Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 86 of 332
Found at i:27150178 original size:28 final size:28
Alignment explanation
Indices: 27150115--27150212 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
27150105 TTATTAAGTC
*
27150115 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
27150142 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
27150170 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
27150199 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27150213 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27154986 original size:21 final size:20
Alignment explanation
Indices: 27154957--27154996 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27154947 CATACGTGTT
27154957 AATAAATAAAATAATAAAAAA
1 AATAAATAAAATAA-AAAAAA
* *
27154978 AATATATAATATAAAAAAA
1 AATAAATAAAATAAAAAAA
27154997 TAGGCAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AATAAATAAAATAAAAAAAA
Found at i:27154988 original size:16 final size:17
Alignment explanation
Indices: 27154967--27154998 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27154957 AATAAATAAA
27154967 ATAATA-AAAAAAATAT
1 ATAATATAAAAAAATAT
27154983 ATAATATAAAAAAATA
1 ATAATATAAAAAAATA
27154999 GGCAATAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
ATAATATAAAAAAATAT
Found at i:27168774 original size:47 final size:47
Alignment explanation
Indices: 27168705--27168878 Score: 165
Period size: 47 Copynumber: 3.6 Consensus size: 47
27168695 CGTAATGCCA
*
27168705 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCAACAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAACAAGTCG
* * * * *
27168752 ATGCCATGTCCCAGACATGGTCTTTCACTGACT-ATCGAA-ATTGACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAACA-AGTC-G
* * * * **
27168799 ACGCCATGTCCCAGACTTGGTCTTACATTGGCTC-TCACACCTTCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CAAC-AAGT--CG
27168849 ATGCCATGTCCCAGACATGGTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
27168879 ACACATCTCG
Statistics
Matches: 100, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
45 1 0.01
46 7 0.07
47 61 0.61
48 1 0.01
49 1 0.01
50 28 0.28
51 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAACAAGTCG
Found at i:27168931 original size:46 final size:47
Alignment explanation
Indices: 27168803--27169061 Score: 187
Period size: 46 Copynumber: 5.5 Consensus size: 47
27168793 TGACTGACGC
* * *
27168803 CATGTCCCAGACTTGGTCTTACATTGGCTCTCACACCTTCGT-GCCGATG
1 CATGTCCCAGAC-AGGTCTTACACTGGCTCT-ACATC-TCGTAGCCGATG
*
27168852 CCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTCGTAGCCGATG
1 -CATGTCCCAGACA-GGTCTTACACTGGCTCTACATCTCGTAGCCGATG
* * * * *
27168898 CATGGCCCAGACACGTCTTACACTGGCT-TACATCTC-AAGGTCAATG
1 CATGTCCCAGACAGGTCTTACACTGGCTCTACATCTCGTA-GCCGATG
* * * * *
27168944 CATGTCCTAGACATGTCTTATACTAGCTCT-CGTCTCGATA-CCGATG
1 CATGTCCCAGACAGGTCTTACACTGGCTCTACATCTCG-TAGCCGATG
* * *
27168990 CTATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATG
1 C-ATGTCCCAGACA-GGTCTTACACTGGCTCTACAT-CTCGTAGCCGATG
* *
27169038 CATGTCCTAGACATGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
27169062 AGCGCACAAA
Statistics
Matches: 166, Mismatches: 30, Indels: 30
0.73 0.13 0.13
Matches are distributed among these distances:
44 10 0.06
45 18 0.11
46 66 0.40
47 22 0.13
48 26 0.16
49 2 0.01
50 22 0.13
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACAGGTCTTACACTGGCTCTACATCTCGTAGCCGATG
Found at i:27195961 original size:43 final size:43
Alignment explanation
Indices: 27195912--27195995 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
27195902 TGTGATTCTG
**
27195912 ATATGTGTTTACAAGTAAAACC-CTGTCTGGGACAG-TGGCATCA
1 ATATGTGGCTACAAGTAAAACCAC-GTCTGGGAC-GTTGGCATCA
* *
27195955 ATATGTGGCTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGGCTACAAGTAAAACCACGTCTGGGACGTTGGCAT
27195996 TGTACGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 33 0.94
44 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
ATATGTGGCTACAAGTAAAACCACGTCTGGGACGTTGGCATCA
Found at i:27201177 original size:30 final size:30
Alignment explanation
Indices: 27201143--27201203 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
27201133 TTCCCAAGCC
27201143 TAGGGGCAAAAGTGTAAATATGCAAAATTT
1 TAGGGGCAAAAGTGTAAATATGCAAAATTT
* * * *
27201173 TAGGGGCAAAATTGTAATTTTTCAAAATTT
1 TAGGGGCAAAAGTGTAAATATGCAAAATTT
27201203 T
1 T
27201204 GAATTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAATTT
Found at i:27208364 original size:23 final size:23
Alignment explanation
Indices: 27208334--27208382 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
27208324 AAGCTGAACA
27208334 TGCTGAACATTTGAGACTTGTGT
1 TGCTGAACATTTGAGACTTGTGT
27208357 TGCTGAACATTTGAGACTTGTGT
1 TGCTGAACATTTGAGACTTGTGT
27208380 TGC
1 TGC
27208383 AGACTTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (23 bp):
TGCTGAACATTTGAGACTTGTGT
Found at i:27210527 original size:27 final size:26
Alignment explanation
Indices: 27210479--27210538 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
27210469 GCGAGGCTGC
*
27210479 TAGATATTGTGACGAAGTCACCAGATA
1 TAGATATTGTGACGAAGCCACCAGA-A
* * *
27210506 TAGATATTGTGGCTAGGCCACCAGAA
1 TAGATATTGTGACGAAGCCACCAGAA
*
27210532 CAGATAT
1 TAGATAT
27210539 ATATATATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (26 bp):
TAGATATTGTGACGAAGCCACCAGAA
Found at i:27211386 original size:81 final size:81
Alignment explanation
Indices: 27211300--27211471 Score: 265
Period size: 81 Copynumber: 2.1 Consensus size: 81
27211290 AGGTATCTCT
* * *
27211300 GTAATTTTACCCTACAGAGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATC
1 GTAATTCTACCCTACAGAGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTAATTCTA-C
27211365 C-TACAGGGGTATTTTG
65 CTTACAGGGGTATTTTG
* * *
27211381 GTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTGGTAATTCTACC
1 GTAATTCTACCCTACAGAGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
27211446 TTATAGGGGTATTTTG
66 TTACAGGGGTATTTTG
27211462 GTAATTCTAC
1 GTAATTCTAC
27211472 AACTTATCCA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 2 0.02
81 81 0.98
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (81 bp):
GTAATTCTACCCTACAGAGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
TTACAGGGGTATTTTG
Found at i:27211439 original size:27 final size:27
Alignment explanation
Indices: 27211272--27211471 Score: 229
Period size: 27 Copynumber: 7.4 Consensus size: 27
27211262 GGGGCAAAAT
* * ** *
27211272 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
27211299 TGTAATTTTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
27211326 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
27211353 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
27211380 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
27211407 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
27211434 GGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
27211461 GGTAATTCTAC
1 GGTAATTCTAC
27211472 AACTTATCCA
Statistics
Matches: 150, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:27224716 original size:28 final size:28
Alignment explanation
Indices: 27224685--27224839 Score: 204
Period size: 28 Copynumber: 5.5 Consensus size: 28
27224675 ATAGTAAGTC
27224685 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
27224713 CGCACACTTAGTGCTTA-ATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
*
27224741 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
*
27224770 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
* * ** * *
27224798 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGTTATATAA-TCAAACT
27224827 CGCACACTTAGTG
1 CGCACACTTAGTG
27224840 CCAATCTCAT
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
28 72 0.62
29 44 0.38
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGTTATATAATCAAACT
Found at i:27224772 original size:57 final size:57
Alignment explanation
Indices: 27224685--27224840 Score: 219
Period size: 57 Copynumber: 2.8 Consensus size: 57
27224675 ATAGTAAGTC
*
27224685 CGCACACTTAGTG-TTATATAATCAAACTCGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTAT-ATAATCAAACT
27224741 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
27224798 TGCACACTTAGTGCTATGCA-ATTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCT-TACATAATCAAACTCGCACACTTAGTGC
27224841 CAATCTCATG
Statistics
Matches: 91, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 13 0.14
57 74 0.81
58 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:27229486 original size:39 final size:39
Alignment explanation
Indices: 27229443--27229595 Score: 202
Period size: 39 Copynumber: 3.9 Consensus size: 39
27229433 CCAGACATAT
** *
27229443 TTCCAGCATGTAGCCTGCGGAC-CTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACTC-TAAGTCCGGATATAA
*
27229482 TTCCATCACATAGCCTGCGGAC-CTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACTC-TAAGTCCGGATATAA
*
27229521 TTCCAGCACATAGCCTGCGGACTCTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACTCTAAGTCCGGATATAA
** *
27229560 TTTTAGCACATAGCCTGCGGACTCTAAGTCCAGATA
1 TTCCAGCACATAGCCTGCGGACTCTAAGTCCGGATA
27229596 AACATCACTG
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 104 0.99
40 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTCTAAGTCCGGATATAA
Found at i:27229497 original size:78 final size:78
Alignment explanation
Indices: 27229415--27229593 Score: 173
Period size: 78 Copynumber: 2.3 Consensus size: 78
27229405 ACCAGCTCGA
* * * ** * *
27229415 AGCCTATGGAACTTTAGCCCAGACATATTTCCAGCATGTAGCCTGCGGAC-CTTAAGTCCGGTTA
1 AGCCTACGGAACTTAAGCCCAGACATAATTCCAGCACATAGCCTGCGGACTC-TAAGTCCAGATA
*
27229479 TAATTCCATCACAT
65 TAATTCCAGCACAT
* * * * *
27229493 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACTCTAAGTCCAGATAT
1 AGCCTACGGAACTTAAGCCCAGACATAATTCCAGCACATAGCCTGCGGACTCTAAGTCCAGATAT
**
27229558 AATTTTAGCACAT
66 AATTCCAGCACAT
* *
27229571 AGCCTGCGG-ACTCTAAGTCCAGA
1 AGCCTACGGAACT-TAAGCCCAGA
27229594 TAAACATCAC
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
77 2 0.02
78 79 0.96
79 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (78 bp):
AGCCTACGGAACTTAAGCCCAGACATAATTCCAGCACATAGCCTGCGGACTCTAAGTCCAGATAT
AATTCCAGCACAT
Found at i:27237818 original size:39 final size:39
Alignment explanation
Indices: 27237638--27237812 Score: 212
Period size: 39 Copynumber: 4.5 Consensus size: 39
27237628 ACTAGCTCGA
* * * * *
27237638 AGCCTGCGGGA-CTTTAGCCCAGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCAGATATAATTCCAGCACAT
* *
27237677 AGCCTGCGGACCTTAAGTCTAGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCAGATATAATTCCAGCACAT
* *
27237716 AGCCTACGGACCTTAAGTCCAGATATAATTCCATCACAT
1 AGCCTGCGGACCTTAAGTCCAGATATAATTCCAGCACAT
*
27237755 AGCCTGCGGA-CTCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCT-TAAGTCCAGATATAATTCCAGCACAT
27237794 AGCCTGCGGA-CTCTAAGTC
1 AGCCTGCGGACCT-TAAGTC
27237813 TGGATAAACA
Statistics
Matches: 120, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 5 0.04
39 115 0.96
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCAGATATAATTCCAGCACAT
Found at i:27241980 original size:49 final size:50
Alignment explanation
Indices: 27241898--27242145 Score: 304
Period size: 49 Copynumber: 5.0 Consensus size: 50
27241888 TGATCTATTG
*
27241898 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
* * * *
27241948 TT-GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCA-ATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA
* * * * **
27241997 CTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
* * *
27242048 TTAGGTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACTAGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
* * *
27242098 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
27242146 GCTTTGGCTA
Statistics
Matches: 167, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
49 78 0.47
50 54 0.32
51 35 0.21
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
Found at i:27242037 original size:28 final size:28
Alignment explanation
Indices: 27242005--27242088 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
27241995 AACTTCGATC
27242005 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
27242033 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
27242055 ACGTGTGTAGTACTAAGTGCATGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
27242083 ACGTGT
1 ACGTGT
27242089 ACTAGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.07
25 5 0.12
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:27247259 original size:78 final size:79
Alignment explanation
Indices: 27247118--27247275 Score: 300
Period size: 78 Copynumber: 2.0 Consensus size: 79
27247108 GAATAGAAAC
*
27247118 GATACGAATGATCTATTGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACGGAT
1 GATACGAATGATCTATTGTGAGGTCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTACGGAT
27247183 AATTGGTCGCATGT
66 AATTGGTCGCATGT
27247197 GATACGAATGATCTATTGTGAGGTCACGT-TGTACTACTAAGTGCAGGCTACTACGTGTACGGAT
1 GATACGAATGATCTATTGTGAGGTCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTACGGAT
27247261 AATTGGTCGCATGT
66 AATTGGTCGCATGT
27247275 G
1 G
27247276 TAGTACTATG
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
78 49 0.63
79 29 0.37
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (79 bp):
GATACGAATGATCTATTGTGAGGTCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTACGGAT
AATTGGTCGCATGT
Found at i:27247345 original size:99 final size:99
Alignment explanation
Indices: 27247219--27247444 Score: 278
Period size: 99 Copynumber: 2.3 Consensus size: 99
27247209 CTATTGTGAG
* * *
27247219 GTCACGT-TGTACTACTAAGTGCAGGCTACTACGTGTA-CGGATAATT-GGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTAGGTCACATGTGTAGTA
* * * *
27247281 CTATGTGTAGGCTACAATGCCTACCCGATAACTTC
66 CTAAGTGCAGGCTACAACGCCTACCAGATAA-TTC
**
27247316 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGT
1 G-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTAGGTCACATGTGTAGT
* ** *
27247381 ACTAAGTGCAGGCTACTACGTGTACCAGATAATTT
65 ACTAAGTGCAGGCTACAACGCCTACCAGATAATTC
* *
27247416 GTCGCATGTGTAGTACTAAGTGCAGGCTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTA
27247445 ATATGCATAG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
97 1 0.01
98 6 0.05
99 55 0.50
100 9 0.08
101 39 0.35
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (99 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTAGGTCACATGTGTAGTA
CTAAGTGCAGGCTACAACGCCTACCAGATAATTC
Found at i:27247385 original size:50 final size:49
Alignment explanation
Indices: 27247218--27247444 Score: 251
Period size: 50 Copynumber: 4.6 Consensus size: 49
27247208 TCTATTGTGA
* * *
27247218 GGTCACGT-TGTACTACTAAGTGCAGGCTACTACGTGTA-CGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * ** *
27247265 GGTCGCATGTGTAGTACTATGTGTAGGCTACAATGCCTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
27247315 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
27247365 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
27247415 TGTCGCATGTGTAGTACTAAGTGCAGGCTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTA
27247445 ATATGCATAG
Statistics
Matches: 145, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
47 6 0.04
48 23 0.16
49 34 0.23
50 48 0.33
51 34 0.23
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:27277014 original size:33 final size:33
Alignment explanation
Indices: 27276820--27277004 Score: 221
Period size: 33 Copynumber: 5.6 Consensus size: 33
27276810 TCTTTCTGAG
*
27276820 TGGTACACACAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
* * *
27276853 TGTTATACACAGAGTATACCCTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
* *
27276886 TGGTATACACAAAGTATACATTTCCTTTTTATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
*
27276919 TGGTATATACAAAGTATACCTTTCCTTTTCA-A
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
* * * * ** *
27276951 -GTGTACACACAATGTGTACATAACCTTTTCATG
1 TG-GTATACACAAAGTATACCTTTCCTTTTCATA
27276984 TGGTATACACAAAGTATACCT
1 TGGTATACACAAAGTATACCT
27277005 AACATTTTCA
Statistics
Matches: 125, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
31 1 0.01
32 23 0.18
33 100 0.80
34 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTTCCTTTTCATA
Found at i:27277042 original size:29 final size:29
Alignment explanation
Indices: 27277009--27277102 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
27276999 ATACCTAACA
* *
27277009 TTTTCACATACGATAGCCAAAGCTATCCC
1 TTTTCACATTCGATAGCCGAAGCTATCCC
* *
27277038 TTTTCACATTCGATAGCTGAAGTTATCCC
1 TTTTCACATTCGATAGCCGAAGCTATCCC
*
27277067 TTTGT-ACATTCCATAGCCGAAGCTATCCC
1 TTT-TCACATTCGATAGCCGAAGCTATCCC
*
27277096 TATTCAC
1 TTTTCAC
27277103 TGATCAGATA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.02
29 53 0.96
30 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (29 bp):
TTTTCACATTCGATAGCCGAAGCTATCCC
Found at i:27277122 original size:31 final size:31
Alignment explanation
Indices: 27277080--27277285 Score: 249
Period size: 31 Copynumber: 6.7 Consensus size: 31
27277070 GTACATTCCA
* * * *
27277080 TAGCCGAAGCTATCC-CTATTCACTGATCAGA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
*
27277111 TAGCTGGAGCTACCACTTTTCACTAATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* * *
27277142 TAGCCGAAGCTACTACTTTTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
27277173 TAGCTGAAGCTACCACTTTTCACTAATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
** *
27277204 TAGCTGAAGCT---ACTTTTTGCTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* *
27277232 TAGCCGAAGCTACCACTTTTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
*
27277263 TAGCCGAAGCTACCACTTTTCAC
1 TAGCTGAAGCTACCACTTTTCAC
27277286 ATTGTACACA
Statistics
Matches: 153, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
28 24 0.16
30 2 0.01
31 127 0.83
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
TAGCTGAAGCTACCACTTTTCACTAATCAGG
Found at i:27277164 original size:62 final size:62
Alignment explanation
Indices: 27277080--27277285 Score: 294
Period size: 62 Copynumber: 3.4 Consensus size: 62
27277070 GTACATTCCA
* * * *
27277080 TAGCCGAAGCTA-TCCCTATTCACTGATCAGATAGCTGGAGCTACCACTTTTCACTAATCAGG
1 TAGCCGAAGCTACT-ACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGG
27277142 TAGCCGAAGCTACTACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGG
1 TAGCCGAAGCTACTACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGG
* * * *
27277204 TAGCTGAAGCTACT--TTTT-GCTGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACTACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGG
*
27277263 TAGCCGAAGCTACCACTTTTCAC
1 TAGCCGAAGCTACTACTTTTCAC
27277286 ATTGTACACA
Statistics
Matches: 129, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
59 50 0.39
60 4 0.03
61 4 0.03
62 70 0.54
63 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (62 bp):
TAGCCGAAGCTACTACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTAATCAGG
Found at i:27279855 original size:15 final size:15
Alignment explanation
Indices: 27279832--27279873 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
27279822 GAAGCCCAGA
27279832 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
27279847 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
27279862 ATAAGGAAATCC
1 ATAAGGAAATCC
27279874 CATTTACAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:27282216 original size:46 final size:46
Alignment explanation
Indices: 27282053--27282221 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
27282043 GTCACCCGCC
*
27282053 CATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCATTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATT
* *
27282099 CATAAGTGAAGTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A-TT
*** * * *
27282144 ACATCTCTCGAACTCGGACTCCACTCAATGAGTTCGGACATTCGCATT
1 -CATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATT
27282192 CATAAGTGAAC-CTGGACTCAACTCAACGAG
1 CATAAGTGAACTC-GGACTCAACTCAACGAG
27282222 TACGGATGCC
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 55 0.56
47 29 0.30
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATT
Found at i:27282219 original size:93 final size:93
Alignment explanation
Indices: 27282060--27282231 Score: 251
Period size: 93 Copynumber: 1.8 Consensus size: 93
27282050 GCCCATAAGT
*
27282060 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAAGTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27282125 CGAGCT-CGGATGCCTAGTTACATCTCTC
66 CGAG-TACGGATGCCTAGTTACATCTCTC
* * * *
27282153 GAACTCGGACTCCACTCAATGAGTTCG-GACATTCGCATTCATAAGTGAAC-CTGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTC-GGACTCAACTC
27282216 AACGAGTACGGATGCC
64 AACGAGTACGGATGCC
27282232 CAAATATCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTACGGATGCCTAGTTACATCTCTC
Found at i:27287607 original size:46 final size:46
Alignment explanation
Indices: 27287540--27287715 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
27287530 TCTAACCCGC
*
27287540 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
27287586 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGT-TCGCAT
* *** * *
27287632 ACATCTCTCGAACAT-GGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAAC-TCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
27287679 CCATAAGTGAACCCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27287716 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
46 72 0.67
47 34 0.32
48 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:27291668 original size:31 final size:32
Alignment explanation
Indices: 27291603--27291811 Score: 247
Period size: 31 Copynumber: 6.8 Consensus size: 32
27291593 TCACATTCGA
* * *
27291603 TAGC-CGAAGCTATCC-CTATTCACTGATCATG
1 TAGCTCGAAGCTA-CCACTTTTCACTAATCAGG
* *
27291634 TAGCTAG-AGTTACCACTTTTCACTAATCAGG
1 TAGCTCGAAGCTACCACTTTTCACTAATCAGG
*
27291665 TAGC-CGAAGCTACTACTTTTCACTAA-CGAGG
1 TAGCTCGAAGCTACCACTTTTCACTAATC-AGG
*
27291696 TAGCT-GAAGCTACCACTTTTCACTAATCAAG
1 TAGCTCGAAGCTACCACTTTTCACTAATCAGG
* *
27291727 TAGCT-GAAGCTACTACTTTCCACTAATCAGG
1 TAGCTCGAAGCTACCACTTTTCACTAATCAGG
*
27291758 TAGC-CGAAGCTACCACTTTTCACTGATCAGG
1 TAGCTCGAAGCTACCACTTTTCACTAATCAGG
27291789 TAG-TCGAAGCTACCACTTTTCAC
1 TAGCTCGAAGCTACCACTTTTCAC
27291812 ATTGTACACA
Statistics
Matches: 154, Mismatches: 16, Indels: 16
0.83 0.09 0.09
Matches are distributed among these distances:
30 4 0.03
31 148 0.96
32 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (32 bp):
TAGCTCGAAGCTACCACTTTTCACTAATCAGG
Found at i:27291767 original size:93 final size:93
Alignment explanation
Indices: 27291603--27291811 Score: 273
Period size: 93 Copynumber: 2.2 Consensus size: 93
27291593 TCACATTCGA
* * * * * *
27291603 TAGCCGAAGCTATCC-CTATTCACTGATCATGTAGCTAGAGTTACCACTTTTCACTAATCAGGTA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAAGTAGCTAGAGCTACCACTTTCCACTAATCAGGTA
*
27291667 GCCGAAGCTACTACTTTTCACT-AACGAGG
65 GCCGAAGCTACCACTTTTCACTGAAC-AGG
*
27291696 TAGCTGAAGCTACCACTTTTCACTAATCAAGTAGCT-GAAGCTACTACTTTCCACTAATCAGGTA
1 TAGCTGAAGCTACCACTTTTCACTAATCAAGTAGCTAG-AGCTACCACTTTCCACTAATCAGGTA
*
27291760 GCCGAAGCTACCACTTTTCACTGATCAGG
65 GCCGAAGCTACCACTTTTCACTGAACAGG
27291789 TAG-TCGAAGCTACCACTTTTCAC
1 TAGCT-GAAGCTACCACTTTTCAC
27291812 ATTGTACACA
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
92 4 0.04
93 97 0.94
94 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (93 bp):
TAGCTGAAGCTACCACTTTTCACTAATCAAGTAGCTAGAGCTACCACTTTCCACTAATCAGGTAG
CCGAAGCTACCACTTTTCACTGAACAGG
Found at i:27298751 original size:49 final size:47
Alignment explanation
Indices: 27298530--27299034 Score: 794
Period size: 47 Copynumber: 10.6 Consensus size: 47
27298520 CCCTTCGGGA
* * * * * *
27298530 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27298577 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27298624 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27298671 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27298718 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27298767 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27298814 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27298863 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27298912 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27298959 CTTATCACATATATATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27299008 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
27299035 TATTCATATA
Statistics
Matches: 428, Mismatches: 24, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 245 0.57
49 183 0.43
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27298768 original size:96 final size:94
Alignment explanation
Indices: 27298530--27299034 Score: 794
Period size: 96 Copynumber: 5.3 Consensus size: 94
27298520 CCCTTCGGGA
* * * * * * * *
27298530 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
27298595 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
27298624 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
27298689 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
27298718 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
27298783 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
27298814 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
27298879 ACACTTTCACATTCATCACATTGGCCATTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
27298912 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
27298977 ACATTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
27299008 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
27299035 TATTCATATA
Statistics
Matches: 390, Mismatches: 17, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
94 93 0.24
96 252 0.65
98 45 0.12
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:27310343 original size:12 final size:12
Alignment explanation
Indices: 27310326--27310355 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
27310316 TATATTTATT
27310326 GCAAAAGTACTA
1 GCAAAAGTACTA
27310338 GCAAAAGTACTA
1 GCAAAAGTACTA
27310350 GCAAAA
1 GCAAAA
27310356 TCCTATAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.13
Consensus pattern (12 bp):
GCAAAAGTACTA
Found at i:27312805 original size:39 final size:40
Alignment explanation
Indices: 27312704--27312867 Score: 190
Period size: 40 Copynumber: 4.1 Consensus size: 40
27312694 TCGAATGATG
* * *
27312704 TCCGGGCTAAGCCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTATA
* *
27312744 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATA
27312783 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATA
* * * ** *
27312823 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATA
27312863 TCCGG
1 TCCGG
27312868 TTAAATTCCG
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
39 35 0.33
40 65 0.61
41 7 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:27312867 original size:79 final size:80
Alignment explanation
Indices: 27312704--27312856 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 80
27312694 TCGAATGATG
*
27312704 TCCGGGCTAAGCCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGCCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
**
27312769 GTGCGAGTTACTAAT
66 GAACGAGTTACTAAT
* * * *
27312784 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGCCCCGAAGGC-TTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCAT
27312846 TTGAACGAGTT
64 TTGAACGAGTT
27312857 GCTATATCCG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.02
79 45 0.70
80 18 0.28
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGCCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAT
Found at i:27322438 original size:63 final size:63
Alignment explanation
Indices: 27322308--27322439 Score: 142
Period size: 62 Copynumber: 2.1 Consensus size: 63
27322298 TTTTCTAAAT
* * * * * * * *
27322308 TATTGATACCCCCTTTTAAAAACGATACCAAAATGGTATTTTTTTTTCATAAACCCTACTAAC
1 TATTGACACCCCCTCTTAAAAACGATACAAAAATAGCATTTTTTTCTCATAAACACTACAAAC
* *
27322371 TATTGACA-CCCCTCTTAAAAGCGATACAAAAATAGCATTTTGTTTCTCATAAA-ACTGACAAAG
1 TATTGACACCCCCTCTTAAAAACGATACAAAAATAGCATTTT-TTTCTCATAAACACT-ACAAAC
27322434 TATTGA
1 TATTGA
27322440 TATAGTATCA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
62 30 0.53
63 27 0.47
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (63 bp):
TATTGACACCCCCTCTTAAAAACGATACAAAAATAGCATTTTTTTCTCATAAACACTACAAAC
Found at i:27324652 original size:29 final size:29
Alignment explanation
Indices: 27324589--27324659 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
27324579 GTCGACCATC
*
27324589 AGGCCCAATTCACATTCATATAGCCTATA
1 AGGCCCAATTCACATTCATATAGCCAATA
* * *
27324618 AAGCCCAATTCATATTCATATGGCCGAAT-
1 AGGCCCAATTCACATTCATATAGCC-AATA
*
27324647 AGGCCCAAATCAC
1 AGGCCCAATTCAC
27324660 CTTTATATGT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 32 0.94
30 2 0.06
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (29 bp):
AGGCCCAATTCACATTCATATAGCCAATA
Found at i:27324667 original size:29 final size:28
Alignment explanation
Indices: 27324635--27324695 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
27324625 ATTCATATTC
27324635 ATATGGC-CGAATAGGCCCAAATCACCTTT
1 ATATGGCTCG-ATAGGCCCAAATCACC-TT
* *
27324664 ATATGTCTCGTTAGGCCCAAATCACCTT
1 ATATGGCTCGATAGGCCCAAATCACCTT
27324692 ATAT
1 ATAT
27324696 TCATGCTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 21 0.72
30 2 0.07
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (28 bp):
ATATGGCTCGATAGGCCCAAATCACCTT
Found at i:27324938 original size:16 final size:16
Alignment explanation
Indices: 27324913--27324949 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
27324903 AAACTTTTGA
*
27324913 CTTTTTGGCATTTCGC
1 CTTTTCGGCATTTCGC
*
27324929 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTCGC
27324945 CTTTT
1 CTTTT
27324950 GTCAATCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.05, C:0.24, G:0.19, T:0.51
Consensus pattern (16 bp):
CTTTTCGGCATTTCGC
Found at i:27329187 original size:29 final size:28
Alignment explanation
Indices: 27329155--27329215 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
27329145 ATTTATATTC
* *
27329155 ATATGGCCTATTAGGCCCTAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACC-TT
*
27329184 ATATGTCCCATTAGGCCCAAATCACCTT
1 ATATGGCCCATTAGGCCCAAATCACCTT
27329212 ATAT
1 ATAT
27329216 TAATGCTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACCTT
Found at i:27336720 original size:29 final size:29
Alignment explanation
Indices: 27336655--27336794 Score: 158
Period size: 29 Copynumber: 4.9 Consensus size: 29
27336645 ACATACATGT
* *
27336655 ATATGGCCCACTT-GGCCC-AATCTCATTT
1 ATATGGCCCA-TTAGGCCCAAATCACATTC
* * *
27336683 ATGTGGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
27336712 ATATGGCCCATTAGGCCCAATTCATATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* * *
27336741 ATATGGCCCATTAAGCCCAAATCATATTT
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
27336770 ATATGGCCCGTTAGGCCCAAATCAC
1 ATATGGCCCATTAGGCCCAAATCAC
27336795 CTTATATTCA
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
27 1 0.01
28 14 0.15
29 81 0.84
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:27341805 original size:5 final size:5
Alignment explanation
Indices: 27341795--27341833 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
27341785 AATAAACATA
*
27341795 AAATG AAATG AAAATG AAATG AAATA AAATG AAATG AAA
1 AAATG AAATG -AAATG AAATG AAATG AAATG AAATG AAA
27341834 AAGAAAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:27341824 original size:26 final size:26
Alignment explanation
Indices: 27341777--27341849 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 26
27341767 AAAACAACTA
27341777 AAAAGAGAAATAAACATAAAATGAAATG
1 AAAA-AGAAATAAA-ATAAAATGAAATG
* *
27341805 AAAATGAAATGAAATAAAATGAAATG
1 AAAAAGAAATAAAATAAAATGAAATG
27341831 AAAAAGAAA-ACAAATAAAA
1 AAAAAGAAATA-AAATAAAA
27341850 ATCAGTGATC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
26 29 0.73
27 7 0.17
28 4 0.10
ACGTcount: A:0.71, C:0.03, G:0.12, T:0.14
Consensus pattern (26 bp):
AAAAAGAAATAAAATAAAATGAAATG
Found at i:27341845 original size:21 final size:21
Alignment explanation
Indices: 27341795--27341839 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27341785 AATAAACATA
* *
27341795 AAATGAAATGAAAATGAAATG
1 AAATAAAATGAAAATGAAAAG
27341816 AAATAAAATG-AAATGAAAAAG
1 AAATAAAATGAAAATG-AAAAG
27341837 AAA
1 AAA
27341840 ACAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
AAATAAAATGAAAATGAAAAG
Found at i:27369581 original size:93 final size:93
Alignment explanation
Indices: 27369422--27369592 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
27369412 GGATGGTTGA
*
27369422 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
27369487 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
27369515 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCC-GAACTCGTTGAG
*
27369579 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
27369593 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27369595 original size:46 final size:45
Alignment explanation
Indices: 27369426--27369597 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 45
27369416 GGTTGAGCAT
* *
27369426 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
27369471 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
27369516 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
27369564 CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27369598 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 56 0.54
47 28 0.27
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:27371384 original size:42 final size:42
Alignment explanation
Indices: 27371273--27371426 Score: 211
Period size: 42 Copynumber: 3.6 Consensus size: 42
27371263 TACCATACCA
* * *
27371273 ATGCCATATCCCAAATATGGTATTACATGTAA-TCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATTG
* *
27371315 ATGCCAATAACCCAGCTATGGTCTTACACGAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
* **
27371358 ATGCCATATCCCAGATATGGTCTTACACAAAGTCTCATATCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
27371400 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
27371427 TATTATCTCA
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
42 66 0.66
43 34 0.34
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTG
Found at i:27377837 original size:42 final size:41
Alignment explanation
Indices: 27377714--27377863 Score: 210
Period size: 42 Copynumber: 3.6 Consensus size: 41
27377704 TACCGTACCA
27377714 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACATG-AATCTCATATCG
* * * * *
27377756 ATGCCAATAGCCGAGCTATGGTCTTACACGAAATATCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACATG-AATCTCATATCG
27377799 ATGCCATATCCTAGATATGGTCTTACATGAAGTCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACATGAA-TCTCATATCG
*
27377841 ATGCCATATCCCAGATATGGTCT
1 ATGCCATATCCTAGATATGGTCT
27377864 ATGCATTATC
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.02
42 56 0.60
43 36 0.38
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCTAGATATGGTCTTACATGAATCTCATATCG
Found at i:27386214 original size:16 final size:17
Alignment explanation
Indices: 27386193--27386231 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
27386183 TTTGAAATGG
*
27386193 TTAAGTAATAGATG-AT
1 TTAAGTAATAAATGAAT
*
27386209 TTAAGTGATAAATGAAT
1 TTAAGTAATAAATGAAT
27386226 TTAAGT
1 TTAAGT
27386232 TAGCATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (17 bp):
TTAAGTAATAAATGAAT
Found at i:27387254 original size:27 final size:26
Alignment explanation
Indices: 27387206--27387265 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
27387196 GCGAGGCTGC
*
27387206 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
27387233 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
27387259 CAGATAT
1 CAGATAT
27387266 ATATATGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:27390958 original size:57 final size:57
Alignment explanation
Indices: 27390897--27391013 Score: 155
Period size: 57 Copynumber: 2.1 Consensus size: 57
27390887 ACATACCTAC
* *
27390897 ATATGGCCCACAAGGCCC-AATCTCTTTCATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCACAAGGCCCAAATCACTTTCATATGGCCCACTAGGCCC-AATCACATTT
** * * *
27390954 ATATGGCCCATTAGGCCCAAATCACTTTTATATGGTCCACTAGGCCCAATCACTTTT
1 ATATGGCCCACAAGGCCCAAATCACTTTCATATGGCCCACTAGGCCCAATCACATTT
27391011 ATA
1 ATA
27391014 GTCATGCTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
57 28 0.54
58 24 0.46
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (57 bp):
ATATGGCCCACAAGGCCCAAATCACTTTCATATGGCCCACTAGGCCCAATCACATTT
Found at i:27391013 original size:28 final size:29
Alignment explanation
Indices: 27390897--27391013 Score: 157
Period size: 29 Copynumber: 4.1 Consensus size: 29
27390887 ACATACCTAC
* * *
27390897 ATATGGCCCACAAGGCCC-AATCTCTTTC
1 ATATGGCCCACTAGGCCCAAATCACTTTT
* *
27390925 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCACTAGGCCCAAATCACTTTT
*
27390954 ATATGGCCCATTAGGCCCAAATCACTTTT
1 ATATGGCCCACTAGGCCCAAATCACTTTT
*
27390983 ATATGGTCCACTAGGCCC-AATCACTTTT
1 ATATGGCCCACTAGGCCCAAATCACTTTT
27391011 ATA
1 ATA
27391014 GTCATGCTCA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 29 0.36
29 51 0.64
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (29 bp):
ATATGGCCCACTAGGCCCAAATCACTTTT
Found at i:27391226 original size:8 final size:8
Alignment explanation
Indices: 27391213--27391248 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
27391203 AATTTTGGGT
*
27391213 TTTCGGTA
1 TTTCGGCA
27391221 TTTCGGCA
1 TTTCGGCA
*
27391229 TTTCGACA
1 TTTCGGCA
27391237 TTTCGGCA
1 TTTCGGCA
27391245 TTTC
1 TTTC
27391249 AGGATTGGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (8 bp):
TTTCGGCA
Found at i:27409888 original size:11 final size:11
Alignment explanation
Indices: 27409851--27409898 Score: 60
Period size: 11 Copynumber: 4.0 Consensus size: 11
27409841 AACACAAAAT
27409851 ATGATCTTATA
1 ATGATCTTATA
27409862 ATGCTATACATTATA
1 ATG--AT-C-TTATA
27409877 ATGATCTTATA
1 ATGATCTTATA
27409888 ATGATCTTATA
1 ATGATCTTATA
27409899 TGGCTAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 19 0.58
12 1 0.03
13 4 0.12
14 1 0.03
15 8 0.24
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (11 bp):
ATGATCTTATA
Found at i:27414155 original size:39 final size:36
Alignment explanation
Indices: 27414111--27414195 Score: 89
Period size: 39 Copynumber: 2.2 Consensus size: 36
27414101 TTATCCATTA
*
27414111 TATTATTTTTATTATATATTTTACTTATAAATTATATTT
1 TATTATTTTTATT-TATATTTT--TTATAAATTATATAT
* *
27414150 TATTATATATTTTATTTTTATTTTTTATAAATTATGTAT
1 TA-T-TAT-TTTTATTTATATTTTTTATAAATTATATAT
27414189 TATTATT
1 TATTATT
27414196 CATTAATTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
36 1 0.03
37 3 0.08
38 1 0.03
39 17 0.43
40 1 0.03
41 10 0.25
42 7 0.17
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (36 bp):
TATTATTTTTATTTATATTTTTTATAAATTATATAT
Found at i:27414168 original size:18 final size:18
Alignment explanation
Indices: 27414092--27414171 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 18
27414082 ATAATGTATA
*
27414092 TTATTTTTATTATCCATTATA
1 TTATTTTTATTAT--A-TATT
27414113 TTATTTTTATTATATATT
1 TTATTTTTATTATATATT
*
27414131 TTA--CTTA-TA-A-ATT
1 TTATTTTTATTATATATT
*
27414144 ATA-TTTTATTATATATT
1 TTATTTTTATTATATATT
27414161 TTATTTTTATT
1 TTATTTTTATT
27414172 TTTTATAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
13 5 0.10
14 4 0.08
15 4 0.08
16 4 0.08
17 5 0.10
18 13 0.27
19 1 0.02
21 13 0.27
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTTTTATTATATATT
Found at i:27414189 original size:24 final size:23
Alignment explanation
Indices: 27414141--27414195 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
27414131 TTACTTATAA
*
27414141 ATTA-TATTTTATTATATATTTT
1 ATTATTATTTTATTATAAATTTT
*
27414163 ATTTTTATTTT-TTATAAATTATGT
1 ATTATTATTTTATTATAAATT-T-T
27414187 ATTATTATT
1 ATTATTATT
27414196 CATTAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 11 0.41
23 7 0.26
24 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTATTATTTTATTATAAATTTT
Found at i:27414285 original size:21 final size:21
Alignment explanation
Indices: 27414255--27414299 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27414245 TATATGATAG
* *
27414255 TATTTTTATTTCATTATATCT
1 TATTTATATTTCATTATATAT
*
27414276 TATTTATATTTTATTATATAT
1 TATTTATATTTCATTATATAT
27414297 TAT
1 TAT
27414300 ACCTTACATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTATATTTCATTATATAT
Found at i:27416922 original size:40 final size:41
Alignment explanation
Indices: 27416815--27417036 Score: 218
Period size: 40 Copynumber: 5.4 Consensus size: 41
27416805 CAAGGCCCTA
* ** *
27416815 GGGTCTTAGCCCGGATGTGGTCA-CTAGCATAAATGCCTTAGC
1 GGGTCTTAGCCCGGATATAATCAGCTAGCACAAATGCCTT--C
* * *
27416857 GTCGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTC
1 G-GGTCTTAGCCCGGATATAATCAGCTAGCACAAATGCCTTC
*
27416898 GGGTTTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTC
1 GGGTCTTAGCCCGGATATAATCAGCTAGCACAAATGCCTTC
* * * *
27416938 GGGTCTTAGCCCGGATAT-AGCAACTCGCACGAATGCCTTC
1 GGGTCTTAGCCCGGATATAATCAGCTAGCACAAATGCCTTC
* * * * * *
27416978 GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTC
1 GGGTCTTAGCCCGGATATAATCAGCTAGCACAAATGCCTTC
*
27417019 GGGACTTAGCCCGGATAT
1 GGGTCTTAGCCCGGATAT
27417037 CATTCGAATA
Statistics
Matches: 149, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
39 2 0.01
40 82 0.55
41 32 0.21
42 1 0.01
43 32 0.21
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (41 bp):
GGGTCTTAGCCCGGATATAATCAGCTAGCACAAATGCCTTC
Found at i:27511179 original size:23 final size:22
Alignment explanation
Indices: 27511129--27511181 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
27511119 TATGAATTGG
*
27511129 CAAAAGTCGAAATGCCGAATGC
1 CAAAAGTCGAAATGCCGAAAGC
*
27511151 CGAAAAGTCGAAATGCCGAAAAGT
1 C-AAAAGTCGAAATGCCG-AAAGC
27511175 CAAAAGT
1 CAAAAGT
27511182 TTGGCTACGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 1 0.04
23 22 0.81
24 4 0.15
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (22 bp):
CAAAAGTCGAAATGCCGAAAGC
Found at i:27511445 original size:29 final size:28
Alignment explanation
Indices: 27511390--27511504 Score: 122
Period size: 29 Copynumber: 4.0 Consensus size: 28
27511380 GTGAGCATAA
* * *
27511390 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
27511418 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
27511447 ATGTACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
27511476 ACATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
27511504 A
1 A
27511505 GATACAGGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 27 0.37
29 46 0.63
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:27511511 original size:57 final size:58
Alignment explanation
Indices: 27511403--27511513 Score: 154
Period size: 57 Copynumber: 1.9 Consensus size: 58
27511393 TGAATGTGAC
* *
27511403 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATGTACAGGTGATT
1 TGGGCCTAACGGGCCACATAAATATGATTTGGGCCTAATGGGCCATGTACAGGTGATT
* * *
27511461 TGGGCCTAATGGGCCACATGAATATGA-TTGGGCTTAATGGGCCA-GATACAGGT
1 TGGGCCTAACGGGCCACATAAATATGATTTGGGCCTAATGGGCCATG-TACAGGT
27511514 ATGTGAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 1 0.02
57 23 0.49
58 23 0.49
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (58 bp):
TGGGCCTAACGGGCCACATAAATATGATTTGGGCCTAATGGGCCATGTACAGGTGATT
Found at i:27525864 original size:40 final size:40
Alignment explanation
Indices: 27525809--27526010 Score: 277
Period size: 40 Copynumber: 5.0 Consensus size: 40
27525799 CAGATGATAA
* *
27525809 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
27525849 CCGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATA-T
*
27525889 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
27525929 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27525969 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
27526009 CC
1 CC
27526011 AGTTAAATCC
Statistics
Matches: 149, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
39 5 0.03
40 140 0.94
41 4 0.03
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27527577 original size:21 final size:20
Alignment explanation
Indices: 27527553--27527628 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 20
27527543 CTAGGAACTA
27527553 TGTGATCTGAACTCATCGAGT
1 TGTGATCTGAACTCAT-GAGT
* ** *
27527574 TGTGGTCTGAGTTCATGATAT
1 TGTGATCTGAACTCATGA-GT
27527595 ATGTGACATCTGAACTCATTGAGT
1 -TGTG--ATCTGAACTCA-TGAGT
*
27527619 TGTGGTCTGA
1 TGTGATCTGA
27527629 GTTCATGATG
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.46
22 4 0.10
23 4 0.10
24 9 0.22
25 3 0.07
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAACTCATGAGT
Found at i:27527613 original size:45 final size:45
Alignment explanation
Indices: 27527557--27527643 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
27527547 GAACTATGTG
27527557 ATCTGAACTCATCGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATCGAGTTGTGGTCTGAGTTCATGATATATGTGAC
* *
27527602 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGT
1 ATCTGAACTCATCGAGTTGTGGTCTGAGTTCATGATATATGT
27527644 AACACATGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCATCGAGTTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:27537789 original size:19 final size:19
Alignment explanation
Indices: 27537767--27537803 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27537757 TCCCAGAATG
27537767 GTTCAGTTCCATCTCGGTA
1 GTTCAGTTCCATCTCGGTA
* *
27537786 GTTCAGTTTCGTCTCGGT
1 GTTCAGTTCCATCTCGGT
27537804 GATTTAGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (19 bp):
GTTCAGTTCCATCTCGGTA
Found at i:27541570 original size:29 final size:28
Alignment explanation
Indices: 27541501--27541602 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 28
27541491 TATAGTAAGT
* * **
27541501 CCGCACACTTAGTGTTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATTGAAC
*
27541529 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAA-TTGAAC
27541558 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAA-TTGAAC
27541587 CCGCACACTTAAGTGC
1 CCGCACACTT-AGTGC
27541603 CAATTTCATG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.29
29 41 0.63
30 5 0.08
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATTGAAC
Found at i:27549453 original size:28 final size:29
Alignment explanation
Indices: 27549420--27549521 Score: 143
Period size: 29 Copynumber: 3.5 Consensus size: 29
27549410 TATAGTAAGT
* * *
27549420 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
27549448 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
27549477 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
27549506 CCGCACACTTAAGTGC
1 CCGCACACTT-AGTGC
27549522 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 19 0.29
29 42 0.64
30 5 0.08
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:27559632 original size:66 final size:67
Alignment explanation
Indices: 27559555--27559725 Score: 192
Period size: 66 Copynumber: 2.6 Consensus size: 67
27559545 CATCATGTGT
* * *
27559555 ACAAGAGAGCTACGAGATACTATGATGTAGCTAGGTCACATGTGTGA-TACGA-TGTA-TC-CCA
1 ACAAGAGAGCTACGAGATA-TA--ATGTAGCTAGGTCACATGTGTGATTACAAGTGAAGACACCA
27559616 TGTAG
63 TGTAG
* * * *
27559621 ACAAGAGAGCTACGGGAGATAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATATAATGTAGCTAGGTCACATGTGTGATTACAAGTGAA-GACACCATG
27559686 TAG
65 TAG
*
27559689 ACAAGAGAGCTACGAGATA-AAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGAGATATAATGTAGCTAGGTCACATG
27559726 GGTGGTACTA
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
63 22 0.25
64 3 0.03
65 5 0.06
66 30 0.34
67 4 0.04
68 25 0.28
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATATAATGTAGCTAGGTCACATGTGTGATTACAAGTGAAGACACCATGT
AG
Found at i:27572079 original size:9 final size:9
Alignment explanation
Indices: 27572065--27572098 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
27572055 TTTTGAAGAC
27572065 TTTTATTTA
1 TTTTATTTA
27572074 TTTTATTTA
1 TTTTATTTA
*
27572083 TTTTTTTTA
1 TTTTATTTA
27572092 CTTTTAT
1 -TTTTAT
27572099 CTTTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTATTTA
Found at i:27572142 original size:27 final size:26
Alignment explanation
Indices: 27572086--27572144 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
27572076 TTATTTATTT
*
27572086 TTTTTACTTTTATCTTTTTAAATTAC
1 TTTTTACTTTTATCTTTTTAAACTAC
*
27572112 TTTTTA-TTTTATTTCTTTTTAATACTAT
1 TTTTTACTTTTA--TCTTTTTAA-ACTAC
27572140 TTTTT
1 TTTTT
27572145 CTTCATCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.18
26 6 0.21
27 9 0.32
28 8 0.29
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTTACTTTTATCTTTTTAAACTAC
Found at i:27584306 original size:23 final size:23
Alignment explanation
Indices: 27584280--27584326 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
27584270 AAGAGTATAT
*
27584280 AGAAAATAGAGA-ATAAAATATGA
1 AGAAAATAGA-ATAAAAAATATGA
27584303 AGAAAATAGAATAAAAAATATGA
1 AGAAAATAGAATAAAAAATATGA
27584326 A
1 A
27584327 AATATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (23 bp):
AGAAAATAGAATAAAAAATATGA
Found at i:27584507 original size:34 final size:36
Alignment explanation
Indices: 27584475--27584546 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
27584465 TCCCTCTCTC
* *
27584475 GTCTTTCTATATTTCTCTTATATCTCTTTCTCTCCT
1 GTCTCTCTATATTTCTCTCATATCTCTTTCTCTCCT
* * *
27584511 GTGTCTCTATCTTTCTCTCATATCTCTTTCTTTCCT
1 GTCTCTCTATATTTCTCTCATATCTCTTTCTCTCCT
27584547 ACTTTTATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.10, C:0.29, G:0.04, T:0.57
Consensus pattern (36 bp):
GTCTCTCTATATTTCTCTCATATCTCTTTCTCTCCT
Found at i:27586963 original size:30 final size:31
Alignment explanation
Indices: 27586895--27586969 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 31
27586885 ATCTTGTAAT
27586895 AAAAATTACACAGGCCTAAACTGTGTCAAGAA
1 AAAAATTACACAGGCCTAAACTGTGTCAAG-A
27586927 AAAAATTACACAGGCCTAAACTGTGTCAAG-
1 AAAAATTACACAGGCCTAAACTGTGTCAAGA
27586957 AAAAATTACACAG
1 AAAAATTACACAG
27586970 ATTGATTGGC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 13 0.30
32 30 0.70
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.19
Consensus pattern (31 bp):
AAAAATTACACAGGCCTAAACTGTGTCAAGA
Found at i:27588870 original size:48 final size:48
Alignment explanation
Indices: 27588799--27588964 Score: 251
Period size: 48 Copynumber: 3.5 Consensus size: 48
27588789 GTGAGATCCC
* *
27588799 GTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATGTGTATGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTATGCCA
* *
27588847 GTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTATGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTATGCCA
* * * *
27588895 GTATAAGACCATGTCTAGGACATGGCATCGGTGTTGATATGCATGCCT
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTATGCCA
*
27588943 GTGTAAGACCATGTCTGGGACA
1 GTGTAAGACCATGTCTAGGACA
27588965 AGTCATCAGT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 106 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTATGCCA
Found at i:27588981 original size:96 final size:96
Alignment explanation
Indices: 27588802--27588981 Score: 279
Period size: 96 Copynumber: 1.9 Consensus size: 96
27588792 AGATCCCGTG
* *
27588802 TAAGACCATGTCTAGGACATGGCATCGGCATTGATGTGTATGCCAGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTAGGACATGGCATCGGCATTGATATGCATGCCAGTGTAAGACCATGTCTGGGA
* *
27588867 CATGGCATCAGCGTTGATATGTATGCCAGTA
66 CAAGGCATCAGCGATGATATGTATGCCAGTA
** *
27588898 TAAGACCATGTCTAGGACATGGCATCGGTGTTGATATGCATGCCTGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTAGGACATGGCATCGGCATTGATATGCATGCCAGTGTAAGACCATGTCTGGGA
* *
27588963 CAAGTCATCAGTGATGATA
66 CAAGGCATCAGCGATGATA
27588982 AGTGTGCAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (96 bp):
TAAGACCATGTCTAGGACATGGCATCGGCATTGATATGCATGCCAGTGTAAGACCATGTCTGGGA
CAAGGCATCAGCGATGATATGTATGCCAGTA
Found at i:27592764 original size:43 final size:43
Alignment explanation
Indices: 27592703--27592793 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
27592693 GTTACATGAA
*
27592703 TCACATCCATTATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 TCACATCCATGATGAACTCGGACCTCTCAACGAGCTCGGATGC
*
27592746 TCACATCCATGATGAACTCGGACCTTTCAACGAGCTCGGATGC
1 TCACATCCATGATGAACTCGGACCTCTCAACGAGCTCGGATGC
27592789 -CACAT
1 TCACAT
27592794 ATCTCATGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 5 0.11
43 41 0.89
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (43 bp):
TCACATCCATGATGAACTCGGACCTCTCAACGAGCTCGGATGC
Found at i:27592818 original size:42 final size:43
Alignment explanation
Indices: 27592703--27592821 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
27592693 GTTACATGAA
* * *
27592703 TCACATCCATTATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 TCACATCCATCATGAACCCAGACCTCTCAACGAGCTCGGATGC
* * * *
27592746 TCACATCCATGATGAACTCGGACCTTTCAACGAGCTCGGATGC
1 TCACATCCATCATGAACCCAGACCTCTCAACGAGCTCGGATGC
*
27592789 -CACATATC-TCATGAACCCAGA-CTACTCAACGAG
1 TCACAT-CCATCATGAACCCAGACCT-CTCAACGAG
27592822 TTCAGACTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 2 0.03
42 23 0.34
43 42 0.63
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.22
Consensus pattern (43 bp):
TCACATCCATCATGAACCCAGACCTCTCAACGAGCTCGGATGC
Found at i:27604459 original size:21 final size:20
Alignment explanation
Indices: 27604427--27604480 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
27604417 AGAATTGTAA
*
27604427 AAAATTACAAAAAAAATATTT
1 AAAATTATAAAAAAAA-ATTT
*
27604448 AAGAATT-T-AAAACAAATTT
1 AA-AATTATAAAAAAAAATTT
27604467 AAAATTATAAAAAA
1 AAAATTATAAAAAA
27604481 TTAGGAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
18 4 0.15
19 7 0.26
20 10 0.37
21 2 0.07
22 4 0.15
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAATTATAAAAAAAAATTT
Found at i:27604570 original size:26 final size:27
Alignment explanation
Indices: 27604524--27604574 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
27604514 AAAAAATTAC
*
27604524 TAATTTTTTTAAAATAATTATAAATAT
1 TAATATTTTTAAAATAATTATAAATAT
*
27604551 TAATATTTTTAAAAT-TTTATAAAT
1 TAATATTTTTAAAATAATTATAAAT
27604575 CAGATTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TAATATTTTTAAAATAATTATAAATAT
Found at i:27605235 original size:48 final size:49
Alignment explanation
Indices: 27605168--27605276 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 49
27605158 TAATATATAT
* ** * ** * *
27605168 TTTTAAATTTTTAGTAAATTTAAT-ATTTTTGTAATGTTTTTTTTC-TA
1 TTTTATATTTTTAAAAAAATTAATAATTTTTAAAATATTTTTTTGCATA
* *
27605215 TTTTATATTTTTAAAAAAATTATTAATTTTTAAAATATTTTTTTGCATT
1 TTTTATATTTTTAAAAAAATTAATAATTTTTAAAATATTTTTTTGCATA
27605264 TTTTATATTTTTA
1 TTTTATATTTTTA
27605277 TAGTTTTTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
47 19 0.38
48 17 0.34
49 14 0.28
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (49 bp):
TTTTATATTTTTAAAAAAATTAATAATTTTTAAAATATTTTTTTGCATA
Found at i:27605424 original size:19 final size:19
Alignment explanation
Indices: 27605402--27605441 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
27605392 AAAAAAACTT
27605402 TAAAGATCAAAATGAAAAA
1 TAAAGATCAAAATGAAAAA
27605421 TAAAGATCAAAATGAAAAA
1 TAAAGATCAAAATGAAAAA
27605440 TA
1 TA
27605442 TGGCATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (19 bp):
TAAAGATCAAAATGAAAAA
Found at i:27605733 original size:2 final size:2
Alignment explanation
Indices: 27605726--27605754 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27605716 CTGGCCTTAA
27605726 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
27605755 CCTATGTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:27615157 original size:55 final size:54
Alignment explanation
Indices: 27615090--27615195 Score: 194
Period size: 54 Copynumber: 1.9 Consensus size: 54
27615080 TCATTTTTTG
27615090 AAATAATTAATTTATAGGTGAAATTTTAAAAAAATATTTTCTCAAAGCATTTTCA
1 AAATAATTAATTTATAGGTGAAA-TTTAAAAAAATATTTTCTCAAAGCATTTTCA
*
27615145 AAATAATTAATTTATAGGTGAAATTTGAAAAAATATTTTCTCAAAGCATTT
1 AAATAATTAATTTATAGGTGAAATTTAAAAAAATATTTTCTCAAAGCATTT
27615196 CCAGATGATT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 27 0.54
55 23 0.46
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (54 bp):
AAATAATTAATTTATAGGTGAAATTTAAAAAAATATTTTCTCAAAGCATTTTCA
Found at i:27619577 original size:16 final size:16
Alignment explanation
Indices: 27619556--27619587 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27619546 TACATGACAA
27619556 GTGATATATGAAATAT
1 GTGATATATGAAATAT
*
27619572 GTGATATATGATATAT
1 GTGATATATGAAATAT
27619588 AAATTCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (16 bp):
GTGATATATGAAATAT
Found at i:27619974 original size:51 final size:49
Alignment explanation
Indices: 27619889--27620024 Score: 148
Period size: 49 Copynumber: 2.7 Consensus size: 49
27619879 GTGAGGTCCA
* * *
27619889 ATGTGTAGTACTAAGTGCGGGCTATTATGCGTACCCAAAAACTG-TAATCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AAACTGTTAATCAC
* * * ** *
27619940 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAACTGTTAATCAC
*
27619989 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 ATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCA
27620025 GATAGCTTCG
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
48 5 0.07
49 37 0.51
50 2 0.03
51 28 0.39
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAAACTGTTAATCAC
Found at i:27623044 original size:15 final size:15
Alignment explanation
Indices: 27623024--27623077 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
27623014 TATCGTATCT
27623024 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
27623039 TGGGTTT-TTCTA-TC
1 TGGGTTTCTT-TATTC
*
27623053 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
27623069 -GGTTTTCTT
1 TGGGTTTCTT
27623078 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.36
15 17 0.52
16 4 0.12
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:27625852 original size:24 final size:22
Alignment explanation
Indices: 27625804--27625866 Score: 54
Period size: 24 Copynumber: 2.6 Consensus size: 22
27625794 AATATATAAA
* * *
27625804 ATATAATATTAAAAACACATGT
1 ATATAATATTAAAAAAAAATAT
27625826 ATATAATATATGAAAAAAAAATAT
1 ATATAATAT-T-AAAAAAAAATAT
27625850 ATAATATAGTATTAAAA
1 AT-ATA-A-TATTAAAA
27625867 TATTTACATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 9 0.27
23 1 0.03
24 11 0.33
25 7 0.21
26 2 0.06
27 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (22 bp):
ATATAATATTAAAAAAAAATAT
Found at i:27627094 original size:87 final size:86
Alignment explanation
Indices: 27626803--27627461 Score: 609
Period size: 87 Copynumber: 7.6 Consensus size: 86
27626793 GTGACCTTGA
** * * *
27626803 GCTCAACTCATTTCTCGCAATATGAATTGAATCTTT-AAAA-ATAAACATT-AAAAACAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTGAAAACAT-AA-ATTAAAAAACAGAAACT
* * *
27626865 GAAAATAGCTCAGCACGTGAGCC-AAG
63 GAAAATACCTCAG--CGTG-CCCTGAG
* * **
27626891 GCTCAACTCACCTCTCGCAATATGAGTTAGTTTTTTTG-AAAC-----TT-AAAAGCA-AATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAACATAAATTAAAAAACAGAA-ACT
* *
27626948 GAAAATACCTCAACATGTGACCTGAG
63 GAAAATACCTCAGC--GTGCCCTGAG
* *
27626974 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAATATATAAATTAAAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACATAAATTAAAAAACAGAAACTGA
*
27627039 AAATACCTCAGCGTGTCCTGAG
65 AAATACCTCAGCGTGCCCTGAG
* *
27627061 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTTGAAAAACAGAAACTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACATAAA-TTAAAAAACAGAAACTG
* * *
27627126 AAAATACCTCAACATACGAGCC-GAG
64 AAAATACCTCAGCGT--G-CCCTGAG
* * * *
27627151 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAATAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACATAAATTAAAAAACAGAAACTGA
**
27627216 AAATACCTCAGCGTATCCTGAG
65 AAATACCTCAGCGTGCCCTGAG
* * *
27627238 GCTCAACTCGCTTCTCGCAATATGAGTTGATTTTTTG-AAACATAAATTAAAAAACACAAACT-A
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACATAAATTAAAAAACAGAAACTGA
*
27627301 AACATACCTCAGTGTGCCCTGAG
65 AA-ATACCTCAGCGTGCCCTGAG
* * *
27627324 GCTCAAATCACCTCTCGCAATATGAGTTGATTTTTTTG-AAACATAAGTTAAAAAACACAAACT-
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACATAAATTAAAAAACAGAAACTG
* *
27627387 AAGCATACCTCAGTGTGCCCTGAG
64 AA-AATACCTCAGCGTGCCCTGAG
* * * *
27627411 GCTCAACTCATCTCTCGCTATATGAGTCGATTTTTG-AAACAGAAA-TAAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTAAAAA
27627462 TATCAGAATA
Statistics
Matches: 490, Mismatches: 54, Indels: 58
0.81 0.09 0.10
Matches are distributed among these distances:
81 7 0.01
82 7 0.01
83 55 0.11
84 6 0.01
85 16 0.03
86 66 0.13
87 161 0.33
88 63 0.13
89 57 0.12
90 49 0.10
91 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (86 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTAAAAAACAGAAACTGAA
AATACCTCAGCGTGCCCTGAG
Found at i:27627117 original size:15 final size:15
Alignment explanation
Indices: 27627093--27627122 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27627083 TGAGTTGATT
*
27627093 TTTGACAAACAGAAA
1 TTTGAAAAACAGAAA
27627108 TTTGAAAAACAGAAA
1 TTTGAAAAACAGAAA
27627123 CTGAAAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (15 bp):
TTTGAAAAACAGAAA
Found at i:27627160 original size:177 final size:171
Alignment explanation
Indices: 27626803--27627461 Score: 700
Period size: 177 Copynumber: 3.8 Consensus size: 171
27626793 GTGACCTTGA
** * *
27626803 GCTCAACTCATTTCTCGCAATATGAATTGAATCTTT-AAAAATA-AACATT-AAAAACAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTGAAAAATATAA-ATTAAAAAACAGAAATT
* * * *
27626865 GAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTAGTTTTTTTG
64 GAAAATACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTG
* ** *
27626929 AAAC-----TTAAAAGCAAATTTTGAAAATACCTCAACATGTGACCTGAG
124 AAACAGAAATTAAAAACAAA-ACTGAAAATACCTCAACATGAG-CCTGAG
*
27626974 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAATATATAAATTAAAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTAAAAAACAGAAATTGA
27627039 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACA
66 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACA
27627104 GAAATTTGAAAAACAGAAACTGAAAATACCTCAACATACGAGCC-GAG
129 GAAA-TT-AAAAACA-AAACTGAAAATACCTCAACAT--GAGCCTGAG
* *
27627151 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAATAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTAAAAAACAGAAATTGA
* * * *
27627216 AAATACCTCAGCGTATCCTGAGGCTCAACTCGCTTCTCGCAATATGAGTTGATTTTTTGAAACAT
66 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAACAG
* *
27627281 AAATTAAAAAACACAAACT-AAACATACCTC-A-GTGTGCCCTGAG
130 AAATT-AAAAACA-AAACTGAAA-ATACCTCAACATGAG-CCTGAG
* *** * * * *
27627324 GCTCAAATCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAGTTAAAAAACACAAACT-A
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTAAAAAACAGAAATTGA
* * * * * *
27627388 AGCATACCTCAGTGTGCCCTGAGGCTCAACTCATCTCTCGCTATATGAGTCGATTTTTGAAACAG
66 A-AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAG
27627453 AAA-TAAAAA
130 AAATTAAAAA
27627462 TATCAGAATA
Statistics
Matches: 423, Mismatches: 44, Indels: 43
0.83 0.09 0.08
Matches are distributed among these distances:
168 6 0.01
169 3 0.01
170 48 0.11
171 38 0.09
172 45 0.11
173 99 0.23
174 4 0.01
175 21 0.05
176 10 0.02
177 137 0.32
178 10 0.02
179 2 0.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (171 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTAAAAAACAGAAATTGA
AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGA
AATTAAAAACAAAACTGAAAATACCTCAACATGAGCCTGAG
Found at i:27627220 original size:13 final size:14
Alignment explanation
Indices: 27627184--27627218 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
27627174 GAGTTGATTT
*
27627184 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
27627198 TTGAAAAATAGAAA
1 TTGAAAAATAGAAA
27627212 TTGAAAA
1 TTGAAAA
27627219 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:27628284 original size:40 final size:41
Alignment explanation
Indices: 27628237--27628314 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 41
27628227 GTATTAATCA
*
27628237 AGATGCCCTTTTCGGGTTTTCACCTTGA-TCTCTTTTTTTT
1 AGATGCCCTTTTCGGATTTTCACCTTGATTCTCTTTTTTTT
* *
27628277 AGATGCCCTTTTCGGATTTTCATCTTGATTTTCTTTTT
1 AGATGCCCTTTTCGGATTTTCACCTTGATTCTCTTTTT
27628315 CTTCAAGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 26 0.76
41 8 0.24
ACGTcount: A:0.12, C:0.21, G:0.14, T:0.54
Consensus pattern (41 bp):
AGATGCCCTTTTCGGATTTTCACCTTGATTCTCTTTTTTTT
Found at i:27630285 original size:10 final size:10
Alignment explanation
Indices: 27630270--27630307 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
27630260 ATGATGCTAC
27630270 ATAAATATAT
1 ATAAATATAT
27630280 ATAAATATAT
1 ATAAATATAT
*
27630290 -TAAATACAT
1 ATAAATATAT
*
27630299 ATACATATA
1 ATAAATATA
27630308 CATACATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (10 bp):
ATAAATATAT
Found at i:27630295 original size:19 final size:19
Alignment explanation
Indices: 27630271--27630307 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27630261 TGATGCTACA
*
27630271 TAAATATATATAAATATAT
1 TAAATACATATAAATATAT
*
27630290 TAAATACATATACATATA
1 TAAATACATATAAATATA
27630308 CATACATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATACATATAAATATAT
Found at i:27632729 original size:50 final size:49
Alignment explanation
Indices: 27632608--27632775 Score: 178
Period size: 50 Copynumber: 3.4 Consensus size: 49
27632598 TGAGGTCGCA
* * * * * *
27632608 TGTGTAGTACTAAGTGCAGGCTACTATGTGCACCCGAAAACTAT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA--C-TAGACTGTAGGTCACG
*
27632659 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGACT-GT-AGGTCACG
* * * *
27632709 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGACTGTAGGTCACG
27632758 TGTGTAGTACTAAGTGCA
1 TGTGTAGTACTAAGTGCA
27632776 AGATACTATG
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 23 0.23
50 43 0.43
51 31 0.31
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGACTGTAGGTCACG
Found at i:27641547 original size:29 final size:29
Alignment explanation
Indices: 27641498--27641557 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
27641488 TTATGTGCAA
*
27641498 TGGACACACGGCCGGATCACACGCCCATG
1 TGGACACACGGCCAGATCACACGCCCATG
*
27641527 TGGACACACGGCCTAGA-CACACGCCTATG
1 TGGACACACGGCC-AGATCACACGCCCATG
27641556 TG
1 TG
27641558 CCTACCTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.25, C:0.35, G:0.27, T:0.13
Consensus pattern (29 bp):
TGGACACACGGCCAGATCACACGCCCATG
Found at i:27642368 original size:45 final size:44
Alignment explanation
Indices: 27642278--27642395 Score: 134
Period size: 45 Copynumber: 2.6 Consensus size: 44
27642268 TTGCCAATGC
* *
27642278 CATGTCCCAGACATGGTCTTACACTAGCTTAACTCGTAGTCGATG
1 CATGTCCCAAACAT-GTCTTACACTAGCTTAACTCGTAGGCGATG
27642323 CATG-CCTCAAACATGTCTTACACT-GCTTACATCTCG-AGGCTGATG
1 CATGTCC-CAAACATGTCTTACACTAGCTTA-A-CTCGTAGGC-GATG
* *
27642368 CATGTCCCAGACATGTCTTATACTAGCT
1 CATGTCCCAAACATGTCTTACACTAGCT
27642396 CTTGTCTCAC
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
43 5 0.08
44 16 0.25
45 37 0.59
46 5 0.08
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (44 bp):
CATGTCCCAAACATGTCTTACACTAGCTTAACTCGTAGGCGATG
Found at i:27665834 original size:93 final size:93
Alignment explanation
Indices: 27665726--27665896 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
27665716 GCCCCTAAGT
* * *
27665726 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCGACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27665791 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
27665819 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27665884 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27665897 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:27665893 original size:46 final size:46
Alignment explanation
Indices: 27665721--27665893 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
27665711 AACCCGCCCC
* * * *
27665721 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
27665767 TAAGTGAACTCGGACTCGACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
27665815 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
27665860 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27665894 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:27667219 original size:48 final size:48
Alignment explanation
Indices: 27667161--27667603 Score: 760
Period size: 48 Copynumber: 9.2 Consensus size: 48
27667151 ATATACACAC
* * * *
27667161 ATCTCCTACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
27667209 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
27667257 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
27667305 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
27667353 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
27667401 ATCTCATATATATTTCACATTATCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
27667449 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
27667497 ATCTCATATATATTTCACATTAGTCATTCGGCTTTACCAGATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
27667545 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
27667593 ATCTCATATAT
1 ATCTCATATAT
27667604 CAATTTCAGC
Statistics
Matches: 375, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 375 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:27670118 original size:30 final size:30
Alignment explanation
Indices: 27670084--27670143 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
27670074 ATTTAATACG
27670084 AACTTTAGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* * * *
27670114 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
27670144 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:27679450 original size:59 final size:59
Alignment explanation
Indices: 27679383--27679501 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
27679373 ATATATACGA
*
27679383 ATCAAAGCTTAAATACATAGGCATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
1 ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
27679442 ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
1 ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
27679501 A
1 A
27679502 CTTTCAAGGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (59 bp):
ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
Found at i:27684767 original size:33 final size:33
Alignment explanation
Indices: 27684725--27684794 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
27684715 TCTCTAAACT
*
27684725 TCTTGGATCTAGACTGAAGTGATTTACCTGATA
1 TCTTGGATCTAGACTGAAGTGATTTACCTAATA
*
27684758 TCTTGGATCTAGATTGAAGTGATTTACCTAATA
1 TCTTGGATCTAGACTGAAGTGATTTACCTAATA
27684791 TCTT
1 TCTT
27684795 TTTCGTACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (33 bp):
TCTTGGATCTAGACTGAAGTGATTTACCTAATA
Found at i:27686636 original size:59 final size:59
Alignment explanation
Indices: 27686569--27686746 Score: 347
Period size: 59 Copynumber: 3.0 Consensus size: 59
27686559 ATATATGCGT
*
27686569 ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTGC
1 ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
27686628 ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
1 ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
27686687 ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
1 ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
27686746 A
1 A
27686747 CTTTCAAGGT
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 118 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (59 bp):
ATCAAAGCTTAAATACATAGACATTCTAGCCTATACATGCCATACTTAAAAATATTTAC
Found at i:27689738 original size:18 final size:18
Alignment explanation
Indices: 27689715--27689997 Score: 124
Period size: 18 Copynumber: 15.3 Consensus size: 18
27689705 GAATAATTAT
27689715 TTATTCAGTAA-AAGTCAG
1 TTATTCAGTAACAA-TCAG
* *
27689733 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAG
* * * *
27689751 TTATTTAATAATAACCAG
1 TTATTCAGTAACAATCAG
*
27689769 TTATTCAGTATTGATCAATTGATCGG
1 TTATTCAGTA---A-C-A---ATCAG
* * *
27689795 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAG
27689813 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAATCAG
* * *
27689830 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AATCAG
* *
27689849 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAATCAG
*
27689866 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAG
** *
27689885 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAG
* * *
27689903 TTATTCAATAATATTCAG
1 TTATTCAGTAACAATCAG
*
27689921 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAATC-AG
* * * * *
27689939 ATATCCAGTAATAGTCAA
1 TTATTCAGTAACAATCAG
* * * *
27689957 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAG
* *
27689975 TTATTCAGAAATAATCAG
1 TTATTCAGTAACAATCAG
27689993 TTATT
1 TTATT
27689998 TTATACCTTT
Statistics
Matches: 197, Mismatches: 53, Indels: 30
0.70 0.19 0.11
Matches are distributed among these distances:
17 17 0.09
18 144 0.73
19 19 0.10
21 2 0.01
22 1 0.01
23 2 0.01
26 12 0.06
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:27689907 original size:54 final size:54
Alignment explanation
Indices: 27689794--27689997 Score: 168
Period size: 54 Copynumber: 3.8 Consensus size: 54
27689784 CAATTGATCG
* *
27689794 GTTATCCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACTATTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACTATCAA
* * *
27689848 GTTATTCAGTAGCAGTC-ATTCATTCAGTGACAATCAGTTATTCAGTAA-TGATCAA
1 GTTATTCAGTAACAGTCAATT-ATTCAGT-AAAATCAGATATTCAGTAACT-ATCAA
* * * * * *
27689903 -TTATTCAATAATATTCAGTTATTCAGTAACAGTCTA-ATATCCAGTAA-TAGTCAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAA-AATC-AGATATTCAGTAACTA-TCAA
* * * *
27689957 -TTATCCGGTAACAGTCAATTATTCAGAAATAATCAGTTATT
1 GTTATTCAGTAACAGTCAATTATTCAGTAA-AATCAGATATT
27689998 TTATACCTTT
Statistics
Matches: 117, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
53 6 0.05
54 87 0.74
55 24 0.21
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (54 bp):
GTTATTCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACTATCAA
Found at i:27690307 original size:89 final size:90
Alignment explanation
Indices: 27690164--27690397 Score: 317
Period size: 89 Copynumber: 2.6 Consensus size: 90
27690154 AATCCAGAAT
* * * * ** * *
27690164 AGTAATAGTAACAGTATTCAACACACAAAGTGTTGAATCGGTAACGGTATCAGTAACAATATTCG
1 AGTAACAGTAACAATATTCGACAAACAAAGTGCCGAATCGGTAATGGTAACAGTAACAATATTCG
27690229 ACACACAAAGTGCCGAATCGGTAAC
66 ACACACAAAGTGCCGAATCGGTAAC
* *
27690254 GGTAACAGTAACAATATTCGACAAACACAGTGCC-AATCGGTAATGGTAACAGTAACAATATTCG
1 AGTAACAGTAACAATATTCGACAAACAAAGTGCCGAATCGGTAATGGTAACAGTAACAATATTCG
*
27690318 ACACACAAAGTGCCGAATCGGTAAT
66 ACACACAAAGTGCCGAATCGGTAAC
* * * * *
27690343 AGTAGCAGTAACAATATTCGACACAGAAAGTGCCGAATCGGTAATAGTAGCAGTA
1 AGTAACAGTAACAATATTCGACAAACAAAGTGCCGAATCGGTAATGGTAACAGTA
27690398 GCGGTAACAG
Statistics
Matches: 125, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
89 81 0.65
90 44 0.35
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (90 bp):
AGTAACAGTAACAATATTCGACAAACAAAGTGCCGAATCGGTAATGGTAACAGTAACAATATTCG
ACACACAAAGTGCCGAATCGGTAAC
Found at i:27690387 original size:45 final size:45
Alignment explanation
Indices: 27690161--27690397 Score: 323
Period size: 45 Copynumber: 5.3 Consensus size: 45
27690151 ACAAATCCAG
* * * **
27690161 AATAGTAATAGTAACAGTATTCAACACACAAAGTGTTGAATCGGT
1 AATAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
** *
27690206 AACGGTATCAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
1 AATAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
** * *
27690251 AACGGTAACAGTAACAATATTCGACAAACACAGTGCC-AATCGGT
1 AATAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
*
27690295 AATGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
1 AATAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
* *
27690340 AATAGTAGCAGTAACAATATTCGACACAGAAAGTGCCGAATCGGT
1 AATAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
*
27690385 AATAGTAGCAGTA
1 AATAGTAACAGTA
27690398 GCGGTAACAG
Statistics
Matches: 174, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 41 0.24
45 133 0.76
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (45 bp):
AATAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
Found at i:27692944 original size:47 final size:47
Alignment explanation
Indices: 27692822--27693077 Score: 476
Period size: 47 Copynumber: 5.4 Consensus size: 47
27692812 CAGCCAAGAC
27692822 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
27692869 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
27692918 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
27692965 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
27693012 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
27693059 AGTGTATATATGTGATAAG
1 AGTGTATATATGTGATAAG
27693078 TCCCGAAGCG
Statistics
Matches: 203, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
47 156 0.77
49 47 0.23
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:27693251 original size:37 final size:37
Alignment explanation
Indices: 27693195--27693273 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
27693185 CCGAGCTCTA
* * *
27693195 AAGACTCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
27693232 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
27693269 AAGAC
1 AAGAC
27693274 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:27694722 original size:5 final size:5
Alignment explanation
Indices: 27694712--27694747 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
27694702 TCATAATTTC
27694712 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCAA ATTCA
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTC-A ATTCA
27694748 CTTTTCCACT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (5 bp):
ATTCA
Found at i:27696131 original size:9 final size:9
Alignment explanation
Indices: 27696113--27696147 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
27696103 TTTCTTTTTC
*
27696113 ATTTCTTTT
1 ATTTCATTT
27696122 ATTTCATTT
1 ATTTCATTT
27696131 ATTTC-TTT
1 ATTTCATTT
27696139 ATTTCATTT
1 ATTTCATTT
27696148 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:27696139 original size:17 final size:18
Alignment explanation
Indices: 27696113--27696159 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
27696103 TTTCTTTTTC
27696113 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
27696131 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
27696148 CTTTATTTTATT
1 ATTTCTTTTATT
27696160 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:27696149 original size:13 final size:13
Alignment explanation
Indices: 27696113--27696155 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
27696103 TTTCTTTTTC
* *
27696113 ATTTCTTTTATTT
1 ATTTCATTTCTTT
27696126 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
27696139 ATTTCATTTCTTT
1 ATTTCATTTCTTT
27696152 ATTT
1 ATTT
27696156 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:27700591 original size:18 final size:18
Alignment explanation
Indices: 27700563--27700753 Score: 133
Period size: 18 Copynumber: 10.6 Consensus size: 18
27700553 AATTGATCGG
*
27700563 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
27700581 TAATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
*
27700599 -TATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
**
27700616 GTTATTCAGTCGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* *
27700634 TTCATTCAGTGACAATCAA
1 TT-ATTCAGTAACAGTCAA
*
27700653 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
27700671 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
*
27700689 TTATTCAATAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
* *
27700708 -TATCCACTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
27700725 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
27700743 TTATTCAGTAA
1 TTATTCAGTAA
27700754 TAATCAGTTA
Statistics
Matches: 134, Mismatches: 27, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
17 18 0.13
18 101 0.75
19 15 0.11
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:27700694 original size:72 final size:71
Alignment explanation
Indices: 27700564--27700765 Score: 210
Period size: 72 Copynumber: 2.8 Consensus size: 71
27700554 ATTGATCGGT
* * * **
27700564 TATCCAGTAACAGTCAATAATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTCG
1 TATCCAGTAACAGTCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAATAA
*
27700628 CAGTC-AT
64 CAGTCTAA
* * * *
27700635 TCATTCAGTGACAATCAATTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAATAA
1 T-ATCCAGTAACAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAATAA
27700700 CAGTCTAA
64 CAGTCTAA
* * * * *
27700708 TATCCACTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
27700766 TTATACCTTT
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
71 1 0.01
72 90 0.84
73 16 0.15
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAGTCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAATAACA
GTCTAA
Found at i:27700982 original size:45 final size:45
Alignment explanation
Indices: 27700933--27701172 Score: 345
Period size: 45 Copynumber: 5.3 Consensus size: 45
27700923 ATCTGGAATA
* * **
27700933 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
27700978 GTAACGGTATCAGTAACAATATTCGGCACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
27701023 GTAACGGTAACAGTAACAATATTCGACACACATAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
27701068 GTAACGGTAATAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
**
27701113 GTAACAGTAGTAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
27701158 ATAACAGTAGCAGTA
1 GTAACAGTAACAGTA
27701173 GCGGTAACAG
Statistics
Matches: 179, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 179 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:27701592 original size:5 final size:5
Alignment explanation
Indices: 27701581--27701622 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
27701571 AATTAATCAT
* *
27701581 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
27701623 CTTTTCCACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Done.