:20
Alignment explanation
Indices: 67621528--67621587 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
67621518 TTATGAATAC
67621528 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
67621548 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
67621568 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
67621588 TCCATGTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:67628955 original size:24 final size:24
Alignment explanation
Indices: 67628881--67629026 Score: 242
Period size: 24 Copynumber: 6.1 Consensus size: 24
67628871 GCCTAGCCTC
67628881 TTTAATAACTGGGGCA-AAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
* *
67628904 TTTAATAATTGGGGCA-AATCCCT
1 TTTAATAACTGGGGCATAAGCCCT
67628927 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
*
67628951 TTTAATAACCGGGGCATAAGCCCTT
1 TTTAATAACTGGGGCATAAGCCC-T
67628976 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
67629000 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
67629024 TTT
1 TTT
67629027 GCACTTCCTC
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
23 36 0.31
24 56 0.49
25 23 0.20
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (24 bp):
TTTAATAACTGGGGCATAAGCCCT
Found at i:67628995 original size:49 final size:49
Alignment explanation
Indices: 67628881--67629026 Score: 244
Period size: 49 Copynumber: 3.0 Consensus size: 49
67628871 GCCTAGCCTC
* *
67628881 TTTAATAACTGGGGCA-AAGCCCTTTTAATAATTGGGGCA-AATCCC-T
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTT
*
67628927 TTTAATAACTGGGGCATAAGCCCTTTTAATAACCGGGGCATAAGCCCTT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTT
67628976 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTT
67629025 TT
1 TT
67629027 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
46 16 0.17
47 21 0.23
48 5 0.05
49 51 0.55
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (49 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTT
Found at i:67629101 original size:20 final size:20
Alignment explanation
Indices: 67629076--67629142 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
67629066 TTATGAATAC
67629076 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
67629096 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
67629116 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
67629136 ACCATGT
1 ATCATGT
67629143 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:67629107 original size:11 final size:11
Alignment explanation
Indices: 67629076--67629131 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
67629066 TTATGAATAC
67629076 ATCATGTGCAT
1 ATCATGTGCAT
*
67629087 ATCA--TACAT
1 ATCATGTGCAT
67629096 ATCATGTGCAT
1 ATCATGTGCAT
*
67629107 ATCA--TACAT
1 ATCATGTGCAT
*
67629116 GTCATGTGCAT
1 ATCATGTGCAT
67629127 ATCAT
1 ATCAT
67629132 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:67634149 original size:27 final size:27
Alignment explanation
Indices: 67634083--67634150 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
67634073 CACATAGGGA
* *
67634083 CAAAATAGTCATCTTACCATATAAGGG
1 CAAAATAGTCATTTTACCATATAACGG
67634110 CAAAATAGTCATTTTACC-TCATAACGG
1 CAAAATAGTCATTTTACCAT-ATAACGG
*
67634137 CAAAACAGTCATTT
1 CAAAATAGTCATTT
67634151 CATCAAACTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (27 bp):
CAAAATAGTCATTTTACCATATAACGG
Found at i:67640801 original size:40 final size:40
Alignment explanation
Indices: 67640746--67640923 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
67640736 GAATTGATAA
*
67640746 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
67640786 CCGGGCTAAGTCCCGAGGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
67640826 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
67640866 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
67640906 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
67640924 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 16 0.13
40 111 0.87
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:67644211 original size:23 final size:24
Alignment explanation
Indices: 67644185--67644241 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
67644175 CAATAAGTAC
67644185 ATTTTATTATT-AAAGTATCCCCT
1 ATTTTATTATTAAAAGTATCCCCT
67644208 ATTTTATTATTAAAAGTATCCCCT
1 ATTTTATTATTAAAAGTATCCCCT
67644232 ATTTTGATTA
1 ATTTT-ATTA
67644242 AGCTTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 11 0.34
24 17 0.53
25 4 0.12
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (24 bp):
ATTTTATTATTAAAAGTATCCCCT
Found at i:67644785 original size:100 final size:99
Alignment explanation
Indices: 67644556--67644798 Score: 296
Period size: 100 Copynumber: 2.5 Consensus size: 99
67644546 GTAGCCAAAG
* * * * *
67644556 CTATCTGGTACGCATAGTAGCCTACACTTAGTACTACACA--TGCGCCAATTATCTGGTCCATGT
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAGCCAATTATCGGGTCCA-GT
*
67644619 AGTAACCTGCAATTAGTACTACACACGTGACCTAA
65 AGTAACCTGCAATTAGTACTACACACGCGACCTAA
* * * *
67644654 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAGCCAA-TTATCGGGT-C-CA
* * *
67644719 -TAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
63 GTAGTAACCTGCAATTAGTACTACACACGCGACCTAA
*
67644754 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
67644799 CCTCACAATA
Statistics
Matches: 124, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
98 35 0.28
100 49 0.40
101 37 0.30
102 1 0.01
103 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAGCCAATTATCGGGTCCAGTA
GTAACCTGCAATTAGTACTACACACGCGACCTAA
Found at i:67646339 original size:27 final size:27
Alignment explanation
Indices: 67646264--67646340 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
67646254 AACACACATC
* * *
67646264 ACATAGGGGCAAAACAGTCATCTTACT
1 ACATAAGGGCAAAATAGTCATTTTACT
*
67646291 ATATAAGGGCAAAATAGTCATTTTACCT
1 ACATAAGGGCAAAATAGTCATTTTA-CT
67646319 -CATAAGGGCAAAATAGTCATTT
1 ACATAAGGGCAAAATAGTCATTT
67646341 CATCAAATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (27 bp):
ACATAAGGGCAAAATAGTCATTTTACT
Found at i:67647032 original size:19 final size:22
Alignment explanation
Indices: 67646993--67647032 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
67646983 TGAAAGTTAT
67646993 AACTTACTCTATAATAAACGAC
1 AACTTACTCTATAATAAACGAC
67647015 AACTT-CTCT-TAA-AAACGA
1 AACTTACTCTATAATAAACGA
67647033 TTGAAGCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 4 0.22
22 5 0.28
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (22 bp):
AACTTACTCTATAATAAACGAC
Found at i:67648149 original size:7 final size:7
Alignment explanation
Indices: 67648121--67648168 Score: 60
Period size: 7 Copynumber: 6.6 Consensus size: 7
67648111 TAGTCCTAAA
67648121 TTTAGGG
1 TTTAGGG
*
67648128 TTTTAGGA
1 -TTTAGGG
67648136 TTTAGGG
1 TTTAGGG
67648143 TTTAGGG
1 TTTAGGG
*
67648150 TTTTAAGG
1 -TTTAGGG
67648158 TTTAGGG
1 TTTAGGG
67648165 TTTA
1 TTTA
67648169 TGAATATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 23 0.66
8 12 0.34
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:67648149 original size:22 final size:22
Alignment explanation
Indices: 67648121--67648168 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
67648111 TAGTCCTAAA
67648121 TTTAGGGTTTT-AGGATTTAGGG
1 TTTAGGGTTTTAAGG-TTTAGGG
67648143 TTTAGGGTTTTAAGGTTTAGGG
1 TTTAGGGTTTTAAGGTTTAGGG
67648165 TTTA
1 TTTA
67648169 TGAATATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (22 bp):
TTTAGGGTTTTAAGGTTTAGGG
Found at i:67648154 original size:15 final size:15
Alignment explanation
Indices: 67648121--67648167 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
67648111 TAGTCCTAAA
*
67648121 TTTAGGGTTTTA-GGA
1 TTTAGGG-TTTAGGGT
67648136 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
*
67648151 TTTAAGGTTTAGGGT
1 TTTAGGGTTTAGGGT
67648166 TT
1 TT
67648168 ATGAATATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 4 0.14
15 25 0.86
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:67648784 original size:39 final size:39
Alignment explanation
Indices: 67648741--67648840 Score: 137
Period size: 39 Copynumber: 2.6 Consensus size: 39
67648731 CATGTTTTTT
* * * *
67648741 AGTATTGTGATATATGTTTGAATGTTATGTTATTATATG
1 AGTATTGTGATATATGCTTAAATGTTATATGATTATATG
*
67648780 AGTATTGTGATATATGCTTAAATGTTGTATGATTATATG
1 AGTATTGTGATATATGCTTAAATGTTATATGATTATATG
* *
67648819 TGTAATGTGATATATGCTTAAA
1 AGTATTGTGATATATGCTTAAA
67648841 AGTGAAAATG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAATGTTATATGATTATATG
Found at i:67653387 original size:43 final size:45
Alignment explanation
Indices: 67653300--67653413 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 45
67653290 TGATTACATC
*
67653300 TAAGACCATGTCTGGGACATTGGCAT--TATATTGAGATTATGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATAATGAGATTATGTG
*
67653343 TAAGACCATGTCTGGGACATTGGCATCGT-TAAT-CGATT-TCGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATAATGAGATTAT-GTG
* * * *
67653386 TAACACCCTGTCTGGGATAGTGGCATCG
1 TAAGACCATGTCTGGGACATTGGCATCG
67653414 ATATGTGATA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
42 1 0.02
43 57 0.92
44 3 0.05
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (45 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATAATGAGATTATGTG
Found at i:67655044 original size:27 final size:27
Alignment explanation
Indices: 67654996--67655073 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
67654986 AGGGCAAAAT
* * *
67654996 AGTCATTTTACCCTCCAGGGGTATGTC
1 AGTCATTTTACACTACAAGGGTATGTC
* *
67655023 AGTCATTTTACACTACAAGGGTATTTT
1 AGTCATTTTACACTACAAGGGTATGTC
* *
67655050 AGTAATTTTACACTATAAGGGTAT
1 AGTCATTTTACACTACAAGGGTAT
67655074 TTCGATAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (27 bp):
AGTCATTTTACACTACAAGGGTATGTC
Found at i:67655074 original size:27 final size:27
Alignment explanation
Indices: 67655040--67655486 Score: 439
Period size: 27 Copynumber: 16.7 Consensus size: 27
67655030 TTACACTACA
* *
67655040 AGGGTATTTTAGTAATTTTACACTAT-A
1 AGGGTATTTTAGTAATTTTACA-AATCG
*
67655067 AGGGTA-TTTCGATAATTTTACAAATCG
1 AGGGTATTTTAG-TAATTTTACAAATCG
* * ** *
67655094 GGGGTGTTTCGGTAATATTACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
67655121 AGGGTATTTTAGTAATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
*
67655148 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* * *
67655175 AGGGT-GTTTCGATAATTTTACAAATTG
1 AGGGTATTTTAG-TAATTTTACAAATCG
* ** *
67655202 AGGGTGTTTCGGTAATTTTACAAATCA
1 AGGGTATTTTAGTAATTTTACAAATCG
* * * *
67655229 AGGGT-GTTTCGATAATTTCACAAATCA
1 AGGGTATTTTAG-TAATTTTACAAATCG
* *
67655256 AGGGTA-TTTCGATAATTTTACAAGTCG
1 AGGGTATTTTAG-TAATTTTACAAATCG
*
67655283 AGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
*
67655309 A-GGTATTTT-GATAATTTTACAAATTG
1 AGGGTATTTTAG-TAATTTTACAAATCG
* * *
67655335 -GGCGTGTTTTGGTAATTTCACAAATCG
1 AGG-GTATTTTAGTAATTTTACAAATCG
* *
67655362 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
*
67655389 AGGGTATTTTAGTAATTTCA-AAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
**
67655415 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTTAGTAATTTTACAAATCG
* *
67655442 GGGGTA-TTTCGATAATTTTACAAATCG
1 AGGGTATTTTAG-TAATTTTACAAATCG
67655469 AGGGTATTTTAGTAATTT
1 AGGGTATTTTAGTAATTT
67655487 CTCTTTATTA
Statistics
Matches: 350, Mismatches: 53, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
24 1 0.00
25 16 0.05
26 49 0.14
27 267 0.76
28 17 0.05
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTACAAATCG
Found at i:67655109 original size:54 final size:54
Alignment explanation
Indices: 67655040--67655486 Score: 487
Period size: 54 Copynumber: 8.3 Consensus size: 54
67655030 TTACACTACA
** * * *
67655040 AGGGTATTTTAGTAATTTTACACTAT-AAGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACA-AATCGAGGGTATTTCGATAATTTCACAAATCG
* * * * *
67655094 GGGGTGTTTCGGTAATATTACAAATCGAGGGTATTT-TAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTCACAAATCG
* * * *
67655148 AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAAATCG
* * * *
67655202 AGGGTGTTTCGGTAATTTTACAAATCAAGGGTGTTTCGATAATTTCACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAAATCG
* * *
67655256 AGGGTATTTCGATAATTTTACAAGTCGAGGGTATTT-TAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTCACAAATCG
* * * * * *
67655309 A-GGTATTTTGATAATTTTACAAATTG-GGCGTGTTTTGGTAATTTCACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGG-GTATTTCGATAATTTCACAAATCG
** *
67655362 AGGGTATTTCAATAATTTTACAAATCGAGGGTATTT-TAGTAATTTCA-AAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTCACAAATCG
* *
67655415 AGGGTATTTCGGTAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAAATCG
**
67655469 AGGGTATTTTAGTAATTT
1 AGGGTATTTCGGTAATTT
67655487 CTCTTTATTA
Statistics
Matches: 334, Mismatches: 47, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
51 2 0.01
52 36 0.11
53 61 0.18
54 232 0.69
55 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAAATCG
Found at i:67655125 original size:81 final size:81
Alignment explanation
Indices: 67655040--67655477 Score: 503
Period size: 81 Copynumber: 5.4 Consensus size: 81
67655030 TTACACTACA
* *
67655040 AGGGTATTTTAGTAATTTTACACTAT-AAGGGTATTTCGATAATTTTACAAATCGGGGGTGTTTC
1 AGGGTATTTTAGTAATTTTACA-AATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTC
*
67655104 GGTAATATTACAAATCG
65 GGTAATTTTACAAATCG
* * *
67655121 AGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTCG
1 AGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCG
* *
67655186 ATAATTTTACAAATTG
66 GTAATTTTACAAATCG
* ** * * * *
67655202 AGGGTGTTTCGGTAATTTTACAAATCAAGGGTGTTTCGATAATTTCACAAATCAAGGGTATTTCG
1 AGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCG
* *
67655267 ATAATTTTACAAGTCG
66 GTAATTTTACAAATCG
* * * * *
67655283 AGGGTATTTTAGTAATTTCAC-AATCGA-GGTATTTTGATAATTTTACAAATTG-GGCGTGTTTT
1 AGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGG-GTGTTTC
*
67655345 GGTAATTTCACAAATCG
65 GGTAATTTTACAAATCG
* * * * * *
67655362 AGGGTATTTCAATAATTTTACAAATCGAGGGTATTT-TAGTAATTTCA-AAATCGAGGGTATTTC
1 AGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAAATCGAGGGTGTTTC
67655425 GGTAATTTTACAAATCG
65 GGTAATTTTACAAATCG
* * *
67655442 GGGGTA-TTTCGATAATTTTACAAATCGAGGGTATTT
1 AGGGTATTTTAG-TAATTTTACAAATCAAGGGTATTT
67655478 TAGTAATTTC
Statistics
Matches: 302, Mismatches: 48, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
78 2 0.01
79 59 0.20
80 69 0.23
81 172 0.57
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCG
GTAATTTTACAAATCG
Found at i:67655838 original size:28 final size:28
Alignment explanation
Indices: 67655801--67655892 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
67655791 TGGCCCCTTT
67655801 AAGCCCAATCTCGTTCACATGGCCCATC
1 AAGCCCAATCTCGTTCACATGGCCCATC
67655829 AAGCCCAATCTCGTTCACATGGCCCATC
1 AAGCCCAATCTCGTTCACATGGCCCATC
* * * * *
67655857 AAGCCTAATCACATTCATATGGCCTATC
1 AAGCCCAATCTCGTTCACATGGCCCATC
*
67655885 AGGCCCAA
1 AAGCCCAA
67655893 CTACTTCCCA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.28, C:0.36, G:0.14, T:0.22
Consensus pattern (28 bp):
AAGCCCAATCTCGTTCACATGGCCCATC
Found at i:67658422 original size:42 final size:43
Alignment explanation
Indices: 67658361--67658467 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 43
67658351 GATTTGAGAT
*
67658361 TTACATGTAAGACCATGTCTGGGACATTCGCATC-ATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTCGCATCGATATTTGA
* * * * *
67658403 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTCGCATCGATATTTGA
*
67658446 TTACATGTAAGACCATATCTGG
1 TTACATGTAAGACCATGTCTGG
67658468 ACGATGGCAT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTCGCATCGATATTTGA
Found at i:67658594 original size:32 final size:32
Alignment explanation
Indices: 67658553--67658616 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
67658543 GAAATACATG
67658553 ATTGAATGAATGAATAACCGATTCAAGTATGT
1 ATTGAATGAATGAATAACCGATTCAAGTATGT
*
67658585 ATTGAATGAATGAATAATCGATTCAAGTATGT
1 ATTGAATGAATGAATAACCGATTCAAGTATGT
67658617 GGAGATGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.33
Consensus pattern (32 bp):
ATTGAATGAATGAATAACCGATTCAAGTATGT
Found at i:67674768 original size:16 final size:16
Alignment explanation
Indices: 67674747--67674778 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
67674737 AATGGGTTTA
67674747 CAAAAACAAAAATTTT
1 CAAAAACAAAAATTTT
*
67674763 CAAAAACGAAAATTTT
1 CAAAAACAAAAATTTT
67674779 ATAAAGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
CAAAAACAAAAATTTT
Found at i:67677705 original size:26 final size:26
Alignment explanation
Indices: 67677669--67677917 Score: 498
Period size: 26 Copynumber: 9.6 Consensus size: 26
67677659 GGATTTGCCT
67677669 AATGTTTCATGATAATGGGTTAGGTA
1 AATGTTTCATGATAATGGGTTAGGTA
67677695 AATGTTTCATGATAATGGGTTAGGTA
1 AATGTTTCATGATAATGGGTTAGGTA
67677721 AATGTTTCATGATAATGGGTTAGGTA
1 AATGTTTCATGATAATGGGTTAGGTA
67677747 AATGTTTCATGATAATGGGTTAGGTA
1 AATGTTTCATGATAATGGGTTAGGTA
67677773 AATGTTTCATGATAATGGGTTAGGTA
1 AATGTTTCATGATAATGGGTTAGGTA
67677799 AATGTTTCATGATAATGGGTTAGGTA
1 AATGTTTCATGATAATGGGTTAGGTA
67677825 AATGTTTCATGATAATGGGTTAGGTA
1 AATGTTTCATGATAATGGGTTAGGTA
67677851 AATGTTTCATGATAATGGGTTAGGTA
1 AATGTTTCATGATAATGGGTTAGGTA
67677877 AATGTTTCATGATAATGGGTTAGGTA
1 AATGTTTCATGATAATGGGTTAGGTA
67677903 AATGTTTCATGATAA
1 AATGTTTCATGATAA
67677918 GAATATCATG
Statistics
Matches: 223, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 223 1.00
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.39
Consensus pattern (26 bp):
AATGTTTCATGATAATGGGTTAGGTA
Found at i:67689781 original size:29 final size:29
Alignment explanation
Indices: 67689748--67689805 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
67689738 ATAACCAAAC
*
67689748 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
67689777 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
67689806 GTTTGAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:67689800 original size:15 final size:15
Alignment explanation
Indices: 67689754--67689801 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
67689744 AAACCTACAA
*
67689754 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
67689769 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
67689783 AAACTTCATATCCAT
1 AAACTTCATATCCAT
67689798 AAAC
1 AAAC
67689802 CCATGTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:67690229 original size:30 final size:30
Alignment explanation
Indices: 67690143--67690230 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
67690133 CTAACTCACT
* *
67690143 TTCAACTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAAGCTTAGCTCAAC
* * ** *
67690173 TTCAGCTTAGGAG-TTTAGCCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAAG-CTTAGCTCAAC
*
67690203 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAAGCTTAGCTCA
67690231 TTTTAGTTTA
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 38 0.88
31 3 0.07
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAAGCTTAGCTCAAC
Found at i:67691998 original size:12 final size:12
Alignment explanation
Indices: 67691975--67692024 Score: 64
Period size: 12 Copynumber: 3.9 Consensus size: 12
67691965 GTTATACAAG
67691975 TCAAACAAAAAAT
1 TCAAA-AAAAAAT
67691988 TCAAAAAAAAAT
1 TCAAAAAAAAAT
*
67692000 TCAAAAAAAATT
1 TCAAAAAAAAAT
67692012 TCGAAAAGAAAAA
1 TC-AAAA-AAAAA
67692025 AAATCTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 20 0.61
13 9 0.27
14 4 0.12
ACGTcount: A:0.70, C:0.10, G:0.04, T:0.16
Consensus pattern (12 bp):
TCAAAAAAAAAT
Found at i:67692034 original size:17 final size:17
Alignment explanation
Indices: 67692002--67692041 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
67691992 AAAAAAATTC
*
67692002 AAAAAAAATTTCGAAAA
1 AAAAAAAATCTCGAAAA
67692019 GAAAAAAAATCT-GAAAA
1 -AAAAAAAATCTCGAAAA
67692036 AAAAAA
1 AAAAAA
67692042 GTGTTTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 5 0.24
18 10 0.48
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAAAAAATCTCGAAAA
Found at i:67692960 original size:9 final size:10
Alignment explanation
Indices: 67692953--67693009 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
67692943 AAGAGAAAAT
67692953 AAAGAAAAGA
1 AAAGAAAAGA
67692963 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
67692975 AAAGAAGA-A
1 AAAGAAAAGA
67692984 AAAGAAAATGA
1 AAAGAAAA-GA
67692995 AATA-AAAAGA
1 AA-AGAAAAGA
67693005 AAAGA
1 AAAGA
67693010 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:67692977 original size:6 final size:5
Alignment explanation
Indices: 67692953--67693009 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
67692943 AAGAGAAAAT
*
67692953 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
67693000 AAAGA AAAGA
1 AAAGA AAAGA
67693010 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:67692984 original size:15 final size:14
Alignment explanation
Indices: 67692953--67693009 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
67692943 AAGAGAAAAT
67692953 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
67692969 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
67692984 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
67693000 AAAGAAAAGA
1 AAAGAAAAGA
67693010 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:67693089 original size:11 final size:12
Alignment explanation
Indices: 67693057--67693087 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
67693047 TTGAGAGAAC
67693057 TTGAAAAAGCCT
1 TTGAAAAAGCCT
67693069 TTGAAAAAGCCT
1 TTGAAAAAGCCT
67693081 TTGAAAA
1 TTGAAAA
67693088 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:67693098 original size:12 final size:12
Alignment explanation
Indices: 67693090--67693114 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67693080 TTTGAAAAGC
67693090 AAAAAGAAAATG
1 AAAAAGAAAATG
67693102 AAAAAGAAAATG
1 AAAAAGAAAATG
67693114 A
1 A
67693115 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:67693111 original size:18 final size:18
Alignment explanation
Indices: 67693084--67693139 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
67693074 AAAGCCTTTG
67693084 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
67693103 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
67693121 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
67693138 AA
1 AA
67693140 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:67693124 original size:30 final size:31
Alignment explanation
Indices: 67693090--67693171 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
67693080 TTTGAAAAGC
*
67693090 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
67693120 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
67693150 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
67693172 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:67697059 original size:21 final size:20
Alignment explanation
Indices: 67697033--67697072 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
67697023 TGAAATGTGT
67697033 GAATAT-ATATAAGCTATGGCC
1 GAATATGAT-TAAGCT-TGGCC
67697054 GAATATGATTAAGCTTGGC
1 GAATATGATTAAGCTTGGC
67697073 TATTATATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
GAATATGATTAAGCTTGGCC
Found at i:67702126 original size:29 final size:29
Alignment explanation
Indices: 67702067--67702126 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
67702057 ATAACCAAAC
* * *
67702067 CTACAAAAACTTTATATCCATAAATCGAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
67702096 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
67702125 CT
1 CT
67702127 TTGAATCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:67702367 original size:17 final size:17
Alignment explanation
Indices: 67702342--67702375 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
67702332 AGTAAGTTTC
67702342 AAAAAAAAAT-TGAAAA
1 AAAAAAAAATCTGAAAA
67702358 AAAAACAAAATCTGAAAA
1 AAAAA-AAAATCTGAAAA
67702376 TTTGAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAAAAATCTGAAAA
Found at i:67703009 original size:21 final size:21
Alignment explanation
Indices: 67702984--67703034 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
67702974 AAGACGAAGA
*
67702984 GATCAAGATGATGTTGTAAA-T
1 GATCAAGATGATCTTG-AAAGT
67703005 GATCATAG-TGATCTTGAAAGT
1 GATCA-AGATGATCTTGAAAGT
*
67703026 GGTCAAGAT
1 GATCAAGAT
67703035 TCGAATGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.20
21 18 0.72
22 2 0.08
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (21 bp):
GATCAAGATGATCTTGAAAGT
Found at i:67704356 original size:29 final size:29
Alignment explanation
Indices: 67704323--67704381 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
67704313 CGGCGAGTGC
*
67704323 TACACGACTGGTATACCAATCGGTATATT
1 TACACGACGGGTATACCAATCGGTATATT
67704352 TACACGACGGGTATACCAATCGGTATATT
1 TACACGACGGGTATACCAATCGGTATATT
67704381 T
1 T
67704382 TCAAGTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (29 bp):
TACACGACGGGTATACCAATCGGTATATT
Found at i:67709520 original size:34 final size:34
Alignment explanation
Indices: 67709482--67709549 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
67709472 AATTGACAAT
67709482 GTGATAGCATTTGAGAATGGTTTAATAAATGAAC
1 GTGATAGCATTTGAGAATGGTTTAATAAATGAAC
67709516 GTGATAGCATTTGAGAATGGTTTAATAAATGAAC
1 GTGATAGCATTTGAGAATGGTTTAATAAATGAAC
67709550 TCAGTTGCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (34 bp):
GTGATAGCATTTGAGAATGGTTTAATAAATGAAC
Found at i:67726695 original size:27 final size:27
Alignment explanation
Indices: 67726591--67726693 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
67726581 ATACATATAT
67726591 CATATAAGGGCAAAACAGTCATCCTAC
1 CATATAAGGGCAAAACAGTCATCCTAC
67726618 CATATAAGGGCAAAACAGTCATCCTAC
1 CATATAAGGGCAAAACAGTCATCCTAC
* **
67726645 CATATAAGGGCAAAATAGTCATTTTAC
1 CATATAAGGGCAAAACAGTCATCCTAC
* * *
67726672 CACATAAGGGTAAAACATTCAT
1 CATATAAGGGCAAAACAGTCAT
67726694 TTCATAAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (27 bp):
CATATAAGGGCAAAACAGTCATCCTAC
Found at i:67732649 original size:43 final size:42
Alignment explanation
Indices: 67732588--67732766 Score: 191
Period size: 43 Copynumber: 4.2 Consensus size: 42
67732578 GATTAACGAG
* * *
67732588 ATGTGATTATGTGTAAGACCATGGCTGGGACATTGGAATCATT
1 ATGTGATT-TGTGTAAGACCATGTCTAGGACATTGGCATCATT
*
67732631 ATGTGATTATGTGTAAGACCATGTCTAGGACATTTGCATCATT
1 ATGTGATT-TGTGTAAGACCATGTCTAGGACATTGGCATCATT
* * *
67732674 ATTTGATTTCTAGTAAGACCATGTCTAGGACATTGGCATCGTT
1 ATGTGATTTGT-GTAAGACCATGTCTAGGACATTGGCATCATT
* * * *
67732717 ATTTGATTTCGAGTAAGACCATAG-CTAGG-CTTTCGGCATCAAT
1 ATGTGATTT-GTGTAAGACCAT-GTCTAGGACATT-GGCATCATT
67732760 ATGTGAT
1 ATGTGAT
67732767 AACATGTAAG
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
42 5 0.04
43 112 0.95
44 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (42 bp):
ATGTGATTTGTGTAAGACCATGTCTAGGACATTGGCATCATT
Found at i:67733105 original size:68 final size:68
Alignment explanation
Indices: 67733021--67733155 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 68
67733011 CATTGTTTTC
67733021 CTATTGATGGAAATGATGTTGATTCATGTGGTAATTTTATTTGTATATGGCTTACTAAGCTTTTA
1 CTATTGATGGAAATGATGTTGATTCATGTGGTAATTTTATTTGTATATGGCTTACTAAGCTTTTA
67733086 AAG
66 AAG
*
67733089 CTATTGATGGAAATGATGTTGATTCATTTGGTAATTTTATTTGTATATGGCTTACTAAGCTTTTA
1 CTATTGATGGAAATGATGTTGATTCATGTGGTAATTTTATTTGTATATGGCTTACTAAGCTTTTA
67733154 AA
66 AA
67733156 CTTACTTTGT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.45
Consensus pattern (68 bp):
CTATTGATGGAAATGATGTTGATTCATGTGGTAATTTTATTTGTATATGGCTTACTAAGCTTTTA
AAG
Found at i:67740815 original size:44 final size:42
Alignment explanation
Indices: 67740737--67740880 Score: 123
Period size: 42 Copynumber: 3.4 Consensus size: 42
67740727 CGATATGTGT
* * * *
67740737 TTTCGAGTAAGACCATGTATGGGACGTTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCATGTATGGGACATCGACATCGTA-TT-TGA
* *
67740780 TTTATGTGTAAGACCATGTTTGGGACATCGACATCGTATTTGA
1 TTT-CGTGTAAGACCATGTATGGGACATCGACATCGTATTTGA
* * *
67740823 TTTCGTGTAAGACCTTGTCTGGGACAGT-GGCATCGATATTTG-
1 TTTCGTGTAAGACCATGTATGGGACA-TCGACATCG-TATTTGA
*
67740865 TTTACATGTAAGACCA
1 TTT-CGTGTAAGACCA
67740881 CATCTAGGAC
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
42 29 0.35
43 26 0.31
44 28 0.33
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTATGGGACATCGACATCGTATTTGA
Found at i:67740846 original size:42 final size:43
Alignment explanation
Indices: 67740727--67740880 Score: 129
Period size: 43 Copynumber: 3.6 Consensus size: 43
67740717 ACATGGGATC
* * * * *
67740727 CGATATGTGTTTTCGAGTAAGACCATGTATGGGAC-GTTGGCAT
1 CGATATTTGTTTACGTGTAAGACCATGTCTGGGACAG-TGACAT
* * *
67740770 CGACT-TATGATTTATGTGTAAGACCATGTTTGGGACA-TCGACAT
1 CGA-TATTTG-TTTACGTGTAAGACCATGTCTGGGACAGT-GACAT
* *
67740814 CG-TATTTGATTT-CGTGTAAGACCTTGTCTGGGACAGTGGCAT
1 CGATATTTG-TTTACGTGTAAGACCATGTCTGGGACAGTGACAT
*
67740856 CGATATTTGTTTACATGTAAGACCA
1 CGATATTTGTTTACGTGTAAGACCA
67740881 CATCTAGGAC
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
42 30 0.33
43 31 0.34
44 29 0.32
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
CGATATTTGTTTACGTGTAAGACCATGTCTGGGACAGTGACAT
Found at i:67744976 original size:47 final size:47
Alignment explanation
Indices: 67744898--67745252 Score: 539
Period size: 47 Copynumber: 7.4 Consensus size: 47
67744888 CCCTTCGGGA
* * * * * *
67744898 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
67744945 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67744992 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67745039 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67745086 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67745135 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
67745184 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
67745233 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
67745253 GTACATCAAT
Statistics
Matches: 291, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 150 0.52
49 141 0.48
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:67745119 original size:49 final size:49
Alignment explanation
Indices: 67744898--67745250 Score: 551
Period size: 49 Copynumber: 7.4 Consensus size: 49
67744888 CCCTTCGGGA
* * * * *
67744898 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
67744945 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67744992 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67745039 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67745086 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
67745135 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
67745184 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
67745233 CCTATCACATATATATAC
1 CTTATCACATATATATAC
67745251 TTGTACATCA
Statistics
Matches: 289, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 137 0.47
49 151 0.52
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:67753596 original size:56 final size:56
Alignment explanation
Indices: 67753529--67753760 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
67753519 TATTAGTTTA
* *
67753529 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
67753585 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
67753641 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
67753697 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
67753753 TTGCCCAT
1 TTGCCCAT
67753761 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:67767439 original size:51 final size:51
Alignment explanation
Indices: 67767379--67767511 Score: 239
Period size: 51 Copynumber: 2.6 Consensus size: 51
67767369 CCTAAGGCCC
* *
67767379 TAAAAAGACATTAGATATGATGATAACTATCGATATTGGTGATGTTCCCGA
1 TAAAAAGACATTAGAAATGATGATAGCTATCGATATTGGTGATGTTCCCGA
*
67767430 TAAAAAGACATTAGAAATGATGATAGCTATCGATATTGGTGATGTTCCCTA
1 TAAAAAGACATTAGAAATGATGATAGCTATCGATATTGGTGATGTTCCCGA
67767481 TAAAAAGACATTAGAAATGATGATAGCTATC
1 TAAAAAGACATTAGAAATGATGATAGCTATC
67767512 AAGCAAAACC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 79 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (51 bp):
TAAAAAGACATTAGAAATGATGATAGCTATCGATATTGGTGATGTTCCCGA
Found at i:67801745 original size:46 final size:47
Alignment explanation
Indices: 67801637--67801817 Score: 174
Period size: 47 Copynumber: 3.9 Consensus size: 47
67801627 CAGCCACTTT
* * *
67801637 ATGAGAGCCAGTATAAGACCATGTCTAGGACATGGCATCGGCATT-GAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--TTCGAG
** * * *
67801685 ACAAGATCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTACGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTT-CGAG
* * *
67801731 ATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGATTTGAG
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTTCGAG
* *
67801778 AT-ATGAGCCAATGTAAGACCATGT-TTGGACATGGCATCGG
1 ATGAT-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
67801818 CACCGTACCC
Statistics
Matches: 110, Mismatches: 18, Indels: 12
0.79 0.13 0.09
Matches are distributed among these distances:
44 2 0.02
46 38 0.35
47 49 0.45
48 21 0.19
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (47 bp):
ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTTCGAG
Found at i:67801762 original size:94 final size:94
Alignment explanation
Indices: 67801598--67801770 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
67801588 TGTTTGGGGG
***
67801598 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACTTTATGAGAGCCAGTATAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCCAGTATAAGACCATGTCT
67801663 AGGACATGGCATCGGCATTGAGACAAGAT
66 AGGACATGGCATCGGCATTGAGACAAGAT
* ** * * *
67801692 CTAGTGTAAGACATGTCTGGGACATGCATCGGTTACGAGATGATAGTCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCCAGTATAAGACCATGTCT
*
67801757 GGGACATGGCATCG
66 AGGACATGGCATCG
67801771 ATTTGAGATA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCCAGTATAAGACCATGTCT
AGGACATGGCATCGGCATTGAGACAAGAT
Found at i:67801801 original size:94 final size:94
Alignment explanation
Indices: 67801602--67801818 Score: 242
Period size: 94 Copynumber: 2.3 Consensus size: 94
67801592 TGGGGGCTAG
* ***
67801602 TGTAAGACATGTCTGGGACATGCATCAGCCACTTTATGAGAGCCAGTATAAGACCATGTCTAGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCCAGTATAAGACCATGTCTAGGA
* * *
67801667 CATGGCATCGGCATTGAGACAAGATCTAG
66 CATGGCATCGGCATTGAGACAAGAGCCAA
** * * * *
67801696 TGTAAGACATGTCTGGGACATGCATCGGTTACGAGATGATAGTCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCCAGTATAAGACCATGTCTAGGA
* *
67801761 CATGGCATC-G-ATTTGAGATATGAGCCAA
66 CATGGCATCGGCA-TTGAGACAAGAGCCAA
*
67801789 TGTAAGACCATGT-TTGGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
67801819 ACCGTACCCA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
92 1 0.01
93 26 0.25
94 76 0.74
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (94 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCCAGTATAAGACCATGTCTAGGA
CATGGCATCGGCATTGAGACAAGAGCCAA
Found at i:67810742 original size:47 final size:47
Alignment explanation
Indices: 67810633--67810894 Score: 265
Period size: 46 Copynumber: 5.6 Consensus size: 47
67810623 TTTGTGGGCT
* *
67810633 AGTGTAA-AACATGTCTGGGACATGCATCGGACA-C-AGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CATCGAGACGAGAGCC
* * *
67810678 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCC
*
67810726 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACG-AGAGCC
* * * * *
67810772 AATGTAAGA-CATGTTTGGGACATGCATCGGC-TACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCAT-CGAGACGAGAGCC
* *
67810818 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ATTTGAGA-TACGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCA-TCGAGACGA-GAGCC
67810865 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC
67810895 CGCACCTTAC
Statistics
Matches: 186, Mismatches: 19, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
45 9 0.05
46 81 0.44
47 72 0.39
48 24 0.13
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACGAGAGCC
Found at i:67810791 original size:93 final size:92
Alignment explanation
Indices: 67810630--67810894 Score: 263
Period size: 93 Copynumber: 2.8 Consensus size: 92
67810620 TTGTTTGTGG
* * *
67810630 GCTAGTGTAAAACATGTCTGGGACATGCATCGGACACAGATGAGAGCCAGTGTAAGACCATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACACAGACGAGAGCCAATGTAAGACCATGTCT
*
67810695 GGGACATGGCATCAGC-ATTGAGACGAGA
66 GGGACAT-GCATCAGCTA-CGAGACGAGA
* *
67810723 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCCAATGTAAGA-CATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACAC-AGACG-AGAGCCAATGTAAGACCATGT
* * * *
67810786 TTGGGACATGCATCGGCTACGAGATGATA
64 CTGGGACATGCATCAGCTACGAGACGAGA
*** * *
67810815 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GATTTGAGA-TACGAGCCAGTGTAAGACCA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGA-CACAGACGA-GAGCCAATGTAAGACCA
67810877 TGTCTGGGACATGGCATC
61 TGTCTGGGACAT-GCATC
67810895 CGCACCTTAC
Statistics
Matches: 145, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
91 2 0.01
92 24 0.17
93 78 0.54
94 35 0.24
95 6 0.04
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.22
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGACACAGACGAGAGCCAATGTAAGACCATGTCT
GGGACATGCATCAGCTACGAGACGAGA
Found at i:67818422 original size:43 final size:42
Alignment explanation
Indices: 67818334--67818455 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
67818324 TACTGTACCA
**
67818334 ATGCCATATCTCAGATATGGTCTTACATGTAA-TCTTGCATCG
1 ATGCCATATCTCAGATATGGTCTTACATG-AAGTCTCACATCG
* * * *
67818376 ATGCCAATAGCTCAGCTATGGTCTTACATGAAGTCTCATATTG
1 ATGCC-ATATCTCAGATATGGTCTTACATGAAGTCTCACATCG
* * * *
67818419 ATGCCATATCCCAGATATGGTTTTACACGTAGTCTCA
1 ATGCCATATCTCAGATATGGTCTTACATGAAGTCTCA
67818456 GTAACCCTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (42 bp):
ATGCCATATCTCAGATATGGTCTTACATGAAGTCTCACATCG
Found at i:67818453 original size:42 final size:42
Alignment explanation
Indices: 67818334--67818455 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
67818324 TACTGTACCA
* **
67818334 ATGCCATATCTCAGATATGGTCTTACATGTAATCTTGCATCG
1 ATGCCATATCTCAGATATGGTCTTACATGTAGTCTCACATCG
* * * * *
67818376 ATGCCAATAGCTCAGCTATGGTCTTACATGAAGTCTCATATTG
1 ATGCC-ATATCTCAGATATGGTCTTACATGTAGTCTCACATCG
* * *
67818419 ATGCCATATCCCAGATATGGTTTTACACGTAGTCTCA
1 ATGCCATATCTCAGATATGGTCTTACATGTAGTCTCA
67818456 GTAACCCTAA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (42 bp):
ATGCCATATCTCAGATATGGTCTTACATGTAGTCTCACATCG
Found at i:67819037 original size:290 final size:290
Alignment explanation
Indices: 67818510--67819039 Score: 909
Period size: 290 Copynumber: 1.8 Consensus size: 290
67818500 TTCAACCGGG
* *
67818510 ATTTCATGCTTGTTAAAAATTTGCCGAATACGTCCAAGGGTCAATCACAATTCATACAATAATAA
1 ATTTCACGCTTGTTAAAAATTTGCCGAATACATCCAAGGGTCAATCACAATTCATACAATAATAA
* *
67818575 AGCATTTAAAACATAATTAAAAAAATGTATTATTTACATATGAACTTACCTCGGTACAAAAATAG
66 AGCATTTAAAACATAATTAAAAAAATGCATTATTTACATACGAACTTACCTCGGTACAAAAATAG
* *
67818640 TAGAAATGAGAACTAATTGTCAAACATTTTGTTTTTCCCCTGATCTAGGTCCAAAACTCATTTTT
131 TAGAAATGAGAACTAATTGTCAAACACTTTGTTTTTCCCCTGATCTAGGTCCAAAACTCATTTCT
67818705 CTTGATCTATAATAACAAATTTAACTCATTTAATATTCACATTTTTCAATTCAGCCCAAAAATTA
196 CTTGATCTATAATAACAAATTTAACTCATTTAATATTCACATTTTTCAATTCAGCCCAAAAATTA
67818770 CACTATGGCAAAAATTACATTTTTCCCAGA
261 CACTATGGCAAAAATTACATTTTTCCCAGA
* * *
67818800 ATTTCACGCTTGTTGAAACTTTGTCGAATACATCCAAGGGTCAATCACAATTCATACAATAATAA
1 ATTTCACGCTTGTTAAAAATTTGCCGAATACATCCAAGGGTCAATCACAATTCATACAATAATAA
* *
67818865 AGCATTTAAAACATAATTAAAACAATGCATTATTTACATACGAACTTGCCTCGGTACAAAAATAG
66 AGCATTTAAAACATAATTAAAAAAATGCATTATTTACATACGAACTTACCTCGGTACAAAAATAG
* * * *
67818930 TAGAAATGGGACCTAATTGTCAAACACTTTGTTTTTACCCC-GATCTAGGTCCAAACCTCGTTTC
131 TAGAAATGAGAACTAATTGTCAAACACTTTGTTTTT-CCCCTGATCTAGGTCCAAAACTCATTTC
67818994 TCTTGATCTATAATAACAAATTTAACTCATTTAATATTCACATTTT
195 TCTTGATCTATAATAACAAATTTAACTCATTTAATATTCACATTTT
67819040 ACACTTTGGT
Statistics
Matches: 224, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
290 220 0.98
291 4 0.02
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (290 bp):
ATTTCACGCTTGTTAAAAATTTGCCGAATACATCCAAGGGTCAATCACAATTCATACAATAATAA
AGCATTTAAAACATAATTAAAAAAATGCATTATTTACATACGAACTTACCTCGGTACAAAAATAG
TAGAAATGAGAACTAATTGTCAAACACTTTGTTTTTCCCCTGATCTAGGTCCAAAACTCATTTCT
CTTGATCTATAATAACAAATTTAACTCATTTAATATTCACATTTTTCAATTCAGCCCAAAAATTA
CACTATGGCAAAAATTACATTTTTCCCAGA
Found at i:67820429 original size:29 final size:31
Alignment explanation
Indices: 67820380--67820438 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
67820370 AATATGTATC
* *
67820380 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
67820409 TATTTATTCTAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
67820439 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:67824176 original size:47 final size:47
Alignment explanation
Indices: 67824107--67824198 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
67824097 GGGTGTTACA
* *
67824107 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
67824154 GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
67824199 ATGCTTTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
Found at i:67827618 original size:24 final size:24
Alignment explanation
Indices: 67827586--67827631 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
67827576 AGAGAATGGA
* *
67827586 AATAAAAAAGAGAAAAGTTAAAAG
1 AATAAAAAAGAAAAAAATTAAAAG
*
67827610 AATATAAAAGAAAAAAATTAAA
1 AATAAAAAAGAAAAAAATTAAA
67827632 TTACTCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (24 bp):
AATAAAAAAGAAAAAAATTAAAAG
Found at i:67828249 original size:16 final size:15
Alignment explanation
Indices: 67828228--67828265 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
67828218 TCTTGGATTC
67828228 TTTTTTTATCTTTTTA
1 TTTTTTTAT-TTTTTA
67828244 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
67828259 TTTTTTT
1 TTTTTTT
67828266 CTGGTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:67828255 original size:6 final size:7
Alignment explanation
Indices: 67828229--67828264 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
67828219 CTTGGATTCT
67828229 TTTTTTA
1 TTTTTTA
67828236 TCTTTTTA
1 T-TTTTTA
67828244 TTTTTTTA
1 -TTTTTTA
67828252 TTTTTTA
1 TTTTTTA
67828259 TTTTTT
1 TTTTTT
67828265 TCTGGTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.52
8 12 0.44
9 1 0.04
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:67828265 original size:8 final size:8
Alignment explanation
Indices: 67828228--67828265 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
67828218 TCTTGGATTC
67828228 TTTTTTTA
1 TTTTTTTA
*
67828236 TCTTTTTA
1 TTTTTTTA
67828244 TTTTTTTA
1 TTTTTTTA
67828252 -TTTTTTA
1 TTTTTTTA
67828259 TTTTTTT
1 TTTTTTT
67828266 CTGGTTTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:67852561 original size:24 final size:24
Alignment explanation
Indices: 67852533--67852593 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
67852523 AACCGTATTT
* * *
67852533 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
67852557 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
67852581 GCACACATAGTGC
1 GCACACATAGTGC
67852594 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:67854580 original size:27 final size:27
Alignment explanation
Indices: 67854526--67854580 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
67854516 CGTAAGGAAG
* *
67854526 GAATAGCCTTTGTGGAAAACTATGAAA
1 GAATAGCCTTCGTGGAAAACTATAAAA
* *
67854553 GAATAGCCTTCGTGGCAAACTTTAAAA
1 GAATAGCCTTCGTGGAAAACTATAAAA
67854580 G
1 G
67854581 GAATCCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (27 bp):
GAATAGCCTTCGTGGAAAACTATAAAA
Found at i:67858166 original size:40 final size:40
Alignment explanation
Indices: 67858101--67858257 Score: 196
Period size: 40 Copynumber: 4.0 Consensus size: 40
67858091 AAATATAGAN
* * *
67858101 CATTTGTGTGAGTTA-TACATCCGGGCTAAGTCCTGAAGG
1 CATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
*
67858140 CATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGG
1 CATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
* *
67858180 CATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGG
1 CATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
* * *
67858220 CA-TTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
67858258 TACTTGGCTT
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
38 15 0.14
39 28 0.27
40 61 0.59
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
Found at i:67858241 original size:79 final size:78
Alignment explanation
Indices: 67858101--67858257 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 78
67858091 AAATATAGAN
* * * *
67858101 CATTTGTGTGAGTTATACATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGCTACTATATCCGGG
1 CATTGGTGCGAGTTATACATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATATCC-GG
*
67858166 CTAAGTCCCGAAGG
65 CTAAATCCCGAAGG
* *
67858180 CATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCCG
1 CATTGGTGCGAGTTA-TACATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTA-CTATATCCG
*
67858243 GTTAAATCCCGAAGG
64 GCTAAATCCCGAAGG
67858258 TACTTGGCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 16 0.24
79 29 0.43
80 23 0.34
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (78 bp):
CATTGGTGCGAGTTATACATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATATCCGGC
TAAATCCCGAAGG
Found at i:67863119 original size:40 final size:40
Alignment explanation
Indices: 67863023--67863204 Score: 249
Period size: 40 Copynumber: 4.6 Consensus size: 40
67863013 CGGATGATAA
* * **
67863023 CCGGGCTAAGTCCCGAAGGCATTTGCGC-AGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
67863062 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
67863102 CTGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
67863142 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
*
67863182 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
67863205 GAGTGAGTAG
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 26 0.20
40 101 0.80
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:67871095 original size:40 final size:40
Alignment explanation
Indices: 67870872--67871128 Score: 324
Period size: 40 Copynumber: 6.5 Consensus size: 40
67870862 CGGATGATAA
* * *
67870872 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
67870912 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
67870952 CTGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
67870992 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
67871032 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
67871072 CCGGGCTATGTCCCGAAGGCA-TTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
67871111 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
67871129 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
38 15 0.08
39 14 0.07
40 165 0.85
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:67873739 original size:28 final size:28
Alignment explanation
Indices: 67873686--67873739 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
67873676 CATATAAATT
* * **
67873686 TTATTATAAAATTTAAATATTTATTAAA
1 TTATTATAAAACTCAAATATACATTAAA
67873714 TTATTATAAAACTCAAATATACATTA
1 TTATTATAAAACTCAAATATACATTA
67873740 TATAATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (28 bp):
TTATTATAAAACTCAAATATACATTAAA
Found at i:67874598 original size:28 final size:28
Alignment explanation
Indices: 67874558--67874619 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
67874548 TTTTCCTCGT
*
67874558 CAGAAGAGGTTGCATTATAAAACCCAAA
1 CAGATGAGGTTGCATTATAAAACCCAAA
67874586 CAGATGAGGTTGCATTATAAAACCCAAA
1 CAGATGAGGTTGCATTATAAAACCCAAA
67874614 CAGATG
1 CAGATG
67874620 TATGAAGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (28 bp):
CAGATGAGGTTGCATTATAAAACCCAAA
Found at i:67880505 original size:29 final size:29
Alignment explanation
Indices: 67880463--67880520 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
67880453 GTATTACAAC
67880463 AATCACTTGGTCCCTAGAAAAAGAGTTTT
1 AATCACTTGGTCCCTAGAAAAAGAGTTTT
67880492 AATCACTTGGTCCCTAGAAAAAGAGTTTT
1 AATCACTTGGTCCCTAGAAAAAGAGTTTT
67880521 CCATCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (29 bp):
AATCACTTGGTCCCTAGAAAAAGAGTTTT
Found at i:67886223 original size:27 final size:27
Alignment explanation
Indices: 67886193--67886370 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
67886183 ATATTGAGTC
* * * *
67886193 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
67886220 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
67886247 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
67886275 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
67886302 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
67886329 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
67886356 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
67886371 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:67886332 original size:82 final size:81
Alignment explanation
Indices: 67886214--67886369 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
67886204 TGCTATATAA
* *
67886214 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
67886279 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
67886296 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
67886360 CACTTAGTGC
65 CACTTAGTGC
67886370 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:67893566 original size:254 final size:255
Alignment explanation
Indices: 67893116--67893629 Score: 985
Period size: 254 Copynumber: 2.0 Consensus size: 255
67893106 TTTTAAAAAT
* * *
67893116 CATATCTTGAGTTTTGTAACTCGAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGGCTCATGTG
1 CATATCTTGAGTTTCGTAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGACTCATGTG
*
67893181 CTCATCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGT
66 CCCATCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGT
67893246 CTCCCAAGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGCCTTGGATATCTCCCTGCAC
131 CTCCCAAGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGCCTTGGATATCTCCCTGCAC
67893311 GGGGCTTCAATACTGATGTCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTGTA
196 GGGGCTTCAATACTGATGTCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTGTA
67893371 -ATATCTTGAGTTTCGTAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGACTCATGTG
1 CATATCTTGAGTTTCGTAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGACTCATGTG
67893435 CCCATCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGT
66 CCCATCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGT
67893500 CTCCCAAGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGCCTTGGATATCTCCCTGCAC
131 CTCCCAAGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGCCTTGGATATCTCCCTGCAC
67893565 GGGGCTTCAATACTGATGTCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTGTA
196 GGGGCTTCAATACTGATGTCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTGTA
67893625 CATAT
1 CATAT
67893630 ATGGTACGAC
Statistics
Matches: 254, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
254 250 0.98
255 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (255 bp):
CATATCTTGAGTTTCGTAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGACTCATGTG
CCCATCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGT
CTCCCAAGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGCCTTGGATATCTCCCTGCAC
GGGGCTTCAATACTGATGTCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTGTA
Done.