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 106 of 297
Found at i:38044691 original size:40 final size:40
Alignment explanation
Indices: 38044634--38044749 Score: 164
Period size: 40 Copynumber: 2.9 Consensus size: 40
38044624 TCGAATGATG
38044634 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACCATA
* * *
38044674 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACTATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACCATA
*
38044714 TCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
38044750 GATCATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
39 1 0.01
40 57 0.85
41 9 0.13
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATA
Found at i:38045502 original size:36 final size:36
Alignment explanation
Indices: 38045455--38045525 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
38045445 GACAGTGACG
*
38045455 CAGTTAGCCAGCTTGCC-GGAAATTTTTAAAATGGAC
1 CAGTTAGCCAGCTTGCCTGGAAA-ATTTAAAATGGAC
38045491 CAGTTAGCCAGCTTGCCTGGAAAATTTAAAATGGA
1 CAGTTAGCCAGCTTGCCTGGAAAATTTAAAATGGA
38045526 TTGTGCAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 28 0.85
37 5 0.15
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (36 bp):
CAGTTAGCCAGCTTGCCTGGAAAATTTAAAATGGAC
Found at i:38048683 original size:32 final size:32
Alignment explanation
Indices: 38048642--38048706 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
38048632 CTCGAACTAG
38048642 CTGCCATCGTATTCGCTTTAAAAATATGGCGA
1 CTGCCATCGTATTCGCTTTAAAAATATGGCGA
* *
38048674 CTGCCATCGTGTTTGCTTTAAAAATATGGCGA
1 CTGCCATCGTATTCGCTTTAAAAATATGGCGA
38048706 C
1 C
38048707 ATTATCTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (32 bp):
CTGCCATCGTATTCGCTTTAAAAATATGGCGA
Found at i:38053345 original size:40 final size:40
Alignment explanation
Indices: 38053237--38053367 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
38053227 TCTTCGGAAT
* * *
38053237 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAACCACTAGCACAAATGCCTTCGGGTC
* * * * * *
38053276 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAACCACTAGCACAAATGCCTTCGGGTC
* * *
38053316 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAACCACTAGCACAAATGCCTTCGGGTC
38053356 TTAGCCCGGATA
1 TTAGCCCGGATA
38053368 TCATTCAAAT
Statistics
Matches: 75, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAACCACTAGCACAAATGCCTTCGGGTC
Found at i:38054063 original size:200 final size:200
Alignment explanation
Indices: 38053717--38054118 Score: 786
Period size: 200 Copynumber: 2.0 Consensus size: 200
38053707 TAAGTGACCG
38053717 AATGGTTCCTTCTCCCCAACTCTTCTTCACTTTCGGCTTTTGGGATGAACAAGGTGATTACTTTG
1 AATGGTTCCTTCTCCCCAACTCTTCTTCACTTTCGGCTTTTGGGATGAACAAGGTGATTACTTTG
38053782 TTATTTTCACCCACTTTCTATTTTAGTTCCTTATTTTATTTCATTTATTCATGGTATTATATCAT
66 TTATTTTCACCCACTTTCTATTTTAGTTCCTTATTTTATTTCATTTATTCATGGTATTATATCAT
*
38053847 TTAACTAAACAAAACTAATAGAAAATTCATATTTTATAACATAACTAGTACATGGTCGGCCACTA
131 TTAACTAAACAAAACTAATAGAAAATTCATATTTTATAACATAACTAGTACATGGCCGGCCACTA
38053912 TCTAA
196 TCTAA
38053917 AATGGTTCCTTCTCCCCAACTCTTCTTCACTTTCGGCTTTTGGGATGAACAAGGTGATTACTTTG
1 AATGGTTCCTTCTCCCCAACTCTTCTTCACTTTCGGCTTTTGGGATGAACAAGGTGATTACTTTG
38053982 TTATTTTCACCCACTTTCTATTTTAGTTCCTTATTTTATTTCATTTATTCATGGTATTATATCAT
66 TTATTTTCACCCACTTTCTATTTTAGTTCCTTATTTTATTTCATTTATTCATGGTATTATATCAT
*
38054047 TTAACTAAATAAAACTAATAGAAAATTCATATTTTATAACATAACTAGTACATGGCCGGCCACTA
131 TTAACTAAACAAAACTAATAGAAAATTCATATTTTATAACATAACTAGTACATGGCCGGCCACTA
38054112 TCTAA
196 TCTAA
38054117 AA
1 AA
38054119 ATGGGCAATT
Statistics
Matches: 200, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.41
Consensus pattern (200 bp):
AATGGTTCCTTCTCCCCAACTCTTCTTCACTTTCGGCTTTTGGGATGAACAAGGTGATTACTTTG
TTATTTTCACCCACTTTCTATTTTAGTTCCTTATTTTATTTCATTTATTCATGGTATTATATCAT
TTAACTAAACAAAACTAATAGAAAATTCATATTTTATAACATAACTAGTACATGGCCGGCCACTA
TCTAA
Found at i:38074775 original size:43 final size:42
Alignment explanation
Indices: 38074706--38074806 Score: 103
Period size: 43 Copynumber: 2.4 Consensus size: 42
38074696 AACTCACACA
* * ** * *
38074706 ATGCCATATCCTAGATATGGTCTTACATGTTATCATATATCG
1 ATGCCATATCCCAGATAGGGTCTTACATGAAATCATAAATAG
* *
38074748 ATGCCACTATCCCGGATAGGGTGTTACATGAAATCATAAATAG
1 ATGCCA-TATCCCAGATAGGGTCTTACATGAAATCATAAATAG
*
38074791 ATGCCAATGTCCCAGA
1 ATGCC-ATATCCCAGA
38074807 CATGACCTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 6 0.13
43 40 0.85
44 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATAGGGTCTTACATGAAATCATAAATAG
Found at i:38074818 original size:43 final size:43
Alignment explanation
Indices: 38074771--38074853 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
38074761 GGATAGGGTG
* *
38074771 TTACATGAAATCATAAATA-GATGCCAATGTCCCAGACATGACC
1 TTACACGAAATCA-AAATACAATGCCAATGTCCCAGACATGACC
* * *
38074814 TTACACGTAATCACAATACAATGCCAATGTCCCATACATG
1 TTACACGAAATCAAAATACAATGCCAATGTCCCAGACATG
38074854 GTTTTACATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 4 0.12
43 30 0.88
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (43 bp):
TTACACGAAATCAAAATACAATGCCAATGTCCCAGACATGACC
Found at i:38078589 original size:93 final size:93
Alignment explanation
Indices: 38078430--38078600 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
38078420 GCCCCTAAGT
* *
38078430 GAACTCAGACTCAACTAAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTAAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38078495 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
38078523 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTAAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38078588 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38078601 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTAAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38078597 original size:46 final size:46
Alignment explanation
Indices: 38078425--38078597 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
38078415 AACCCGCCCC
* * * *
38078425 TAAGTGAACTCAGACTCAACTAAACGAGTTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
38078471 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
38078519 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
38078564 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38078598 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:38081025 original size:15 final size:15
Alignment explanation
Indices: 38080999--38081054 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
38080989 CAAGGAAACC
38080999 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
38081014 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
38081029 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
38081044 GAATAAAGAAA
1 GAATAAAGAAA
38081055 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:38090098 original size:28 final size:28
Alignment explanation
Indices: 38090064--38090133 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
38090054 ATAGTAAGTC
38090064 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
* *
38090092 CTCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
38090120 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38090134 CAATCTCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 33 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:38093556 original size:30 final size:30
Alignment explanation
Indices: 38093522--38093582 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38093512 TCCTTAACTC
*
38093522 AAACTTTGGTAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
38093552 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
38093582 A
1 A
38093583 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:38107800 original size:52 final size:52
Alignment explanation
Indices: 38107678--38107800 Score: 185
Period size: 52 Copynumber: 2.4 Consensus size: 52
38107668 AAACGATGAT
* * * *
38107678 GAAAAAAAAAGAAAG-AAAAACAGCTCTCATGTTGTTCTTGGTCGAATAGAA
1 GAAAGAAAAAGAAAGAAAAAAAAGCTCGCATGTTGTTCTTGGCCGAATAGAA
*
38107729 GAAAGAAAAAGAAAAAAAAAAAAGCTCGCATGTTGTTCTTGGCCGAATAGAA
1 GAAAGAAAAAGAAAGAAAAAAAAGCTCGCATGTTGTTCTTGGCCGAATAGAA
*
38107781 GAAAGAAAAAGAAGGAAAAA
1 GAAAGAAAAAGAAAGAAAAA
38107801 GAGCTTTGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
51 13 0.20
52 51 0.80
ACGTcount: A:0.53, C:0.10, G:0.21, T:0.16
Consensus pattern (52 bp):
GAAAGAAAAAGAAAGAAAAAAAAGCTCGCATGTTGTTCTTGGCCGAATAGAA
Found at i:38109298 original size:22 final size:21
Alignment explanation
Indices: 38109257--38109300 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
38109247 GAATGTGCAT
38109257 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
38109279 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
38109301 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:38118420 original size:79 final size:81
Alignment explanation
Indices: 38118311--38118493 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
38118301 TACTCGTTCA
* *
38118311 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
38118374 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
38118391 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
38118454 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
38118470 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38118494 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:38118493 original size:40 final size:40
Alignment explanation
Indices: 38118290--38118493 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
38118280 CGGAATTTAA
** *
38118290 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38118330 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38118370 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38118409 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38118449 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38118489 CCGGA
1 CCGGA
38118494 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38122055 original size:56 final size:56
Alignment explanation
Indices: 38121969--38122200 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
38121959 ACAAGGGATG
38121969 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
38122025 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
38122081 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
38122137 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
38122193 ATGGGCAA
1 ATGGGCAA
38122201 TAAACTAATA
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:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:38123054 original size:40 final size:40
Alignment explanation
Indices: 38122989--38123173 Score: 246
Period size: 40 Copynumber: 4.6 Consensus size: 40
38122979 CATTTGAATG
* * * *
38122989 ATATCCGGGCTGAGTCCCGAGGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
* * *
38123029 TTATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
38123069 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
*
38123109 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
38123149 ATGTCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
38123174 AAGGTGTTTG
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 128 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
Found at i:38123429 original size:12 final size:12
Alignment explanation
Indices: 38123412--38123452 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
38123402 TGAAGTAAGT
38123412 ATGTTTATGAGA
1 ATGTTTATGAGA
*
38123424 ATGTTTAT---T
1 ATGTTTATGAGA
38123433 ATGTTTATGAGA
1 ATGTTTATGAGA
38123445 ATGTTTAT
1 ATGTTTAT
38123453 TAATAAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (12 bp):
ATGTTTATGAGA
Found at i:38123437 original size:21 final size:21
Alignment explanation
Indices: 38123411--38123454 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
38123401 GTGAAGTAAG
38123411 TATGTTTATGAGAATGTTTAT
1 TATGTTTATGAGAATGTTTAT
38123432 TATGTTTATGAGAATGTTTAT
1 TATGTTTATGAGAATGTTTAT
38123453 TA
1 TA
38123455 ATAAAGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (21 bp):
TATGTTTATGAGAATGTTTAT
Found at i:38126157 original size:238 final size:238
Alignment explanation
Indices: 38125739--38126214 Score: 900
Period size: 238 Copynumber: 2.0 Consensus size: 238
38125729 ATTTGGCCTT
38125739 TTCTATTATGTTATTGCTTATACTTTTATACCTTGGTAACCATCATACCAAGAGATTTCAACTTA
1 TTCTATTATGTTATTGCTTATACTTTTATACCTTGGTAACCATCATACCAAGAGATTTCAACTTA
38125804 ATCATCAAACATTCATATTCAAGGCTAACTCATGACTTTATAAAATACCAACATATTGTACATGC
66 ATCATCAAACATTCATATTCAAGGCTAACTCATGACTTTATAAAATACCAACATATTGTACATGC
* *
38125869 GTAGAATAACATACTTGTTTAAGACATTGCACACCATATCAAGTCACATACAT-ATAACACATGA
131 GTAGAATAACATACTTGTCTAAGACATTGCACACCATATCAAGTCACATAC-TCACAACACATGA
38125933 AACTTTTAAGCTTGTGCATGCACATATAATAGGGTTACAACCCA
195 AACTTTTAAGCTTGTGCATGCACATATAATAGGGTTACAACCCA
38125977 TTCTATTATGTTATTGCTTATACTTTTATACCTTGGTAACCATCATACCAAGAGATTTCAACTTA
1 TTCTATTATGTTATTGCTTATACTTTTATACCTTGGTAACCATCATACCAAGAGATTTCAACTTA
38126042 ATCATCAAACATTCATATTCAAGGCTAACTCATGACTTTATAAAATACCAACATATTGTACATGC
66 ATCATCAAACATTCATATTCAAGGCTAACTCATGACTTTATAAAATACCAACATATTGTACATGC
* *
38126107 GTAGAATAACATACTTGTCTAAGACATTGCACACCATATCAAGTCACATACTCCCATCACATGAA
131 GTAGAATAACATACTTGTCTAAGACATTGCACACCATATCAAGTCACATACTCACAACACATGAA
38126172 ACTTTTAAGCTTGTGCATGCACATATAATAGGGTTACAACCCA
196 ACTTTTAAGCTTGTGCATGCACATATAATAGGGTTACAACCCA
38126215 ATAATCAATA
Statistics
Matches: 233, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
237 1 0.00
238 232 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (238 bp):
TTCTATTATGTTATTGCTTATACTTTTATACCTTGGTAACCATCATACCAAGAGATTTCAACTTA
ATCATCAAACATTCATATTCAAGGCTAACTCATGACTTTATAAAATACCAACATATTGTACATGC
GTAGAATAACATACTTGTCTAAGACATTGCACACCATATCAAGTCACATACTCACAACACATGAA
ACTTTTAAGCTTGTGCATGCACATATAATAGGGTTACAACCCA
Found at i:38127655 original size:48 final size:48
Alignment explanation
Indices: 38127603--38127864 Score: 244
Period size: 48 Copynumber: 5.5 Consensus size: 48
38127593 GGTGCCGATA
* * * *
38127603 CCATGTTCTAGACATGGTCTTACACTTGCACACATATCATCACTAATG
1 CCATGTCCCAGACATGGTCTTACACTGGCATACATATCATCACTAATG
* ** * * * *
38127651 CCATGTCCCAGACATGGTCTTGCACTAACATGCATATCAACCCCAATG
1 CCATGTCCCAGACATGGTCTTACACTGGCATACATATCATCACTAATG
* * *
38127699 CCATGTCCCAAACATGGTCTTACACGGGCATACATATCA--ACGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCATACATATCATCAC-T-AATG
* * *
38127747 CCATGTCCCGGACATGGTCTTCCACTGGCATACATATCAATGC-C-GATG
1 CCATGTCCCAGACATGGTCTTACACTGGCATACATATC-AT-CACTAATG
* * * * ** *
38127795 CGATGTCCCAGGCATGGTCTTACACTGGCATACATATCAACGCCGATT
1 CCATGTCCCAGACATGGTCTTACACTGGCATACATATCATCACTAATG
38127843 CCATGTCCCAGACATGGTCTTA
1 CCATGTCCCAGACATGGTCTTA
38127865 AACAGGATCT
Statistics
Matches: 175, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 169 0.97
49 1 0.01
51 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCATACATATCATCACTAATG
Found at i:38127714 original size:96 final size:95
Alignment explanation
Indices: 38127614--38127863 Score: 295
Period size: 96 Copynumber: 2.6 Consensus size: 95
38127604 CATGTTCTAG
* * * *
38127614 ACATGGTCTTACACTTGCACACATATCATCACTAATGCCATGTCCCAGACATGGTCTTGCACTAA
1 ACATGGTCTTACACTGGCATACATATCA-CACTGATGCCATGTCCCAGACATGGTCTTCCACTAA
*
38127679 CATGCATATCAACCCCAATGCCATGTCCCAA
65 CATACATATCAACCCCAATGCCATGTCCCAA
* * *
38127710 ACATGGTCTTACACGGGCATACATATCA-ACGTCGATGCCATGTCCCGGACATGGTCTTCCACTG
1 ACATGGTCTTACACTGGCATACATATCACAC-T-GATGCCATGTCCCAGACATGGTCTTCCACTA
* ** * * *
38127774 GCATACATATCAATGCCGATGCGATGTCCCAG
64 ACATACATATCAACCCCAATGCCATGTCCCAA
* * * *
38127806 GCATGGTCTTACACTGGCATACATATCAACGCCGATTCCATGTCCCAGACATGGTCTT
1 ACATGGTCTTACACTGGCATACATATC-ACACTGATGCCATGTCCCAGACATGGTCTT
38127864 AAACAGGATC
Statistics
Matches: 130, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
94 2 0.02
95 1 0.01
96 125 0.96
97 1 0.01
98 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (95 bp):
ACATGGTCTTACACTGGCATACATATCACACTGATGCCATGTCCCAGACATGGTCTTCCACTAAC
ATACATATCAACCCCAATGCCATGTCCCAA
Found at i:38127734 original size:144 final size:144
Alignment explanation
Indices: 38127568--38127873 Score: 321
Period size: 144 Copynumber: 2.1 Consensus size: 144
38127558 GATCACTGAT
** **** * * *
38127568 ATGGTCTTTTACGGGATCACATATTGGTGCCGATACCATGTTCTAGACATGGTCTTACACTTGCA
1 ATGGTCTTACACGGGATCACATATCAACGCCGATACCATGTCCCAGACATGGTCTTACACTGGCA
* *
38127633 CACATATC-AT-CACTAATGCCATGTCCCAGACATGGTCTTGCACTAACATGCATATCAACCCCA
66 CACATATCAATGC-C-AATGCCATGTCCCAGACATGGTCTTACACTAACATACATATCAACCCCA
38127696 ATGCCATGTCCCAAAC
129 ATGCCATGTCCCAAAC
* * * *
38127712 ATGGTCTTACACGGGCAT-ACATATCAACGTCGATGCCATGTCCCGGACATGGTCTTCCACTGGC
1 ATGGTCTTACACGGG-ATCACATATCAACGCCGATACCATGTCCCAGACATGGTCTTACACTGGC
* * * * ** * *
38127776 ATACATATCAATGCCGATGCGATGTCCCAGGCATGGTCTTACACTGGCATACATATCAACGCCGA
65 ACACATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTAACATACATATCAACCCCAA
* *
38127841 TTCCATGTCCCAGAC
130 TGCCATGTCCCAAAC
* *
38127856 ATGGTCTTAAACAGGATC
1 ATGGTCTTACACGGGATC
38127874 TCACTAACCA
Statistics
Matches: 131, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
143 2 0.02
144 123 0.94
145 5 0.04
146 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (144 bp):
ATGGTCTTACACGGGATCACATATCAACGCCGATACCATGTCCCAGACATGGTCTTACACTGGCA
CACATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTAACATACATATCAACCCCAAT
GCCATGTCCCAAAC
Found at i:38137389 original size:38 final size:38
Alignment explanation
Indices: 38137328--38137560 Score: 394
Period size: 38 Copynumber: 6.1 Consensus size: 38
38137318 ATTTGATGTG
*
38137328 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
*
38137368 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
38137406 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
38137444 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
38137482 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * *
38137520 TATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
38137558 TAT
1 TAT
38137561 TCAGGCCTTG
Statistics
Matches: 187, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
38 174 0.93
39 5 0.03
40 8 0.04
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:38141898 original size:27 final size:27
Alignment explanation
Indices: 38141868--38141970 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
38141858 ATGATGATTT
**
38141868 TACCCTTATTTGGTAAAATGACCGAAA
1 TACCCTTATAGGGTAAAATGACCGAAA
*
38141895 TACCCTCATAGGGTAAAATGACCGAAA
1 TACCCTTATAGGGTAAAATGACCGAAA
* *
38141922 TAACCC-TATAGGGTAGAATGACCGATA
1 T-ACCCTTATAGGGTAAAATGACCGAAA
* *
38141949 TACCCCTATAGGTTAAAATGAC
1 TACCCTTATAGGGTAAAATGAC
38141971 TATAATACCC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.06
27 58 0.88
28 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (27 bp):
TACCCTTATAGGGTAAAATGACCGAAA
Found at i:38141978 original size:27 final size:28
Alignment explanation
Indices: 38141879--38141981 Score: 126
Period size: 27 Copynumber: 3.8 Consensus size: 28
38141869 ACCCTTATTT
38141879 GGTAAAATGACCGA-AATA-CCCTCATAG
1 GGTAAAATGACCGATAATACCCCT-ATAG
*
38141906 GGTAAAATGACCGA-AATAACCCTATAG
1 GGTAAAATGACCGATAATACCCCTATAG
*
38141933 GGTAGAATGACCGAT-ATACCCCTATAG
1 GGTAAAATGACCGATAATACCCCTATAG
* *
38141960 GTTAAAATGA-CTATAATACCCC
1 GGTAAAATGACCGATAATACCCC
38141982 GGTAAGGTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.04
27 61 0.90
28 4 0.06
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (28 bp):
GGTAAAATGACCGATAATACCCCTATAG
Found at i:38142382 original size:17 final size:18
Alignment explanation
Indices: 38142328--38142384 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
38142318 TCTTCTTGCA
*
38142328 TACTGCACTGATTACTGT
1 TACTGCACTGATTATTGT
* * *
38142346 TACTGCATTGATCATGGT
1 TACTGCACTGATTATTGT
38142364 TACTGCA-TGATTATTGT
1 TACTGCACTGATTATTGT
38142381 TACT
1 TACT
38142385 AAAATGGGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (18 bp):
TACTGCACTGATTATTGT
Found at i:38145395 original size:27 final size:26
Alignment explanation
Indices: 38145365--38145480 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 26
38145355 CCTTATGTGA
* *
38145365 TAAAATGACCGAAATACCATCTTAGGG
1 TAAAATGACCAAAATACC-CCTTAGGG
* *
38145392 TAAAATGACCTAAATACGCCCATAGGG
1 TAAAATGACCAAAATAC-CCCTTAGGG
*
38145419 TAGAATGACCAAAATACCCCTATAGGG
1 TAAAATGACCAAAATACCCCT-TAGGG
* * * *
38145446 TAAAATGACTATAATACCCCGGTAAGG
1 TAAAATGACCAAAATACCCC-TTAGGG
38145473 TAAAATGA
1 TAAAATGA
38145481 TAGATTTGTT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
26 3 0.04
27 71 0.95
28 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (26 bp):
TAAAATGACCAAAATACCCCTTAGGG
Found at i:38145480 original size:54 final size:54
Alignment explanation
Indices: 38145365--38145480 Score: 139
Period size: 54 Copynumber: 2.1 Consensus size: 54
38145355 CCTTATGTGA
* * *
38145365 TAAAATGACCGAAATACCATCTTAGGGTAAAATGACCTAAATACGCCCATAGGG
1 TAAAATGACCAAAATACCACCTTAGGGTAAAATGACCTAAATACGCCCATAAGG
* *
38145419 TAGAATGACCAAAATACC-CCTATAGGGTAAAATGA-CTATAATAC-CCCGGTAAGG
1 TAAAATGACCAAAATACCACCT-TAGGGTAAAATGACCTA-AATACGCCC-ATAAGG
38145473 TAAAATGA
1 TAAAATGA
38145481 TAGATTTGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
53 8 0.15
54 45 0.85
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (54 bp):
TAAAATGACCAAAATACCACCTTAGGGTAAAATGACCTAAATACGCCCATAAGG
Found at i:38145867 original size:18 final size:18
Alignment explanation
Indices: 38145812--38145870 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
38145802 TATACTTGCA
* *
38145812 TACTCCACTGGTTACTGT
1 TACTACACTGATTACTGT
* * *
38145830 TACTGCATTGATCA-TGGT
1 TACTACACTGATTACT-GT
38145848 TACTACACTGATTACTGT
1 TACTACACTGATTACTGT
38145866 TACTA
1 TACTA
38145871 AAATGGGCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 30 0.94
19 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (18 bp):
TACTACACTGATTACTGT
Found at i:38148995 original size:27 final size:27
Alignment explanation
Indices: 38148939--38149021 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
38148929 ATACTTGAAT
* *
38148939 CCTTATGTGATAAAATGA-C-AATTTTGC
1 CCTTATGTGATAAAATGACCGAA--ATAC
38148966 CCTTATGTGATAAAATGACCGAAATAC
1 CCTTATGTGATAAAATGACCGAAATAC
* * * *
38148993 CCTTATGGGGTAAAATGACTGAAACAC
1 CCTTATGTGATAAAATGACCGAAATAC
38149020 CC
1 CC
38149022 CCATAGGGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 45 0.94
28 1 0.02
29 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
CCTTATGTGATAAAATGACCGAAATAC
Found at i:38149030 original size:27 final size:27
Alignment explanation
Indices: 38148976--38149074 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 27
38148966 CCTTATGTGA
*
38148976 TAAAATGACCGAAATACCCTTATGGGG
1 TAAAATGACCGAAATACCCTTATAGGG
* * **
38149003 TAAAATGACTGAAACACCCCCATAGGG
1 TAAAATGACCGAAATACCCTTATAGGG
* * *
38149030 TAGAACGACCGAAATACCCTTGTAGGG
1 TAAAATGACCGAAATACCCTTATAGGG
* *
38149057 TAAAATGACTGTAATACC
1 TAAAATGACCGAAATACC
38149075 TCTGTAAGGT
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTTATAGGG
Found at i:38149080 original size:27 final size:26
Alignment explanation
Indices: 38148976--38149089 Score: 95
Period size: 27 Copynumber: 4.2 Consensus size: 26
38148966 CCTTATGTGA
*
38148976 TAAAATGACCGAAATACCCT-TATGGGG
1 TAAAATGACTGAAATACCCTGTA--GGG
* **
38149003 TAAAATGACTGAAACACCCCCATAGGG
1 TAAAATGACTGAAATA-CCCTGTAGGG
* * *
38149030 TAGAACGACCGAAATACCCTTGTAGGG
1 TAAAATGACTGAAATACCC-TGTAGGG
* *
38149057 TAAAATGACTGTAATACCTCTGTAAGG
1 TAAAATGACTGAAATACC-CTGTAGGG
38149084 TAAAAT
1 TAAAAT
38149090 TTCATATTTG
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
26 3 0.04
27 60 0.87
28 4 0.06
29 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (26 bp):
TAAAATGACTGAAATACCCTGTAGGG
Found at i:38149453 original size:18 final size:18
Alignment explanation
Indices: 38149408--38149463 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
38149398 TGCTTGCGTG
*
38149408 CTGCACTGATTACTGTTA
1 CTGCACTGATCACTGTTA
* *
38149426 CTACATTGATCA-TGGTTA
1 CTGCACTGATCACT-GTTA
*
38149444 CTGCACTGATTACTGTTA
1 CTGCACTGATCACTGTTA
38149462 CT
1 CT
38149464 AAAATGGGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (18 bp):
CTGCACTGATCACTGTTA
Found at i:38152250 original size:28 final size:27
Alignment explanation
Indices: 38152219--38152307 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 27
38152209 TGGAAGTTTG
38152219 TCAGGATTGTCTTAAATGGGGATGTCCA
1 TCAGGATTGTCTT-AATGGGGATGTCCA
* * * **
38152247 TCAGGATTATCTTAATGTGGAAGTCTG
1 TCAGGATTGTCTTAATGGGGATGTCCA
* * *
38152274 TCAGGACTGTCTTGAATAGAGATGTCCA
1 TCAGGATTGTCTT-AATGGGGATGTCCA
38152302 TCAGGA
1 TCAGGA
38152308 CTATCATATA
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
27 21 0.45
28 26 0.55
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
TCAGGATTGTCTTAATGGGGATGTCCA
Found at i:38152286 original size:27 final size:28
Alignment explanation
Indices: 38152203--38152286 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
38152193 GGCATTACCG
*
38152203 TAAATGTGGAAGTTTGTCAGGATTGTCT
1 TAAATGTGGAAGTCTGTCAGGATTGTCT
* * ** *
38152231 TAAATGGGGATGTCCATCAGGATTATCT
1 TAAATGTGGAAGTCTGTCAGGATTGTCT
*
38152259 T-AATGTGGAAGTCTGTCAGGACTGTCT
1 TAAATGTGGAAGTCTGTCAGGATTGTCT
38152286 T
1 T
38152287 GAATAGAGAT
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
27 21 0.48
28 23 0.52
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (28 bp):
TAAATGTGGAAGTCTGTCAGGATTGTCT
Found at i:38152298 original size:55 final size:57
Alignment explanation
Indices: 38152205--38152330 Score: 168
Period size: 55 Copynumber: 2.3 Consensus size: 57
38152195 CATTACCGTA
* * * * *
38152205 AATGTGGAAGTTTGTCAGGATTGTCTTAAATGGGGATGTCCATCAGGATTATC-T-T
1 AATGTGGAAGTCTGTCAGGACTGTCTTAAATAGAGATGTCCATCAGGACTATCATAT
*
38152260 AATGTGGAAGTCTGTCAGGACTGTCTTGAATAGAGATGTCCATCAGGACTATCATAT
1 AATGTGGAAGTCTGTCAGGACTGTCTTAAATAGAGATGTCCATCAGGACTATCATAT
*
38152317 AA-GTGGAAATCTGT
1 AATGTGGAAGTCTGT
38152331 GAGTCCACCA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
55 47 0.76
56 12 0.19
57 3 0.05
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (57 bp):
AATGTGGAAGTCTGTCAGGACTGTCTTAAATAGAGATGTCCATCAGGACTATCATAT
Found at i:38153787 original size:30 final size:30
Alignment explanation
Indices: 38153753--38153817 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
38153743 CAGGGGACAC
38153753 ACGGCCGTGTTACTTGGCCGTATGTCACAA
1 ACGGCCGTGTTACTTGGCCGTATGTCACAA
* * *
38153783 ACGGCCGTGTTATTTGGCCGTGTGTCACAC
1 ACGGCCGTGTTACTTGGCCGTATGTCACAA
38153813 ACGGC
1 ACGGC
38153818 TGAGACACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (30 bp):
ACGGCCGTGTTACTTGGCCGTATGTCACAA
Found at i:38155669 original size:22 final size:22
Alignment explanation
Indices: 38155642--38155764 Score: 72
Period size: 22 Copynumber: 5.3 Consensus size: 22
38155632 ATGTGCATAT
38155642 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
38155664 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
*
38155688 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* * * *
38155711 ATGTGATGAATG-TGAGTGTGCATA
1 ATGTGAT-AAGGCCGAATG-GC-CA
38155735 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
38155758 ATGTGAT
1 ATGTGAT
38155765 GAATATGAAC
Statistics
Matches: 73, Mismatches: 16, Indels: 24
0.65 0.14 0.21
Matches are distributed among these distances:
22 25 0.34
23 15 0.21
24 15 0.21
25 18 0.25
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:38155686 original size:47 final size:47
Alignment explanation
Indices: 38155626--38155810 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
38155616 GATAATTGTG
**
38155626 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
38155673 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
***
38155720 ATGTGAGTGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
38155767 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
38155811 AATATATGTA
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 124 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:38155731 original size:94 final size:94
Alignment explanation
Indices: 38155626--38155810 Score: 316
Period size: 94 Copynumber: 2.0 Consensus size: 94
38155616 GATAATTGTG
*
38155626 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAT
1 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATAT
*
38155691 GTGATAAGGCCAAATGGCCAATGTGATGA
66 GTGATAAAGCCAAATGGCCAATGTGATGA
*
38155720 ATGTGAGTGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATAT
1 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATAT
* * *
38155785 GTGGTAAAGCCGAATGGCTAATGTGA
66 GTGATAAAGCCAAATGGCCAATGTGA
38155811 AATATATGTA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 85 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (94 bp):
ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATAT
GTGATAAAGCCAAATGGCCAATGTGATGA
Found at i:38156160 original size:37 final size:37
Alignment explanation
Indices: 38156015--38156159 Score: 263
Period size: 37 Copynumber: 3.9 Consensus size: 37
38156005 GGAAATATAT
38156015 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
38156052 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
38156089 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
38156126 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
38156160 TCGTCTGAGC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:38165127 original size:42 final size:41
Alignment explanation
Indices: 38165017--38165130 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 41
38165007 TGGCAATAGC
* ** * *
38165017 CCAGCTATGGTCTTACACGATTCTCATAATGATGCCATGTT
1 CCAGATATGGTCTTACACGAAACTCATAACGATGCCATATT
* **
38165058 CCAGACATGGTCTTACAAAAAATCTCATAACGATGCCATATT
1 CCAGATATGGTCTTACACGAAA-CTCATAACGATGCCATATT
*
38165100 CCAGATATGGCCTTACACGTAAACTCATAAC
1 CCAGATATGGTCTTACACG-AAACTCATAAC
38165131 CCTAATGTCA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 16 0.27
42 40 0.68
43 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (41 bp):
CCAGATATGGTCTTACACGAAACTCATAACGATGCCATATT
Found at i:38167451 original size:40 final size:40
Alignment explanation
Indices: 38167353--38167735 Score: 504
Period size: 40 Copynumber: 9.6 Consensus size: 40
38167343 TCCTCGTTCA
* * * * *
38167353 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38167392 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38167432 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38167472 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38167512 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38167552 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
38167592 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
38167632 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
38167672 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38167712 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38167736 CAGCATTCAA
Statistics
Matches: 315, Mismatches: 23, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
39 39 0.12
40 264 0.84
41 12 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38167744 original size:41 final size:41
Alignment explanation
Indices: 38167667--38167744 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38167657 TTTGTATCTC
* * *
38167667 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38167708 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38167745 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:38180234 original size:43 final size:43
Alignment explanation
Indices: 38180186--38180287 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
38180176 TCCCATGAAT
* * * *
38180186 GGTCTTACATGTTATCTCA-TACCGATGCCACTGTCCTAGACAA
1 GGTCTTACATGTAATC-CATTAACGATGCCAATGTCCCAGACAA
* * *
38180229 GGTCTTACATGAAATCGATTAACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCCATTAACGATGCCAATGTCCCAGACAA
38180272 GGTCTTACATGTAATC
1 GGTCTTACATGTAATC
38180288 ACATCTTGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
42 1 0.02
43 49 0.98
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAATCCATTAACGATGCCAATGTCCCAGACAA
Found at i:38184681 original size:29 final size:29
Alignment explanation
Indices: 38184618--38184685 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
38184608 TAATCAACCG
*
38184618 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
38184647 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
38184676 CGCACACTTA
1 CGCACACTTA
38184686 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:38184797 original size:174 final size:174
Alignment explanation
Indices: 38184507--38184834 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
38184497 AACTCAAGGT
* *
38184507 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
38184572 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
38184637 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
38184681 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
38184746 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
38184811 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
38184835 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:38184826 original size:29 final size:30
Alignment explanation
Indices: 38184787--38184865 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
38184777 CTTAATAATC
38184787 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
38184817 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
38184846 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38184866 ATCTCATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:38188980 original size:27 final size:27
Alignment explanation
Indices: 38188950--38189127 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38188940 ATATTGAGTC
* * * *
38188950 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38188977 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38189004 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38189032 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38189059 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38189086 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38189113 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38189128 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:38189089 original size:82 final size:81
Alignment explanation
Indices: 38188971--38189126 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38188961 TGCTATATAA
* *
38188971 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38189036 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38189053 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38189117 CACTTAGTGC
65 CACTTAGTGC
38189127 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:38197458 original size:27 final size:27
Alignment explanation
Indices: 38197428--38197605 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
38197418 ATATTGAGCC
* *
38197428 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
38197455 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38197482 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
38197510 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
38197537 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
38197564 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
38197591 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38197606 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38197567 original size:82 final size:81
Alignment explanation
Indices: 38197449--38197604 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
38197439 TGCTATATAA
* *
38197449 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38197514 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
38197531 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38197595 CACTTAGTGC
65 CACTTAGTGC
38197605 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38203824 original size:17 final size:17
Alignment explanation
Indices: 38203802--38203840 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
38203792 AAATGATGAT
* *
38203802 GAAAAAGGAAAAGAGAAA
1 GAAAAA-GAAAAAAAAAA
38203820 GAAAAAGAAAAAAAAAA
1 GAAAAAGAAAAAAAAAA
38203837 GAAA
1 GAAA
38203841 GGCTCTCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
GAAAAAGAAAAAAAAAA
Found at i:38205151 original size:40 final size:40
Alignment explanation
Indices: 38205096--38205353 Score: 396
Period size: 40 Copynumber: 6.5 Consensus size: 40
38205086 TGGATGATAA
* * *
38205096 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
38205136 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
38205176 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
38205216 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
38205256 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
38205296 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
38205336 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
38205354 TACTTGGCTT
Statistics
Matches: 206, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 16 0.08
40 190 0.92
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:38220702 original size:108 final size:110
Alignment explanation
Indices: 38220528--38220728 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
38220518 TTTAAAGATA
* * *
38220528 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCAAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* *
38220593 CCATGTTAAGACATGGCATTGATAAGTTACTATAAGTCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGTCAAAGGTC
*
38220638 CCATGTAAGACCATGCAAAGGCATGAC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCAAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
38220700 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
38220729 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.58
109 7 0.08
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCAAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGTCAAAGGTC
Found at i:38229570 original size:28 final size:28
Alignment explanation
Indices: 38229530--38229622 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
38229520 ATGTAGTTGA
*
38229530 ATACTCAATATCTTGCACACTAAGTGCC
1 ATACTCGATATCTTGCACACTAAGTGCC
*
38229558 ATACTCGATATCTCGCACACTAAGTGCC
1 ATACTCGATATCTTGCACACTAAGTGCC
* * *
38229586 ACACTAGATAT-TTCACACACTAAGTGCC
1 ATACTCGATATCTT-GCACACTAAGTGCC
*
38229614 ATACCCGAT
1 ATACTCGAT
38229623 TCTCATACAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 1 0.02
28 54 0.98
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (28 bp):
ATACTCGATATCTTGCACACTAAGTGCC
Found at i:38229689 original size:40 final size:40
Alignment explanation
Indices: 38229629--38229732 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 40
38229619 CGATTCTCAT
* * * * *
38229629 ACACTAAGTGTCGTACATAGCTGACGCTATCTCAACTCTC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAACTCGC
* * * *
38229669 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGATTCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAACTCGC
* * *
38229709 ACACTAAGCGCCACAAATAGCCGA
1 ACACTAAGTGCCATACATAGCCGA
38229733 TTTTTTTCGA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCAACTCGC
Found at i:38234456 original size:146 final size:146
Alignment explanation
Indices: 38234192--38234484 Score: 577
Period size: 146 Copynumber: 2.0 Consensus size: 146
38234182 CATGTACCTA
38234192 TATTCCTCAAGGTCCAATACAAAGTTCTATTGGATGTCTTGAGACATGAGGTTTATGTTGCGAGA
1 TATTCCTCAAGGTCCAATACAAAGTTCTATTGGATGTCTTGAGACATGAGGTTTATGTTGCGAGA
38234257 TAGGCTTCTCCTATTTTAGATCCCTAGCTTCAATGTTTTCTATCTTGAGACAAAGGGGTCCTTGT
66 TAGGCTTCTCCTATTTTAGATCCCTAGCTTCAATGTTTTCTATCTTGAGACAAAGGGGTCCTTGT
*
38234322 AATAGCCCATTTTTAG
131 AACAGCCCATTTTTAG
38234338 TATTCCTCAAGGTCCAATACAAAGTTCTATTGGATGTCTTGAGACATGAGGTTTATGTTGCGAGA
1 TATTCCTCAAGGTCCAATACAAAGTTCTATTGGATGTCTTGAGACATGAGGTTTATGTTGCGAGA
38234403 TAGGCTTCTCCTATTTTAGATCCCTAGCTTCAATGTTTTCTATCTTGAGACAAAGGGGTCCTTGT
66 TAGGCTTCTCCTATTTTAGATCCCTAGCTTCAATGTTTTCTATCTTGAGACAAAGGGGTCCTTGT
38234468 AACAGCCCATTTTTAG
131 AACAGCCCATTTTTAG
38234484 T
1 T
38234485 CAAATCGGAA
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 146 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (146 bp):
TATTCCTCAAGGTCCAATACAAAGTTCTATTGGATGTCTTGAGACATGAGGTTTATGTTGCGAGA
TAGGCTTCTCCTATTTTAGATCCCTAGCTTCAATGTTTTCTATCTTGAGACAAAGGGGTCCTTGT
AACAGCCCATTTTTAG
Found at i:38236578 original size:28 final size:28
Alignment explanation
Indices: 38236556--38236611 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
38236546 ATGCCTTCAC
38236556 GGATGTATTGCACACAAAGTGCCATCCT
1 GGATGTATTGCACACAAAGTGCCATCCT
* *
38236584 GGATGTCTTGCACACTAAGTGCCATCCT
1 GGATGTATTGCACACAAAGTGCCATCCT
38236612 TGATAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
GGATGTATTGCACACAAAGTGCCATCCT
Found at i:38253261 original size:40 final size:40
Alignment explanation
Indices: 38253177--38253360 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
38253167 TTGAATGCTG
* * * *
38253177 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
38253216 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
38253257 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
38253297 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
38253337 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38253361 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:38253314 original size:80 final size:81
Alignment explanation
Indices: 38253177--38253357 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
38253167 TTGAATGCTG
* *
38253177 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
38253241 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
38253257 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
38253318 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
38253337 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
38253358 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:38260837 original size:134 final size:134
Alignment explanation
Indices: 38260597--38260864 Score: 491
Period size: 134 Copynumber: 2.0 Consensus size: 134
38260587 AGGTAAATCG
*
38260597 GTTTGTGTATCCGTCATGAATTGCTTGTTTGTCGAATTACCAAGGACGCCCCAAAAGAAGATGCC
1 GTTTGTGTATCCGTCATGAATTGCTTGTTTGTAGAATTACCAAGGACGCCCCAAAAGAAGATGCC
*
38260662 CCGCATGCATTGGTACAATGTCACACATCACTTTATCTTGATATTTTCCAATTGTAAACGAGATA
66 CCACATGCATTGGTACAATGTCACACATCACTTTATCTTGATATTTTCCAATTGTAAACGAGATA
38260727 AGCA
131 AGCA
* *
38260731 GTTTGTGTATCCGTCATGAATTGCTTGTTTGTAGAATTGCCAAGGCCGCCCCAAAAGAAGATGCC
1 GTTTGTGTATCCGTCATGAATTGCTTGTTTGTAGAATTACCAAGGACGCCCCAAAAGAAGATGCC
*
38260796 CCACATGCATTGGTACAATGTTACACATCACTTTATCTTGATATTTTCCAATTGTAAACGAGATA
66 CCACATGCATTGGTACAATGTCACACATCACTTTATCTTGATATTTTCCAATTGTAAACGAGATA
38260861 AGCA
131 AGCA
38260865 CTTGCTTTGT
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 129 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (134 bp):
GTTTGTGTATCCGTCATGAATTGCTTGTTTGTAGAATTACCAAGGACGCCCCAAAAGAAGATGCC
CCACATGCATTGGTACAATGTCACACATCACTTTATCTTGATATTTTCCAATTGTAAACGAGATA
AGCA
Found at i:38264461 original size:20 final size:19
Alignment explanation
Indices: 38264438--38264492 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
38264428 AACTAAAGTA
38264438 AGCTAACAATGAGCTCATTG
1 AGCTAA-AATGAGCTCATTG
*
38264458 AGCTAAGAACGAGCTCATTG
1 AGCTAA-AATGAGCTCATTG
38264478 AGCTAAAATTGAGCT
1 AGCTAAAA-TGAGCT
38264493 GAATTGAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (19 bp):
AGCTAAAATGAGCTCATTG
Found at i:38266159 original size:28 final size:27
Alignment explanation
Indices: 38266109--38266168 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
38266099 GCTAGAGCAT
*
38266109 ATTAAAAACATGTAATAGCTTAAGACAC
1 ATTAAAAACATGTAATAACTTAA-ACAC
* * * *
38266137 ATTAAACACATGTACTAATTTAAACAT
1 ATTAAAAACATGTAATAACTTAAACAC
38266164 ATTAA
1 ATTAA
38266169 TTCTTGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (27 bp):
ATTAAAAACATGTAATAACTTAAACAC
Found at i:38269336 original size:15 final size:14
Alignment explanation
Indices: 38269316--38269372 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 14
38269306 ACTCTCATCA
38269316 TTCTTTTCTCTCTTT
1 TTCTTTT-TCTCTTT
*
38269331 TTCTTTTTAATCTTT
1 TTCTTTTT-CTCTTT
*
38269346 TTGTTTTTTCTCTTTT
1 TT-CTTTTTCTC-TTT
38269362 TTCTTTTTCTC
1 TTCTTTTTCTC
38269373 GCTCAATGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 1 0.03
15 24 0.69
16 10 0.29
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (14 bp):
TTCTTTTTCTCTTT
Found at i:38269355 original size:22 final size:22
Alignment explanation
Indices: 38269328--38269369 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
38269318 CTTTTCTCTC
38269328 TTTTTCT-TTTTAATCTTTTTGT
1 TTTTTCTCTTTT-ATCTTTTTGT
*
38269350 TTTTTCTCTTTTTTCTTTTT
1 TTTTTCTCTTTTATCTTTTT
38269370 CTCGCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTCTCTTTTATCTTTTTGT
Found at i:38272207 original size:29 final size:29
Alignment explanation
Indices: 38272129--38272208 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 29
38272119 ATTCATGCAT
*
38272129 TATGTAACTTTCATGTTAGTTAAGTTTACA
1 TATGTAACTTTCATGTTAGTT-AGTTTAAA
* * *
38272159 TCAT-TAA-ATT-AAGTCAAGTTAGTTTAAA
1 T-ATGTAACTTTCATGT-TAGTTAGTTTAAA
38272187 TATGTAACTTTCATGTTAGTTA
1 TATGTAACTTTCATGTTAGTTA
38272209 ATTTTGCATT
Statistics
Matches: 38, Mismatches: 7, Indels: 11
0.68 0.12 0.20
Matches are distributed among these distances:
27 2 0.05
28 14 0.37
29 13 0.34
30 7 0.18
31 2 0.05
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (29 bp):
TATGTAACTTTCATGTTAGTTAGTTTAAA
Found at i:38273198 original size:46 final size:46
Alignment explanation
Indices: 38273146--38273233 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
38273136 ACAGTGTGGT
*
38273146 GTTCATCATATACCAAGGTTCTTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
38273192 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGT
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGT
38273234 AAGGTCTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:38283474 original size:28 final size:27
Alignment explanation
Indices: 38283439--38283500 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
38283429 TATTTTCATG
38283439 CATGCATTTAATATGTCTTAG-TTAGTA
1 CATGCA-TTAATATGTCTTAGCTTAGTA
* *
38283466 CATGACATTAATTTGTCTTAGCTTATTA
1 CATG-CATTAATATGTCTTAGCTTAGTA
38283494 CAT-CATT
1 CATGCATT
38283501 TTATTGTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 4 0.13
27 17 0.55
28 10 0.32
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (27 bp):
CATGCATTAATATGTCTTAGCTTAGTA
Found at i:38285757 original size:18 final size:17
Alignment explanation
Indices: 38285734--38285778 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
38285724 TGTAATTGAA
38285734 AAAAAAAATTGGAAGTAT
1 AAAAAAAATTGG-AGTAT
*
38285752 AAAAAAAAGTTTGAGTAT
1 AAAAAAAA-TTGGAGTAT
38285770 AAAAAAAAT
1 AAAAAAAAT
38285779 GAAGTGAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.22
Consensus pattern (17 bp):
AAAAAAAATTGGAGTAT
Found at i:38286709 original size:24 final size:25
Alignment explanation
Indices: 38286677--38286773 Score: 83
Period size: 24 Copynumber: 3.9 Consensus size: 25
38286667 ATCTCAATCG
*
38286677 AATGAAAAAGAAAAAAACG-AAGAA
1 AATGAAAAAGAAAAAAAAGAAAGAA
*
38286701 AATGAAAAATAAAAAAAAGAAAGAA
1 AATGAAAAAGAAAAAAAAGAAAGAA
* * **
38286726 AA-CAATAAA-AAGAAAGTGAAAAGAA
1 AATGAA-AAAGAAAAAAAAG-AAAGAA
*
38286751 AATGAGAAAAGAAAAACAAGAAA
1 AATGA-AAAAGAAAAAAAAGAAA
38286774 ATATAAATAA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
24 25 0.45
25 18 0.32
26 7 0.12
27 6 0.11
ACGTcount: A:0.75, C:0.03, G:0.15, T:0.06
Consensus pattern (25 bp):
AATGAAAAAGAAAAAAAAGAAAGAA
Found at i:38286715 original size:25 final size:24
Alignment explanation
Indices: 38286677--38286773 Score: 72
Period size: 25 Copynumber: 3.9 Consensus size: 24
38286667 ATCTCAATCG
*
38286677 AATGAAAAAGAAAAAAACG-AAGAA
1 AATGAAAAAAAAAAAAA-GAAAGAA
38286701 AATGAAAAATAAAAAAAAGAAAGAA
1 AATGAAAAA-AAAAAAAAGAAAGAA
* * **
38286726 AA-CAATAAAAAGAAAGTGAAAAGAA
1 AATGAA-AAAAAAAAAAAG-AAAGAA
*
38286751 AATGAGAAAAGAAAAACAAGAAA
1 AATGA-AAAA-AAAAAAAAGAAA
38286774 ATATAAATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
24 18 0.32
25 25 0.45
26 7 0.12
27 6 0.11
ACGTcount: A:0.75, C:0.03, G:0.15, T:0.06
Consensus pattern (24 bp):
AATGAAAAAAAAAAAAAGAAAGAA
Found at i:38286727 original size:18 final size:18
Alignment explanation
Indices: 38286706--38286741 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38286696 AAGAAAATGA
*
38286706 AAAATAAAAAAAAGAAAG
1 AAAACAAAAAAAAGAAAG
*
38286724 AAAACAATAAAAAGAAAG
1 AAAACAAAAAAAAGAAAG
38286742 TGAAAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAACAAAAAAAAGAAAG
Found at i:38291399 original size:27 final size:27
Alignment explanation
Indices: 38291369--38291546 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
38291359 ATATTGAGCC
* *
38291369 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
38291396 CGCACGCTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38291423 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
38291451 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
38291478 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
38291505 CGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38291532 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
38291547 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38291529 original size:54 final size:55
Alignment explanation
Indices: 38291369--38291546 Score: 173
Period size: 54 Copynumber: 3.3 Consensus size: 55
38291359 ATATTGAGCC
* * * * * * * *
38291369 CGCACACTCAGTGCTATATAATCA-ACTCGCACGCTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
* ** * *
38291423 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
* **
38291478 CGCACACTTAGTGC-ATCATATTCA-TTTCGCACACTGAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
*
38291532 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
38291547 GTACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 58 0.56
55 45 0.44
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAGACTCGCACACTGAGTGCAACATAGTCAAAT
Found at i:38298494 original size:27 final size:26
Alignment explanation
Indices: 38298456--38298512 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
38298446 CTTCACATCC
* *
38298456 TTTT-TCAATCTCAATTTCTTTTTTCT
1 TTTTCTCAATCTCAATCTC-ATTTTCT
* *
38298482 TTTTCTCACTCTCACTCTCATTTTCT
1 TTTTCTCAATCTCAATCTCATTTTCT
38298508 TTTTC
1 TTTTC
38298513 AATTTCTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTCTCAATCTCAATCTCATTTTCT
Found at i:38301832 original size:18 final size:18
Alignment explanation
Indices: 38301809--38301843 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38301799 TTTTTCTGTT
38301809 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
38301827 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
38301844 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:38301933 original size:15 final size:16
Alignment explanation
Indices: 38301913--38301942 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38301903 CAATTTCTTT
38301913 TTCTTTTTC-TTTTTC
1 TTCTTTTTCATTTTTC
38301928 TTCTTTTTCATTTTT
1 TTCTTTTTCATTTTT
38301943 ATTACAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTCTTTTTCATTTTTC
Found at i:38301941 original size:6 final size:6
Alignment explanation
Indices: 38301831--38301929 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
38301821 TCAATCTCAA
* * ** **
38301831 TTTCTT TTTCAAT TTTC-T TTTCTT CGTTTGCTT TTTCTC TCACTT TTTCGA
1 TTTCTT TTTC-TT TTTCTT TTTCTT --TTT-CTT TTTCTT TTTCTT TTTCTT
* **
38301882 TTTCTT TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
38301930 CTTTTTCATT
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
5 5 0.07
6 52 0.73
7 8 0.11
8 3 0.04
9 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:38302824 original size:10 final size:11
Alignment explanation
Indices: 38302803--38302827 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38302793 TTTTTTTATA
38302803 TACGATTTTTT
1 TACGATTTTTT
38302814 TACGATTTTTT
1 TACGATTTTTT
38302825 TAC
1 TAC
38302828 AAATCTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (11 bp):
TACGATTTTTT
Found at i:38308100 original size:30 final size:30
Alignment explanation
Indices: 38308066--38308125 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
38308056 GCTAAATAAA
38308066 GGGTCTC-AGTTTTATTCATATTCATTCCTT
1 GGGTCTCGA-TTTTATTCATATTCATTCCTT
38308096 GGGTCTCGATTTTATTCATATTCATTCCTT
1 GGGTCTCGATTTTATTCATATTCATTCCTT
38308126 TTTCTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (30 bp):
GGGTCTCGATTTTATTCATATTCATTCCTT
Found at i:38312713 original size:40 final size:40
Alignment explanation
Indices: 38312668--38313570 Score: 1743
Period size: 40 Copynumber: 22.6 Consensus size: 40
38312658 CAAGCTCAAT
* * * * *
38312668 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
38312708 TGCCTTCGGGTCTTAGCCCAGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38312748 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38312788 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38312828 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38312868 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38312908 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38312948 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38312988 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313028 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313068 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313108 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313148 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313188 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313228 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313268 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313308 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313348 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313388 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313428 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313468 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313508 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
38313548 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
38313571 GTATTCAAAT
Statistics
Matches: 854, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 854 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:38317429 original size:41 final size:41
Alignment explanation
Indices: 38317372--38317454 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
38317362 TCAAACGGCA
*
38317372 AAAGCATCAAGTCCGCCGGAAAACAGGAACCTCGAATTACT
1 AAAGCATCAAGTCCGCCGGAAAACAAGAACCTCGAATTACT
38317413 AAAGCATCAAGTCCGCCGGAAAACAAGAACCTCGAATTACT
1 AAAGCATCAAGTCCGCCGGAAAACAAGAACCTCGAATTACT
38317454 A
1 A
38317455 GGGGACATCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.27, G:0.18, T:0.14
Consensus pattern (41 bp):
AAAGCATCAAGTCCGCCGGAAAACAAGAACCTCGAATTACT
Found at i:38320505 original size:40 final size:40
Alignment explanation
Indices: 38320460--38320562 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
38320450 CAAGCTCAAT
* * *
38320460 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAA
* *
38320500 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAA
38320540 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
38320563 GTATTCAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAA
Found at i:38321245 original size:63 final size:63
Alignment explanation
Indices: 38321168--38321297 Score: 242
Period size: 63 Copynumber: 2.1 Consensus size: 63
38321158 CTCGTATATC
* *
38321168 TTCCATCCATAAAATTTTCAGAATTTTAGGCTTGGTCAATCAATATCAGATTTTTCTTAAAGT
1 TTCCATCCATAAAATTTTCAGAATTTTAGGCTTGGCCAATCAATACCAGATTTTTCTTAAAGT
38321231 TTCCATCCATAAAATTTTCAGAATTTTAGGCTTGGCCAATCAATACCAGATTTTTCTTAAAGT
1 TTCCATCCATAAAATTTTCAGAATTTTAGGCTTGGCCAATCAATACCAGATTTTTCTTAAAGT
38321294 TTCC
1 TTCC
38321298 CCTGTTTCAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (63 bp):
TTCCATCCATAAAATTTTCAGAATTTTAGGCTTGGCCAATCAATACCAGATTTTTCTTAAAGT
Found at i:38322778 original size:41 final size:41
Alignment explanation
Indices: 38322732--38322816 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
38322722 TTAATTTATG
38322732 TTTTAATATAATATATGTTAACATACAAAATATTTTACTTA
1 TTTTAATATAATATATGTTAACATACAAAATATTTTACTTA
* *
38322773 TTTTAATATAATATATGTTAACATATAACATATTTTACTTA
1 TTTTAATATAATATATGTTAACATACAAAATATTTTACTTA
38322814 TTT
1 TTT
38322817 ATCCTTTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.49
Consensus pattern (41 bp):
TTTTAATATAATATATGTTAACATACAAAATATTTTACTTA
Found at i:38334791 original size:43 final size:42
Alignment explanation
Indices: 38334727--38334844 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 42
38334717 TCGTACAATA
* * * *
38334727 CAATGTCCCAGA-TGTGGTCTTAAATGTAATCAAATATCGATGC
1 CAATGTCCCAGACAG-GGTCTTAAACGAAATCAAATA-CAATGC
* *
38334770 CACTGTCCCAGACAGGGTCTTACACGAAATCAAATACAATGC
1 CAATGTCCCAGACAGGGTCTTAAACGAAATCAAATACAATGC
* * *
38334812 CAATGTCCTAGACATGGTCTTACACGTAAATCA
1 CAATGTCCCAGACAGGGTCTTAAACG-AAATCA
38334845 TAAGTCGGTG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.44
43 35 0.55
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
CAATGTCCCAGACAGGGTCTTAAACGAAATCAAATACAATGC
Found at i:38334825 original size:42 final size:43
Alignment explanation
Indices: 38334754--38334880 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 43
38334744 TCTTAAATGT
* *
38334754 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACG-A
1 AATCAAATA-CGATGCCAATGTCCTAGACAGGGTCTTACACGTA
* *
38334797 AATCAAATACAATGCCAATGTCCTAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAATGTCCTAGACAGGGTCTTACACGTA
* *
38334840 AATCATAAGT-CGGTGCCAACGTCCTAGAC-GTGGTCTTACAC
1 AATCA-AA-TACGATGCCAATGTCCTAGACAG-GGTCTTACAC
38334881 AAAAACACAT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 28 0.39
43 15 0.21
44 28 0.39
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
AATCAAATACGATGCCAATGTCCTAGACAGGGTCTTACACGTA
Found at i:38334867 original size:44 final size:42
Alignment explanation
Indices: 38334754--38334880 Score: 132
Period size: 44 Copynumber: 3.0 Consensus size: 42
38334744 TCTTAAATGT
* * *
38334754 AATCAAATATCGATGCC-ACTGTCCCAGACAGGGTCTTACACGA
1 AATCAAATA-CAATGCCAAC-GTCCTAGACATGGTCTTACACGA
*
38334797 AATCAAATACAATGCCAATGTCCTAGACATGGTCTTACACGTA
1 AATCAAATACAATGCCAACGTCCTAGACATGGTCTTACACG-A
** *
38334840 AATCATAAGT-CGGTGCCAACGTCCTAGACGTGGTCTTACAC
1 AATCA-AA-TACAATGCCAACGTCCTAGACATGGTCTTACAC
38334881 AAAAACACAT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 26 0.36
43 16 0.22
44 29 0.40
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
AATCAAATACAATGCCAACGTCCTAGACATGGTCTTACACGA
Found at i:38339929 original size:23 final size:23
Alignment explanation
Indices: 38339901--38339945 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
38339891 AACTTGGTTT
* *
38339901 AGAAGAGTTTAAATGCCATTTGA
1 AGAAGAGGTTAAATGCAATTTGA
*
38339924 AGAAGAGGTTATATGCAATTTG
1 AGAAGAGGTTAAATGCAATTTG
38339946 GTATGTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (23 bp):
AGAAGAGGTTAAATGCAATTTGA
Found at i:38348422 original size:27 final size:28
Alignment explanation
Indices: 38348362--38348424 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
38348352 TCAAAATTTA
*
38348362 TTATAATATTAAGTATAATTCAACATGT
1 TTATAATATTAAGTAAAATTCAACATGT
* *
38348390 TAATAAT-TTAAGTAAAATTTAACTAT-T
1 TTATAATATTAAGTAAAATTCAAC-ATGT
38348417 TTATAATA
1 TTATAATA
38348425 ATTATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 21 0.72
28 8 0.28
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (28 bp):
TTATAATATTAAGTAAAATTCAACATGT
Found at i:38349528 original size:17 final size:17
Alignment explanation
Indices: 38349506--38349539 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
38349496 TAACTTTATT
38349506 TTATTTT-TGTTCTTAGG
1 TTATTTTATGTT-TTAGG
38349523 TTATTTTATGTTTTAGG
1 TTATTTTATGTTTTAGG
38349540 ATTAGGTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.15, C:0.03, G:0.18, T:0.65
Consensus pattern (17 bp):
TTATTTTATGTTTTAGG
Found at i:38357748 original size:18 final size:19
Alignment explanation
Indices: 38357725--38357761 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38357715 ACTTCGGTAT
38357725 ATTTGGGCT-ATGGGCCAA
1 ATTTGGGCTAATGGGCCAA
*
38357743 ATTTGGGTTAATGGGCCAA
1 ATTTGGGCTAATGGGCCAA
38357762 CGGGCCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (19 bp):
ATTTGGGCTAATGGGCCAA
Found at i:38358065 original size:28 final size:27
Alignment explanation
Indices: 38358025--38358111 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
38358015 GGTAGAAGCA
38358025 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
38358053 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * **
38358080 ATCTGGTGACTCTATCACAATATCTG-
1 TTCTGGTGGCTCTGCCACAATATCTGT
38358106 TTCTGG
1 TTCTGG
38358112 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 5 0.09
27 31 0.57
28 18 0.33
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:38361244 original size:42 final size:41
Alignment explanation
Indices: 38361186--38361274 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 41
38361176 ATGTGTGCAT
38361186 GTGTGGCCTTTTCGAAGGGTACACAGG-CTAGACACATAGAC
1 GTGTGGCCTTTTCGAAGGGTACAC-GGCCTAGACACATAGAC
* *
38361227 GTGTGCGCCTTTTCGAAGGGTACACGGCCTAGACACATGGGC
1 GTGTG-GCCTTTTCGAAGGGTACACGGCCTAGACACATAGAC
38361269 GTGTGG
1 GTGTGG
38361275 TTGGCCGTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 8 0.18
42 36 0.82
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.22
Consensus pattern (41 bp):
GTGTGGCCTTTTCGAAGGGTACACGGCCTAGACACATAGAC
Found at i:38364395 original size:13 final size:13
Alignment explanation
Indices: 38364379--38364411 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38364369 TTTAATTAAA
*
38364379 TTAGTTAATTAGT
1 TTAGATAATTAGT
38364392 TTAGATAATTAGT
1 TTAGATAATTAGT
38364405 TTA-ATAA
1 TTAGATAA
38364412 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:38376046 original size:40 final size:40
Alignment explanation
Indices: 38376002--38376265 Score: 388
Period size: 40 Copynumber: 6.6 Consensus size: 40
38375992 AAGTGAATAT
* * * * **
38376002 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
38376042 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
38376082 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
38376122 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
38376162 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
38376202 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
38376241 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
38376266 TGAACGAGGA
Statistics
Matches: 211, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 35 0.17
40 176 0.83
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:38376100 original size:80 final size:80
Alignment explanation
Indices: 38375963--38376265 Score: 389
Period size: 80 Copynumber: 3.8 Consensus size: 80
38375953 TTGAATGCTG
* * * * * * *
38375963 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
* * **
38376025 TTTGTGCGAGATACTAAA
63 TTCGTGCGAGTTGTTAAA
38376043 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
38376108 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
38376123 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
38376188 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
* * ** * * *
38376203 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT
38376266 TGAACGAGGA
Statistics
Matches: 202, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
79 34 0.17
80 160 0.79
81 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTGTTAAA
Found at i:38376176 original size:120 final size:119
Alignment explanation
Indices: 38375963--38376265 Score: 396
Period size: 120 Copynumber: 2.5 Consensus size: 119
38375953 TTGAATGCTG
* * * * * *
38375963 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
*
38376026 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
63 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
38376083 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTC
* **
38376148 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * * * *
38376203 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATT
38376266 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
119 34 0.21
120 122 0.75
121 6 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:38407215 original size:50 final size:50
Alignment explanation
Indices: 38407150--38407538 Score: 325
Period size: 50 Copynumber: 7.7 Consensus size: 50
38407140 ACCGAAGCTC
* *
38407150 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* *** * * * * * *
38407200 TCTGGTACATGTAGTAGCCTATGCTTGGTACTATACACGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* **
38407250 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGT-T-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACT--ACACATG--CGACCTATCAA
* * * *
38407302 T-GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * *
38407351 TCCGGTACACGTAGTAACCTGCACTTAGTACTACACATGTGACCTACCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * * * * * * ** * *
38407401 TCTGATACACGTAATAGCTTGCACATAGTACTACATACGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCTATCAA
* * * * * *
38407452 TCGGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCGAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* *
38407502 TCTGGTACACGTAGTAGCCTGCACTTAATCCTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
38407539 CGTGACCAAA
Statistics
Matches: 262, Mismatches: 69, Indels: 16
0.76 0.20 0.05
Matches are distributed among these distances:
47 3 0.01
48 1 0.00
49 10 0.04
50 174 0.66
51 63 0.24
52 7 0.03
53 1 0.00
54 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:38407424 original size:151 final size:151
Alignment explanation
Indices: 38407153--38407545 Score: 554
Period size: 151 Copynumber: 2.6 Consensus size: 151
38407143 GAAGCTCTCT
*
38407153 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*** * * * * * *
38407218 CTATGCTTGGTACTATACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTACCCATCTGATACACGTAATAGCCTGCACATAGTACTA
**
38407283 CACACATGATCGAAGTTAAT-G
131 CACACATGATCGAAACT-ATCG
* * *
38407304 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCCGGTACACGTAGTAAC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
38407369 CTGCACTTAGTACTACACATGTGACCTACCCATCTGATACACGTAATAGCTTGCACATAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTACCCATCTGATACACGTAATAGCCTGCACATAGTACTA
* *
38407434 CATACGTGATCGAAACTATCG
131 CACACATGATCGAAACTATCG
* * *
38407455 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCGAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
38407520 CTGCACTTAATCCTACACACGTGACC
66 CTGCACTTAGTACTACACACGTGACC
38407546 AAAAACTGTC
Statistics
Matches: 213, Mismatches: 28, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
150 2 0.01
151 211 0.99
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTACCCATCTGATACACGTAATAGCCTGCACATAGTACTA
CACACATGATCGAAACTATCG
Found at i:38407591 original size:102 final size:101
Alignment explanation
Indices: 38407362--38407592 Score: 273
Period size: 101 Copynumber: 2.3 Consensus size: 101
38407352 CCGGTACACG
* * * * * * *
38407362 TAGTAACCTGCACTTAGTACTACACATGTGACCTACCCATCTGATACACGTAATAGCTTGCACAT
1 TAGTAGCCTGCACATAGTACTACACATGCGACCGAACAATCTGATACACGTAATAGCCTGCACAT
* * * * ***
38407427 AGTACTACATACGTGATCGAAACTATCGGGTACGCA
66 AATACTACACACGTGACCAAAACTATCGCAAACGCA
* * *
38407463 TAGTAGCCTGCACATAGTACTACACATGCGACCGAACAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACATAGTACTACACATGCGACCGAACAATCTGATACACGTAATAGCCTGCACAT
* * *
38407528 AATCCTACACACGTGACCAAAAACTGTCTCAAACGCA
66 AATACTACACACGTGACC-AAAACTATCGCAAACGCA
38407565 TAGTAGCCTGCACATAGTACTACACATG
1 TAGTAGCCTGCACATAGTACTACACATG
38407593 TGTTCTCAGA
Statistics
Matches: 109, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
101 69 0.63
102 40 0.37
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (101 bp):
TAGTAGCCTGCACATAGTACTACACATGCGACCGAACAATCTGATACACGTAATAGCCTGCACAT
AATACTACACACGTGACCAAAACTATCGCAAACGCA
Found at i:38415574 original size:48 final size:47
Alignment explanation
Indices: 38415456--38415834 Score: 311
Period size: 48 Copynumber: 7.9 Consensus size: 47
38415446 GGTAAGATGC
* * *
38415456 CGATACCATGT-CCAATACATGGTCTTACACTGGCTCTCATATATCG-GTG
1 CGATGCCATGTCCCAA-ACATGGTCTTACACTAG--CTCACATATCGAG-G
* *
38415505 CCGATGCCATGTTCCAAACATGGTCTTACACTACCTCACA-AGTCGAGG
1 -CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA-TCGAGG
* * ** *
38415553 CAGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGT
1 C-GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGA-GG
* * * * *
38415602 CGATGCCATGTTCAAAACATGGTCTTACACTGGATTACATATCGAGG
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGG
* * ** *
38415649 TCGATGCCATGTCCCAGACATGGTCTTACACTATCT-ATCATATAAATGT
1 -CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCA-CATATCGA-GG
* * *
38415698 CGATGCCATG-CTCCAAACATGGTCTTACACTGGCTCACATATCAAAGC
1 CGATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATC-GAGG
* * * * *
38415746 CGACGCCATGTCCCAAACATGGTCTTACAATAGCTCTCATA-CAAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC-GA-GG
* *
38415794 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
38415835 ACCCTAGTAT
Statistics
Matches: 270, Mismatches: 45, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
47 9 0.03
48 223 0.83
49 9 0.03
50 25 0.09
51 4 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGG
Found at i:38415647 original size:96 final size:95
Alignment explanation
Indices: 38415456--38415834 Score: 508
Period size: 96 Copynumber: 3.9 Consensus size: 95
38415446 GGTAAGATGC
* * * * ** *
38415456 CGATACCATGTCCAATACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGTCGATGCCATGTTCCA
**
38415521 AACATGGTCTTACACTACCTCACA-AGTCGAGG
64 AACATGGTCTTACACTGGCTCACATA-TCGAGG
*
38415553 CAGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCAAA
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAA
* *
38415618 ACATGGTCTTACACTGGATTACATATCGAGG
65 ACATGGTCTTACACTGGCTCACATATCGAGG
* * *
38415649 TCGATGCCATGTCCCAGACATGGTCTTACACTATCTATCATATAAATGTCGATGCCATGCTCCAA
1 -CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAA
* *
38415714 ACATGGTCTTACACTGGCTCACATATCAAAGC
65 ACATGGTCTTACACTGGCTCACATATC-GAGG
* * * *
38415746 CGACGCCATGTCCCAAACATGGTCTTACAATAGCTCTCATACAAATGTCGATGCCATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAAA
38415811 CATGGTCTTACACTGGCTCACATA
66 CATGGTCTTACACTGGCTCACATA
38415835 ACCCTAGTAT
Statistics
Matches: 251, Mismatches: 27, Indels: 9
0.87 0.09 0.03
Matches are distributed among these distances:
96 208 0.83
97 5 0.02
98 38 0.15
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAAA
CATGGTCTTACACTGGCTCACATATCGAGG
Found at i:38415723 original size:144 final size:145
Alignment explanation
Indices: 38415454--38415824 Score: 409
Period size: 144 Copynumber: 2.6 Consensus size: 145
38415444 AAGGTAAGAT
* * * *
38415454 GCCGATACCATGTCCAATACATGGTCTTACACTGGCTCTCATATATCG-GTGCCGATGCCATGTT
1 GCCGATGCCATGTCCAAAACATGGTCTTACACTGGCTCT-ACATATCGAG-GTCGATGCCATGTT
** *
38415518 CCAAACATGGTCTTACACTACCTCACAAGTCGAGGCAGATGCCATGTCCCAGACATGGTCTTACA
64 CCAAACATGGTCTTACACTACCTCACAAGTAAAGGCAGATGCCATGTCCCAAACATGGTCTTACA
*
38415583 CTAGCTCTCATAT-AAA
129 CTAGCTCACATATCAAA
* * * *
38415599 TGTCGATGCCATGTTCAAAACATGGTCTTACACTGGAT-TACATATCGAGGTCGATGCCATGTCC
1 -GCCGATGCCATGTCCAAAACATGGTCTTACACTGGCTCTACATATCGAGGTCGATGCCATGTTC
* * *
38415663 CAGACATGGTCTTACACTATCT-ATCATA-TAAATGTC-GATGCCATG-CTCCAAACATGGTCTT
65 CAAACATGGTCTTACACTACCTCA-CA-AGTAAA-GGCAGATGCCATGTC-CCAAACATGGTCTT
*
38415724 ACACTGGCTCACATATCAAA
126 ACACTAGCTCACATATCAAA
* * * * * *
38415744 GCCGACGCCATGTCCCAAACATGGTCTTACAATAGCTCT-CATA-CAAATGTCGATGCCATGTTC
1 GCCGATGCCATGTCCAAAACATGGTCTTACACTGGCTCTACATATC-GAGGTCGATGCCATGTTC
38415807 CAAACATGGTCTTACACT
65 CAAACATGGTCTTACACT
38415825 GGCTCACATA
Statistics
Matches: 190, Mismatches: 27, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
143 3 0.02
144 146 0.77
145 9 0.05
146 32 0.17
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (145 bp):
GCCGATGCCATGTCCAAAACATGGTCTTACACTGGCTCTACATATCGAGGTCGATGCCATGTTCC
AAACATGGTCTTACACTACCTCACAAGTAAAGGCAGATGCCATGTCCCAAACATGGTCTTACACT
AGCTCACATATCAAA
Found at i:38416636 original size:18 final size:18
Alignment explanation
Indices: 38416613--38416649 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
38416603 AAGAGAAAGA
*
38416613 ATGAAAAATATGATAGCT
1 ATGAAAAAGATGATAGCT
38416631 ATGAAAAAGATGATAGCT
1 ATGAAAAAGATGATAGCT
38416649 A
1 A
38416650 GTCCTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.19, T:0.24
Consensus pattern (18 bp):
ATGAAAAAGATGATAGCT
Found at i:38422928 original size:28 final size:28
Alignment explanation
Indices: 38422880--38422944 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
38422870 GCGTCCCTAG
38422880 CCCGTGTCCCCCAAATAGCCTAGACACA
1 CCCGTGTCCCCCAAATAGCCTAGACACA
* * * *
38422908 CCCGTGTCCCTCACATGGCCTAGACACG
1 CCCGTGTCCCCCAAATAGCCTAGACACA
38422936 CCCGTGTCC
1 CCCGTGTCC
38422945 AAAAACATGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.45, G:0.18, T:0.17
Consensus pattern (28 bp):
CCCGTGTCCCCCAAATAGCCTAGACACA
Found at i:38428989 original size:48 final size:48
Alignment explanation
Indices: 38428880--38429252 Score: 367
Period size: 48 Copynumber: 7.7 Consensus size: 48
38428870 ATGCCAATGT
* * *
38428880 CATGT-CCAAGACATGGTCTTACACTGGTTCTCATATATCG-GTGCCAATGC
1 CATGTCCCAA-ACATGGTCTTACACTAG--CTCACATATCGAG-GCCGATGC
* *
38428930 CATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* * ** ** * *
38428978 CATGTCCCAAACATGGTCTTACATTAGCTCTCATATAAATACCAACGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* * *
38429026 CATG-CTCCAAACATGGTCTTACACTGGCTTACATATCGAGGTCGATGC
1 CATGTC-CCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* * * ** * * *
38429074 CATGTCCCAGACATGGTCTTACACTAGTTCTCATATAAATGTCGATGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* *
38429122 CATG-CTCCAAACATGGTCTTACACTGGCTCACATATCGAAGCCGATGC
1 CATGTC-CCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* ** * *
38429170 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGC
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
* *
38429218 CATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CATGTCCCAAACATGGTCTTACACTAGCTCACATA
38429253 ACCCTAGTAT
Statistics
Matches: 265, Mismatches: 52, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
47 2 0.01
48 235 0.89
49 3 0.01
50 21 0.08
51 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGC
Found at i:38429065 original size:96 final size:96
Alignment explanation
Indices: 38428880--38429252 Score: 523
Period size: 96 Copynumber: 3.9 Consensus size: 96
38428870 ATGCCAATGT
* * ** *
38428880 CATGT-CCAAGACATGGTCTTACACTGGTTCTCATATATCGGTGCCAATGCCATGTTCCAAACAT
1 CATGTCCCAA-ACATGGTCTTACACTAGCTCTCATATA--AATGCCAATGCCATGCTCCAAACAT
* *
38428944 GGTCTTACACTAGCTCACATGTCGAGGCCGATGC
63 GGTCTTACACTGGCTCACATATCGAGGCCGATGC
* * *
38428978 CATGTCCCAAACATGGTCTTACATTAGCTCTCATATAAATACCAACGCCATGCTCCAAACATGGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGCTCCAAACATGGT
* *
38429043 CTTACACTGGCTTACATATCGAGGTCGATGC
66 CTTACACTGGCTCACATATCGAGGCCGATGC
* * * * *
38429074 CATGTCCCAGACATGGTCTTACACTAGTTCTCATATAAATGTCGATGTCATGCTCCAAACATGGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGCTCCAAACATGGT
*
38429139 CTTACACTGGCTCACATATCGAAGCCGATGC
66 CTTACACTGGCTCACATATCGAGGCCGATGC
* * *
38429170 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCAAACATGGT
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGCTCCAAACATGGT
38429235 CTTACACTGGCTCACATA
66 CTTACACTGGCTCACATA
38429253 ACCCTAGTAT
Statistics
Matches: 247, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
96 214 0.87
98 29 0.12
99 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (96 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGCTCCAAACATGGT
CTTACACTGGCTCACATATCGAGGCCGATGC
Found at i:38434570 original size:24 final size:24
Alignment explanation
Indices: 38434543--38434591 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
38434533 TATGTACAAC
38434543 ACAATTGAAGGGTGATCACATTAA
1 ACAATTGAAGGGTGATCACATTAA
*
38434567 ACAATTGAAGGGTGATTACATTAA
1 ACAATTGAAGGGTGATCACATTAA
38434591 A
1 A
38434592 GGTGATAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (24 bp):
ACAATTGAAGGGTGATCACATTAA
Found at i:38435992 original size:11 final size:11
Alignment explanation
Indices: 38435976--38436016 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
38435966 TGTTTACTTT
38435976 CTATTTTGCTA
1 CTATTTTGCTA
*
38435987 CTATTTTACTA
1 CTATTTTGCTA
* *
38435998 TTATGTTGCTA
1 CTATTTTGCTA
38436009 CTATTTTG
1 CTATTTTG
38436017 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:38436086 original size:30 final size:30
Alignment explanation
Indices: 38436052--38436115 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
38436042 AACTTATTTT
*
38436052 TTTGTTAATTTTGTTATTATTTTAAAGGCA
1 TTTGTTAATTTTGTTATTATTTTAAAGACA
*
38436082 TTTGTTAATTTTGTTATTATTTTAGAGACA
1 TTTGTTAATTTTGTTATTATTTTAAAGACA
38436112 TTTG
1 TTTG
38436116 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (30 bp):
TTTGTTAATTTTGTTATTATTTTAAAGACA
Found at i:38436261 original size:13 final size:13
Alignment explanation
Indices: 38436237--38436273 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
38436227 TATACATTAT
38436237 TAAAAAATT-ATA
1 TAAAAAATTAATA
38436249 T-AAAAA-TAATA
1 TAAAAAATTAATA
38436260 TAAAAAATTAATA
1 TAAAAAATTAATA
38436273 T
1 T
38436274 TGGGTAGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.05
11 9 0.41
12 6 0.27
13 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:38436726 original size:31 final size:30
Alignment explanation
Indices: 38436656--38436727 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
38436646 AAGTCCATTC
* * *
38436656 ATTATTTTTTTTAATTTTAAATATATTTTT
1 ATTATTTTATTTAATTTTAAATAAATTTAT
38436686 ATTATTTTTATTTAATATTT-AATAAATTTAT
1 ATTA-TTTTATTTAAT-TTTAAATAAATTTAT
38436717 ATATATTTTAT
1 AT-TATTTTAT
38436728 ATTTCCATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 4 0.11
31 27 0.75
32 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
ATTATTTTATTTAATTTTAAATAAATTTAT
Found at i:38437639 original size:87 final size:89
Alignment explanation
Indices: 38437435--38437698 Score: 311
Period size: 87 Copynumber: 3.0 Consensus size: 89
38437425 ATTTCAGACC
* * *
38437435 ACTTAATTTAGAGTTAAAATGGTAATTTTCC-TTTTCACCTTTATACTTGAAATCAGTATATTTT
1 ACTTAATTTGGAGTTCAAATGGTAATTTTCCTTTTTCACCTTTATACTTGAAATCAGTATATTGT
*
38437499 TGTTCAATTGAACTCTGTACTTGT
66 TGTTCAATTGAACTCTGAACTTGT
* * * *
38437523 ACTTAATTTGAAATTCAAATGGTAATTTTCCTTTTTCACCTTTATACTTGAAATTAGTTTTATTG
1 ACTTAATTTGGAGTTCAAATGGTAATTTTCCTTTTTCACCTTTATACTTGAAATCAG-TATATTG
* *
38437588 TT-TTCAGTTGAATTC-GAACTT-T
65 TTGTTCAATTGAACTCTGAACTTGT
* * * * *
38437610 ACTTAATTTGGAGTTCAGATGGTAGTTTTCCTTTTTCACCTTTACACTTGAAATCAATACATGTT
1 ACTTAATTTGGAGTTCAAATGGTAATTTTCCTTTTTCACCTTTATACTTGAAATCAGT--ATATT
* * *
38437675 TTTTTTCATTTGAACTCTGAACTT
64 GTTGTTCAATTGAACTCTGAACTT
38437699 ATTGATAAGT
Statistics
Matches: 148, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
86 1 0.01
87 51 0.34
88 37 0.25
89 46 0.31
90 13 0.09
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.47
Consensus pattern (89 bp):
ACTTAATTTGGAGTTCAAATGGTAATTTTCCTTTTTCACCTTTATACTTGAAATCAGTATATTGT
TGTTCAATTGAACTCTGAACTTGT
Found at i:38441254 original size:27 final size:27
Alignment explanation
Indices: 38441209--38441262 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
38441199 TATGCTATTC
*
38441209 TGAAACTACTATAGGTAGTATATACTG
1 TGAAAATACTATAGGTAGTATATACTG
* *
38441236 TGAAAATACTTTAGTTAGTATATACTG
1 TGAAAATACTATAGGTAGTATATACTG
38441263 AAAACTATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (27 bp):
TGAAAATACTATAGGTAGTATATACTG
Found at i:38441295 original size:16 final size:18
Alignment explanation
Indices: 38441259--38441296 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
38441249 GTTAGTATAT
38441259 ACTGAAAACTATAGTTAA
1 ACTGAAAACTATAGTTAA
38441277 ACTG-AAACTATAG-TAA
1 ACTGAAAACTATAGTTAA
38441293 ACTG
1 ACTG
38441297 CTAGAGACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (18 bp):
ACTGAAAACTATAGTTAA
Found at i:38452784 original size:42 final size:42
Alignment explanation
Indices: 38452738--38452889 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
38452728 CTAAGACTAT
* *
38452738 GTGTAAGATCATATCTGGGATAT-GACATCTATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGA-ATCGATATGAGACTTC
38452780 GTGTATA-ACCATATCTGGGATATGGAATCGATATGAGACTTC
1 GTGTA-AGACCATATCTGGGATATGGAATCGATATGAGACTTC
** * * * * *
38452822 GTGTAAGACCATGGCTTGGCTATTGGCATCGATACGAGA-TCC
1 GTGTAAGACCATATCTGGGATA-TGGAATCGATATGAGACTTC
*
38452864 TATGTAAGACCATATCTGGGATATGG
1 -GTGTAAGACCATATCTGGGATATGG
38452890 CATTGGTATG
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 56 0.62
43 34 0.37
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGAATCGATATGAGACTTC
Done.