Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 230 of 297
Found at i:78557362 original size:50 final size:50
Alignment explanation
Indices: 78557287--78557388 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
78557277 GCTGACGGTG
*
78557287 ATGGACTATTCACCCCTTTATGGAAAGCAACGACTAAGGTATAAATGATT
1 ATGGACTATTCACCCCTGTATGGAAAGCAACGACTAAGGTATAAATGATT
78557337 ATGGACTATTCACCCCTGTATGGAAAGCAACGACTAAGGTATAAATGATT
1 ATGGACTATTCACCCCTGTATGGAAAGCAACGACTAAGGTATAAATGATT
78557387 AT
1 AT
78557389 ATCCCACTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (50 bp):
ATGGACTATTCACCCCTGTATGGAAAGCAACGACTAAGGTATAAATGATT
Found at i:78559015 original size:22 final size:22
Alignment explanation
Indices: 78558990--78559052 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
78558980 ATAATTTATC
78558990 TTAATTTAGAAAAAATATTCAA
1 TTAATTTAGAAAAAATATTCAA
* *
78559012 TTAATTTA-TAAACATATATCAA
1 TTAATTTAGAAAAAATAT-TCAA
* *
78559034 TTCA--TAGAATAAATATTCA
1 TTAATTTAGAAAAAATATTCA
78559053 TATAGGCCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
20 5 0.15
21 13 0.39
22 15 0.45
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (22 bp):
TTAATTTAGAAAAAATATTCAA
Found at i:78563156 original size:20 final size:20
Alignment explanation
Indices: 78563133--78563232 Score: 58
Period size: 20 Copynumber: 5.0 Consensus size: 20
78563123 GTAATCAAGA
78563133 GCACGAGTGTGCAATCAGGG
1 GCACGAGTGTGCAATCAGGG
* * * *
78563153 GCACCAGAGTACATTCAGGG
1 GCACGAGTGTGCAATCAGGG
* ***
78563173 GCACGAATGTGTTGTCAGGG
1 GCACGAGTGTGCAATCAGGG
* * * *
78563193 GCTTC-AGAGTGCATTCAGTG
1 GC-ACGAGTGTGCAATCAGGG
* *
78563213 GCACAAATGTGCAATCAGGG
1 GCACGAGTGTGCAATCAGGG
78563233 ACACCGAAGT
Statistics
Matches: 55, Mismatches: 23, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
19 1 0.02
20 53 0.96
21 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.34, T:0.20
Consensus pattern (20 bp):
GCACGAGTGTGCAATCAGGG
Found at i:78563177 original size:40 final size:40
Alignment explanation
Indices: 78563133--78563237 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
78563123 GTAATCAAGA
*
78563133 GCACGAGTGTGCAATCAGGGGCACCAGAGTACATTCAGGG
1 GCACGAATGTGCAATCAGGGGCACCAGAGTACATTCAGGG
*** ** * *
78563173 GCACGAATGTGTTGTCAGGGGCTTCAGAGTGCATTCAGTG
1 GCACGAATGTGCAATCAGGGGCACCAGAGTACATTCAGGG
* *
78563213 GCACAAATGTGCAATCAGGGACACC
1 GCACGAATGTGCAATCAGGGGCACC
78563238 GAAGTGTTTA
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.19
Consensus pattern (40 bp):
GCACGAATGTGCAATCAGGGGCACCAGAGTACATTCAGGG
Found at i:78569411 original size:40 final size:39
Alignment explanation
Indices: 78569352--78569547 Score: 180
Period size: 40 Copynumber: 4.9 Consensus size: 39
78569342 CGAATACACG
* * * * *
78569352 TCACTAGCATGATTACTCTTCGAGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCG-GGCTTAGCCCGGATATA
* * *
78569392 TTACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGG-GCTTAGCCCGGATATA
*
78569432 TCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGG-CTTAGCCCGGATATA
* * * *
78569472 TCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATATGG
1 TCACTAGCACGAATGCTCTTCGG-GCTTAGCCCGGATAT-A
* *
78569513 TCACTTAGCAC-AAAGC-CTTCAGGACTTAGCCCGGA
1 TCAC-TAGCACGAATGCTCTTC-GGGCTTAGCCCGGA
78569548 CATCATTCAA
Statistics
Matches: 130, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 113 0.87
41 10 0.08
42 6 0.05
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
TCACTAGCACGAATGCTCTTCGGGCTTAGCCCGGATATA
Found at i:78569538 original size:80 final size:80
Alignment explanation
Indices: 78569378--78569547 Score: 227
Period size: 80 Copynumber: 2.1 Consensus size: 80
78569368 TCTTCGAGGT
* *
78569378 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACG
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACG
* *
78569443 AATGCTCCTCGGGAC
66 AAAGCTCCTCAGGAC
* * **
78569458 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATATGGTCACTTAGCA
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCA
*
78569523 C-AAAGC-CTTCAGGAC
64 CGAAAGCTCCTCAGGAC
78569538 TTAGCCCGGA
1 TTAGCCCGGA
78569548 CATCATTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 65 0.82
81 8 0.10
82 6 0.08
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACG
AAAGCTCCTCAGGAC
Found at i:78569892 original size:29 final size:29
Alignment explanation
Indices: 78569853--78569931 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
78569843 CTTAATAATC
*
78569853 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
78569883 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
78569912 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
78569932 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:78569980 original size:43 final size:43
Alignment explanation
Indices: 78569914--78570015 Score: 186
Period size: 43 Copynumber: 2.4 Consensus size: 43
78569904 GCATTTCAAG
78569914 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTC
1 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTC
* *
78569957 CCCGTACACTTAGTGCCAATCTCACAACCGTGAACACTTATTG
1 CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTC
78570000 CCCGCACACTTAGTGC
1 CCCGCACACTTAGTGC
78570016 TGAAAACCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.26, C:0.36, G:0.14, T:0.24
Consensus pattern (43 bp):
CCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTC
Found at i:78571931 original size:37 final size:37
Alignment explanation
Indices: 78571881--78571959 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
78571871 TTATTACGAA
* *
78571881 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
78571918 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
78571955 GTCTT
1 GTCTT
78571960 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:78572156 original size:47 final size:47
Alignment explanation
Indices: 78572078--78572331 Score: 391
Period size: 47 Copynumber: 5.4 Consensus size: 47
78572068 CCCTTCGGGA
* * * * * * * *
78572078 CTTATCACATTTATGCACTTTCAGATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78572125 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
78572172 CTTATCACATATATACACTTTCACATTCATCACATCGGCGTTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78572219 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78572266 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78572313 CTTATCACATATATACACT
1 CTTATCACATATATACACT
78572332 GTCTTGGCTG
Statistics
Matches: 190, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 190 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78574907 original size:111 final size:111
Alignment explanation
Indices: 78574780--78575007 Score: 438
Period size: 111 Copynumber: 2.1 Consensus size: 111
78574770 TGGGGGGGGG
78574780 GAAATTGACATGCAAGTCCCCCCGTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATC
1 GAAATTGACATGCAAGTCCCCCCGTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATC
78574845 ACATTTCAAAAATGTCACACATAAGTCCTATTGACTAAATTCACAT
66 ACATTTCAAAAATGTCACACATAAGTCCTATTGACTAAATTCACAT
*
78574891 GAAATTGACATGCAAGTCCCCCCTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATC
1 GAAATTGACATGCAAGTCCCCCCGTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATC
*
78574956 ACATTTGAAAAATGTCACACATAAGTCCTATTGACTAAATTCACAT
66 ACATTTCAAAAATGTCACACATAAGTCCTATTGACTAAATTCACAT
78575002 GAAATT
1 GAAATT
78575008 TACTAAATCG
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 115 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (111 bp):
GAAATTGACATGCAAGTCCCCCCGTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATC
ACATTTCAAAAATGTCACACATAAGTCCTATTGACTAAATTCACAT
Found at i:78586052 original size:20 final size:21
Alignment explanation
Indices: 78586011--78586053 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
78586001 AAACTTGTAG
*
78586011 ATCTATCAACAAGCATTCAAA
1 ATCTATCAACAAACATTCAAA
*
78586032 ATCTATCATCAAACA-TCAAA
1 ATCTATCAACAAACATTCAAA
78586052 AT
1 AT
78586054 ACTCATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (21 bp):
ATCTATCAACAAACATTCAAA
Found at i:78587404 original size:28 final size:29
Alignment explanation
Indices: 78587296--78587410 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
78587286 TACTTGTATC
* * * *
78587296 TGGCCCATTACGCTC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
***
78587324 TGGCCCATTAGGCCCAAATCACCGATATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
78587353 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * * *
78587382 TGGCCCGTTA-GCCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
78587410 T
1 T
78587411 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 29 0.40
29 43 0.60
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:78587491 original size:17 final size:18
Alignment explanation
Indices: 78587469--78587514 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
78587459 TGCCTATTAT
78587469 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
78587486 GGGCCCATTTAGCCCATTC
1 GGGCCCATATAGCCCA-TC
*
78587505 CGGCCCATAT
1 GGGCCCATAT
78587515 GGCAAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.29
18 7 0.29
19 10 0.42
ACGTcount: A:0.20, C:0.39, G:0.22, T:0.20
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:78590095 original size:39 final size:39
Alignment explanation
Indices: 78590051--78590218 Score: 248
Period size: 39 Copynumber: 4.3 Consensus size: 39
78590041 TATATGAGGT
**
78590051 TGGAAATATATCTGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCAGACATGAGGTCCGCAGGCTATATGC
* *
78590090 TGGAAATATATCCGGACATGAAGTCCGCAGGCTATATGC
1 TGGAAATATATCCAGACATGAGGTCCGCAGGCTATATGC
78590129 TGGAAATATATCCAGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCAGACATGAGGTCCGCAGGCTATATGC
* * **
78590168 TTGAAATATATCCAGACTTGAGGTCCGCA-GCTACGTGC
1 TGGAAATATATCCAGACATGAGGTCCGCAGGCTATATGC
*
78590206 TGGAAAAATATCC
1 TGGAAATATATCC
78590219 GGGTTAAAGA
Statistics
Matches: 119, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
38 18 0.15
39 101 0.85
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCAGACATGAGGTCCGCAGGCTATATGC
Found at i:78597825 original size:39 final size:39
Alignment explanation
Indices: 78597782--78597906 Score: 146
Period size: 40 Copynumber: 3.2 Consensus size: 39
78597772 ACTCAAGTAT
78597782 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAATGC
* *
78597821 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGC
** * *
78597861 CTTCGGGACATAGCCAGGATATAGCAACTCGCACGAATGC
1 CTTCGGGATTTAGCC-GGATATAACAACTCGCACAAATGC
78597901 CTTCGG
1 CTTCGG
78597907 ATCTTAGTCT
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
38 1 0.01
39 14 0.19
40 56 0.78
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (39 bp):
CTTCGGGATTTAGCCGGATATAACAACTCGCACAAATGC
Found at i:78606006 original size:40 final size:40
Alignment explanation
Indices: 78605939--78606115 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
78605929 ACTCAAGTAT
*
78605939 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
78605978 CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
78606018 CTTCGGGTCTTAGCCTGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
78606058 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
78606098 CTTTGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
78606116 TTATCATCCG
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 100 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:78606056 original size:80 final size:79
Alignment explanation
Indices: 78605939--78606115 Score: 232
Period size: 80 Copynumber: 2.2 Consensus size: 79
78605929 ACTCAAGTAT
* * *
78605939 CTTCGGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCAGGTCTTAGCCCGGATATAGC
1 CTTCGGG-TCTTAGCCGGATATAACAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAGC
78606003 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
78606018 CTTCGGGTCTTAGCCTGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAG
1 CTTCGGGTCTTAGCC-GGATATAA-CAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAG
*
78606082 CAACTCGCACGAATGC
64 CAACTCGCACAAATGC
* *
78606098 CTTTGGATCTTAGTCCGG
1 CTTCGGGTCTTAG-CCGG
78606116 TTATCATCCG
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 69 0.80
81 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCGGATATAACAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:78612914 original size:39 final size:39
Alignment explanation
Indices: 78612867--78612959 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
78612857 TATATGAGAT
*
78612867 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
* * *
78612906 TGGAAATATATCCGGACTTGAGGTTCGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
*
78612945 TGGAAAAATATCCGG
1 TGGAAATATATCCGG
78612960 GTTAAAGTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
Found at i:78614528 original size:40 final size:41
Alignment explanation
Indices: 78614482--78614659 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 41
78614472 CACTCGAATA
*
78614482 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
* *
78614522 CTTTCGGGACTTAGCCC-GAAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
*
78614562 CCTTCGGGACTTAGCCCGGATA-TGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
* ** *
78614602 CCTTCGGG-CTTAGCCCGGA-ATTAGCCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
78614641 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
78614660 TTATCAATCC
Statistics
Matches: 124, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
38 1 0.01
39 36 0.29
40 84 0.68
41 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
Found at i:78614657 original size:79 final size:80
Alignment explanation
Indices: 78614482--78614659 Score: 277
Period size: 79 Copynumber: 2.2 Consensus size: 80
78614472 CACTCGAATA
* *
78614482 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCTTTCGGGACTTAGCCCGAAACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
* *
78614547 TAACTCGCACAAATG
66 CAACTAGCACAAATG
* * *
78614562 CCTTCGGGACTTAGCCCGGATATGGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
*
78614626 CCACTAGCACAAATG
66 CAACTAGCACAAATG
78614641 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
78614660 TTATCAATCC
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 45 0.50
80 45 0.50
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
CAACTAGCACAAATG
Found at i:78615858 original size:10 final size:10
Alignment explanation
Indices: 78615843--78615872 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
78615833 ACATGAGAGC
*
78615843 TTTCTTTTTT
1 TTTCTTTCTT
78615853 TTTCTTTCTT
1 TTTCTTTCTT
78615863 TTTCTTTCTT
1 TTTCTTTCTT
78615873 CTATTCGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:78615861 original size:14 final size:14
Alignment explanation
Indices: 78615842--78615872 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
78615832 AACATGAGAG
*
78615842 CTTTCTTTTTTTTT
1 CTTTCTTTTTCTTT
78615856 CTTTCTTTTTCTTT
1 CTTTCTTTTTCTTT
78615870 CTT
1 CTT
78615873 CTATTCGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTCTTTTTCTTT
Found at i:78615903 original size:53 final size:54
Alignment explanation
Indices: 78615794--78615926 Score: 223
Period size: 57 Copynumber: 2.4 Consensus size: 54
78615784 CTCAAAGCTC
*
78615794 TTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTCTTTT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAG---TCTTTT
78615851 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAG-CTTTT
1 TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGTCTTTT
78615904 TTTTTCTTTCTTTTTCTTTCTTC
1 TTTTTCTTTCTTTTTCTTTCTTC
78615927 ATCATCATTT
Statistics
Matches: 75, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
53 28 0.37
57 47 0.63
ACGTcount: A:0.15, C:0.22, G:0.09, T:0.54
Consensus pattern (54 bp):
TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGTCTTTT
Found at i:78622587 original size:40 final size:40
Alignment explanation
Indices: 78622543--78622718 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
78622533 CACTCGAATA
* * *
78622543 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCC-GAAACTAGTAACTCGCACAAATG
78622583 CCTTCGGGACTTAGCCCGAAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAAACTAGTAACTCGCACAAATG
* *
78622623 CCTTCGGGACTTAGCCCAGATA-TGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCC-GAAACTAGTAACTCGCACAAATG
* ** *
78622663 CCTT-GGG-CTTAGCCCGAAATTAGCCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGAAACTAGTAACTCGCACAAATG
78622701 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
78622719 GTTATCAATC
Statistics
Matches: 121, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
37 3 0.02
38 26 0.21
39 9 0.07
40 80 0.66
41 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGAAACTAGTAACTCGCACAAATG
Found at i:78622712 original size:78 final size:80
Alignment explanation
Indices: 78622543--78622717 Score: 264
Period size: 78 Copynumber: 2.2 Consensus size: 80
78622533 CACTCGAATA
* * *
78622543 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGAAACTAG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
* *
78622608 TAACTCGCACAAATG
66 CAACTAGCACAAATG
* *
78622623 CCTTCGGGACTTAGCCCAGATATGGTAACTCGCACAAATGCCTT-GGG-CTTAGCCCGAAATTAG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
*
78622686 CCACTAGCACAAATG
66 CAACTAGCACAAATG
78622701 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
78622718 GGTTATCAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 44 0.51
79 3 0.03
80 40 0.46
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAG
CAACTAGCACAAATG
Found at i:78623937 original size:58 final size:58
Alignment explanation
Indices: 78623852--78623982 Score: 221
Period size: 58 Copynumber: 2.3 Consensus size: 58
78623842 TCCTCAAAGC
*
78623852 TCTTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTCTTTT
1 TCTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT-TTTT
78623911 T-TTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTT
1 TCTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTT
78623968 TCTTTCTT-TTTCTTT
1 TCTTT-TTCTTTCTTT
78623983 CTTCATCATC
Statistics
Matches: 69, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
57 5 0.07
58 61 0.88
59 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.09, T:0.54
Consensus pattern (58 bp):
TCTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTT
Found at i:78629234 original size:29 final size:28
Alignment explanation
Indices: 78629143--78629257 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
78629133 TACCTGTATT
* *
78629143 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* ** *
78629171 TGGCCTATTAGGCCCAAATCACCGGT-ATG
1 TGGCCCATTAGGCCC-AATCA-CATTCATA
*
78629200 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* * * *
78629229 TAGCCCGTTAGGACCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
78629257 T
1 T
78629258 TCATGCTCAC
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
28 27 0.39
29 41 0.59
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:78637869 original size:16 final size:17
Alignment explanation
Indices: 78637843--78637877 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
78637833 GAGAAATGAT
*
78637843 GGACTGATTGTATGTTG
1 GGACTGATTGTAGGTTG
78637860 GGAC-GATTGTAGGTTG
1 GGACTGATTGTAGGTTG
78637876 GG
1 GG
78637878 CGCTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.17, C:0.06, G:0.43, T:0.34
Consensus pattern (17 bp):
GGACTGATTGTAGGTTG
Found at i:78642838 original size:11 final size:11
Alignment explanation
Indices: 78642824--78642868 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
78642814 AGATAAATAT
78642824 TATTTTATTAA
1 TATTTTATTAA
*
78642835 TATTTTAATAATA
1 TATTTT-ATTA-A
*
78642848 TATTTTATTAT
1 TATTTTATTAA
78642859 TATTTTATTA
1 TATTTTATTA
78642869 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:78642852 original size:24 final size:24
Alignment explanation
Indices: 78642819--78642874 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
78642809 TAATTAGATA
78642819 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* *
78642844 AATATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
*
78642868 AGTATAT
1 AATATAT
78642875 AAAGAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:78645189 original size:47 final size:46
Alignment explanation
Indices: 78644985--78645290 Score: 366
Period size: 46 Copynumber: 6.6 Consensus size: 46
78644975 ATGAAATGTG
**
78644985 TAAGACCATGGTTGAAAGATACCATGGCAACATGATACA--AAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACAT-A-ACAGGAAATGAA
* * * * *
78645031 CAAGACCATGGTTGAAAGATACCATGGCCACGTAACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATAACAGGAAATGAA
* *
78645077 TAAAACCATGGTTGAAAGATACCATGGCAACATAACAAG-AATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATAACAGGAAATGAA
* * *
78645122 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGGAAATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATAAC-AGGAAATGAA
* *
78645169 TAAGACTATGGTTGAAAGATACCATGGCAACATAACGGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATAAC-AGGAAATGAA
* * * *
78645216 TAAGTCCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATAACAGGAAATGAA
* * *
78645262 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
78645291 TCGTGTCGAA
Statistics
Matches: 226, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
44 3 0.01
45 40 0.18
46 101 0.45
47 82 0.36
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATAACAGGAAATGAA
Found at i:78649164 original size:28 final size:28
Alignment explanation
Indices: 78649132--78649215 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
78649122 AACTGTGATC
78649132 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
78649160 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
78649182 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
78649210 ACGTGT
1 ACGTGT
78649216 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:78649255 original size:49 final size:49
Alignment explanation
Indices: 78649087--78649308 Score: 282
Period size: 49 Copynumber: 4.5 Consensus size: 49
78649077 GGTCGCATGC
*** * * *
78649087 GTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGATCACGTGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGT
* * **
78649138 GTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACGTGT
*
78649188 GTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCATGTGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTGT
* * *
78649237 GTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTGT
*
78649286 GTAGTACTATGTGCAGGCTACTA
1 GTAGTACTAAGTGCAGGCTACTA
78649309 TGCGTACCAG
Statistics
Matches: 150, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
49 76 0.51
50 45 0.30
51 29 0.19
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTGT
Found at i:78649261 original size:99 final size:100
Alignment explanation
Indices: 78649077--78649308 Score: 288
Period size: 99 Copynumber: 2.3 Consensus size: 100
78649067 TCTATTGTGA
* * *
78649077 GGTCGCATGCGTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTAG
* **
78649142 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* ** * * * *
78649177 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCATGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTA
* *
78649240 GTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
78649276 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
78649309 TGCGTACCAG
Statistics
Matches: 113, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
98 30 0.27
99 43 0.38
100 1 0.01
101 39 0.35
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:78651840 original size:50 final size:49
Alignment explanation
Indices: 78651675--78651890 Score: 159
Period size: 49 Copynumber: 4.5 Consensus size: 49
78651665 CCAATGCTAG
* * * *
78651675 GTCCCAGACATGGTTTTACACTGGCT-CATC-CATC-AAGTCGATGCCAT
1 GTCCCAGACATGGTATTACACTAGCTACA-CATATCGTAGTCGATGCCAT
* * * * * *
78651722 GTCCCAGACATGGTCTTACA-TTGACTATCA-AAATC-AAGGCCAATGCCAT
1 GTCCCAGACATGGTATTACACTAG-CTA-CACATATCGTA-GTCGATGCCAT
* *
78651771 GTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GTCGATGCCAT
1 GTCCCAGACATGGTATTACACTAGCT-ACACATAT-CGTAGTCGATGCCAT
* *
78651821 GTCCTAGACATGGTATTACACT-G--ACACATCTCGTAGTCGATG-CAT
1 GTCCCAGACATGGTATTACACTAGCTACACATATCGTAGTCGATGCCAT
*
78651866 GTCCCAGACAT-GTTTTACACTAGCT
1 GTCCCAGACATGGTATTACACTAGCT
78651891 TTTACACTGG
Statistics
Matches: 138, Mismatches: 17, Indels: 28
0.75 0.09 0.15
Matches are distributed among these distances:
44 9 0.07
45 17 0.12
46 15 0.11
47 21 0.15
48 5 0.04
49 36 0.26
50 34 0.25
51 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (49 bp):
GTCCCAGACATGGTATTACACTAGCTACACATATCGTAGTCGATGCCAT
Found at i:78651840 original size:99 final size:96
Alignment explanation
Indices: 78651664--78651845 Score: 240
Period size: 96 Copynumber: 1.9 Consensus size: 96
78651654 AGGGTATAAT
* * *
78651664 GCCAATGCTAGGTCCCAGACATGGTTTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAG
1 GCCAATGCCAGGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAG
* *
78651729 ACATGGTCTTACATTGACTATCAAAATCAAG
66 ACATGGTATTACACTGACTATCAAAATCAAG
* **
78651760 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCCGTGTCGATGCCATGTC
1 GCCAATGCCAGGTCCCAGACATGGTCTTACACTAGCTCATC-C--AT-CAAGTCGATGCCATGTC
*
78651824 CTAGACATGGTATTACACTGAC
62 CCAGACATGGTATTACACTGAC
78651846 ACATCTCGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
95 2 0.03
96 35 0.48
98 2 0.03
99 34 0.47
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCAATGCCAGGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAG
ACATGGTATTACACTGACTATCAAAATCAAG
Found at i:78656080 original size:23 final size:23
Alignment explanation
Indices: 78656050--78656098 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
78656040 TAAAGTGCAC
*
78656050 TTAAAATATGAACATGTTGAAAT
1 TTAAAATACGAACATGTTGAAAT
78656073 TTAAAATACGAACATGTTGAAAT
1 TTAAAATACGAACATGTTGAAAT
78656096 TTA
1 TTA
78656099 GTTAATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (23 bp):
TTAAAATACGAACATGTTGAAAT
Found at i:78663913 original size:27 final size:27
Alignment explanation
Indices: 78663875--78663939 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
78663865 TGGATAAGTT
78663875 GTAGAATTACCGAAATACCCCTGTAGG-
1 GTAGAATTACCGAAATACCCCTGT-GGA
* *
78663902 GTAGAATTACCGAGATACCCTTGTGGA
1 GTAGAATTACCGAAATACCCCTGTGGA
*
78663929 GTAAAATTACC
1 GTAGAATTACC
78663940 ATTTTGCCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTGGA
Found at i:78663984 original size:27 final size:26
Alignment explanation
Indices: 78663940--78663994 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
78663930 TAAAATTACC
78663940 ATTTTGCCCCTAGGGTGTTAAATGACT
1 ATTTTGCCCCTAGGGTG-TAAATGACT
* * * *
78663967 ATTTTGCCTCTCGTGTGTAAATGGCT
1 ATTTTGCCCCTAGGGTGTAAATGACT
78663993 AT
1 AT
78663995 GATTGGGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGTGTAAATGACT
Found at i:78664728 original size:27 final size:26
Alignment explanation
Indices: 78664676--78664735 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
78664666 ATATATTTAT
*
78664676 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
78664702 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
78664729 ATATCTG
1 ATATCTG
78664736 GTAGCCTCGC
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:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:78671419 original size:27 final size:27
Alignment explanation
Indices: 78671364--78671426 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
78671354 TGGATAAGTT
*
78671364 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTATAGG
* * * *
78671391 GTAGAATTATTGAGATACCCTTATGGG
1 GTAGAATTATCGAAATACCCCTATAGG
*
78671418 GTAAAATTA
1 GTAGAATTA
78671427 CCATTTTGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAGAATTATCGAAATACCCCTATAGG
Found at i:78673812 original size:67 final size:67
Alignment explanation
Indices: 78673703--78673836 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 67
78673693 TTGGGTCGGT
78673703 AAGTATACCTAGTCCCCAATTTAATGAAATGATTGTTATAGCCCTACGAGGTAAATGACTGATAT
1 AAGTATACCTAGTCCCCAATTTAATGAAATGATTGTTATAGCCCTACGAGGTAAATGACTGATAT
78673768 AC
66 AC
* *
78673770 AAGTATACCTAGTCCCCAATTTAATGAAATGATTGTTGTAGCCCTACGTGGTAAATGACTGATAT
1 AAGTATACCTAGTCCCCAATTTAATGAAATGATTGTTATAGCCCTACGAGGTAAATGACTGATAT
78673835 AC
66 AC
78673837 CTCTATGATA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (67 bp):
AAGTATACCTAGTCCCCAATTTAATGAAATGATTGTTATAGCCCTACGAGGTAAATGACTGATAT
AC
Found at i:78676463 original size:16 final size:15
Alignment explanation
Indices: 78676415--78676464 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
78676405 ATAAAAAAAG
78676415 ATTATAA-T-TATTA
1 ATTATAATTATATTA
**
78676428 ATATATAATTATATCC
1 AT-TATAATTATATTA
78676444 ATTATAATATATATTA
1 ATTATAAT-TATATTA
78676460 ATTAT
1 ATTAT
78676465 TATCAACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.07
14 5 0.17
15 7 0.24
16 15 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATTATATTA
Found at i:78676643 original size:17 final size:18
Alignment explanation
Indices: 78676617--78676650 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
78676607 CTTATTTTTA
78676617 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
78676634 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
78676651 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:78679222 original size:32 final size:32
Alignment explanation
Indices: 78679185--78679253 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
78679175 GCTTTTGAAG
78679185 CCAACCATGATGAAATTTTTATCCTTTGAAAC
1 CCAACCATGATGAAATTTTTATCCTTTGAAAC
78679217 CCAACCATGATGAAATTTTTATCCTTTGAAAC
1 CCAACCATGATGAAATTTTTATCCTTTGAAAC
78679249 CCAAC
1 CCAAC
78679254 TTTGAGACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.32
Consensus pattern (32 bp):
CCAACCATGATGAAATTTTTATCCTTTGAAAC
Found at i:78686230 original size:44 final size:44
Alignment explanation
Indices: 78686159--78686245 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
78686149 GCTAATTATG
78686159 TGCACTTAGTGTGCGAAATCAAGATAGCTTCAACTATATATATT
1 TGCACTTAGTGTGCGAAATCAAGATAGCTTCAACTATATATATT
*
78686203 TGCACTTAGTGTGC-AAGATCGAA-ATAGCTTCAGCTATATATAT
1 TGCACTTAGTGTGCGAA-ATC-AAGATAGCTTCAACTATATATAT
78686246 AGCTTTGGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 2 0.05
44 36 0.90
45 2 0.05
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (44 bp):
TGCACTTAGTGTGCGAAATCAAGATAGCTTCAACTATATATATT
Found at i:78688376 original size:43 final size:43
Alignment explanation
Indices: 78688229--78688376 Score: 135
Period size: 43 Copynumber: 3.4 Consensus size: 43
78688219 TGTGTTATCG
* * *
78688229 TGTAAGACCACGTCTAGGAC-GTTAGCATCGAT-TTGTGATTTACT
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGATATT-TGA-TTACA
* * * *
78688273 TGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTTCA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTACA
* *
78688315 TGTAAG-CTC-CTGTTTGGGACAGTGGCATTGATATTTGATTACA
1 TGTAAGAC-CAC-GTCTGGGACAGTGGCATCGATATTTGATTACA
78688358 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
78688377 TGCTAGCATT
Statistics
Matches: 83, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 26 0.31
43 28 0.34
44 28 0.34
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:78690063 original size:21 final size:22
Alignment explanation
Indices: 78690039--78690079 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
78690029 TGTTGGTATC
78690039 TGAC-TTTGA-TATGATAATGTA
1 TGACTTTTGACTATGA-AATGTA
78690060 TGACTTTTGACTATGAAATG
1 TGACTTTTGACTATGAAATG
78690080 ATTGCGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (22 bp):
TGACTTTTGACTATGAAATGTA
Found at i:78692351 original size:16 final size:16
Alignment explanation
Indices: 78692330--78692366 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
78692320 TTTTGGTCCA
78692330 TTTAACGAATTTTCTC
1 TTTAACGAATTTTCTC
78692346 TTTAACGAATTTTCTC
1 TTTAACGAATTTTCTC
78692362 TTTAA
1 TTTAA
78692367 GTCTTACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (16 bp):
TTTAACGAATTTTCTC
Found at i:78692634 original size:40 final size:40
Alignment explanation
Indices: 78692566--78692928 Score: 498
Period size: 40 Copynumber: 8.9 Consensus size: 40
78692556 CCTTATAATT
* *
78692566 CCAGCACGAATGC-CTTCGAGG-TTTAGCCC-AGATATACCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGA-ATATATCA
*
78692605 CCAGCACGAATGCTCTTCGGGACATAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
* *
78692645 CCAGCACGAATACTCTTCGGGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
* * *
78692685 CTAGCACGAATGGTCTTCGGGACTTAGCCTGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
78692725 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
* *
78692765 CTAGCACGAATGCTATTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
*
78692805 CTAGCACGAATGCTCTTGCTCTTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAA------TGCTCTTCGGGACTTAGCCCGAATATATCA
*
78692851 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
* * *
78692891 CTAGCACGAATGCTCTTCGCGACTTAGCCCGGATATAT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAT
78692929 ATAACTGTCA
Statistics
Matches: 294, Mismatches: 21, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
39 15 0.05
40 240 0.82
41 1 0.00
46 38 0.13
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
Found at i:78692774 original size:17 final size:17
Alignment explanation
Indices: 78692749--78692815 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
78692739 CTTCGGGACT
*
78692749 TAGCCCGAATATATCAC
1 TAGCACGAATATATCAC
*
78692766 TAGCACGAATGCTATTCGGGAC
1 TAGCACGAAT-ATA-TC---AC
*
78692788 TTAGCCCGAATATATCAC
1 -TAGCACGAATATATCAC
78692806 TAGCACGAAT
1 TAGCACGAAT
78692816 GCTCTTGCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
17 18 0.46
18 4 0.10
19 2 0.05
21 2 0.05
22 4 0.10
23 9 0.23
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (17 bp):
TAGCACGAATATATCAC
Found at i:78692797 original size:23 final size:23
Alignment explanation
Indices: 78692731--78692798 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
78692721 ATCACCAGCA
*
78692731 CGAATGCTCTTCGGGACTTAGCC
1 CGAATGCTATTCGGGACTTAGCC
* *
78692754 CGAAT-ATA-TC---AC-TAGCA
1 CGAATGCTATTCGGGACTTAGCC
78692771 CGAATGCTATTCGGGACTTAGCC
1 CGAATGCTATTCGGGACTTAGCC
78692794 CGAAT
1 CGAAT
78692799 ATATCACTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
17 9 0.26
18 4 0.12
19 2 0.06
21 2 0.06
22 3 0.09
23 14 0.41
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (23 bp):
CGAATGCTATTCGGGACTTAGCC
Found at i:78694469 original size:46 final size:46
Alignment explanation
Indices: 78694416--78694552 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
78694406 TATATATACA
* * *
78694416 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * * *
78694462 CATCTCATACACGTTTCGCATTAGCCATTCGCCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
**
78694508 CATCTCATACACATTTCACATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
78694553 ATACACTTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.26, C:0.33, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:78694584 original size:47 final size:46
Alignment explanation
Indices: 78694523--78694665 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
78694513 CATACACATT
* * *
78694523 TCACATTAGCCATTCGGCTTCGCCACATATATACACT-TCCACGTTCA
1 TCACATTGGCCATTCGGCTT-ACCACATATATACA-TGTCCACATTCA
** * * *
78694570 TCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTC-GGCTTACCACATATATACATGTCCACATTCA
** * *
78694617 TCACATTGGCCATTCGGCCTTATGACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGG-CTTACCACATATATACATGTCCACATTCA
78694664 TC
1 TC
78694666 TCATAAAATC
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.01
47 78 0.95
48 3 0.04
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCTTACCACATATATACATGTCCACATTCA
Found at i:78698445 original size:40 final size:40
Alignment explanation
Indices: 78698379--78698655 Score: 405
Period size: 40 Copynumber: 7.0 Consensus size: 40
78698369 CCTTATAATT
* *
78698379 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGAATATATCA
* *
78698418 CCAGCACAAAGGCTCTTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
* * *
78698458 CCAGCATGAATACTCTTCGGGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
*
78698498 CTAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
*
78698538 CTAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
*
78698578 CCAGCATGAATGCTCTTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
* ** *
78698618 CTAGCACGAATGCAATTCGGGACTTAGCCCGGATATAT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAT
78698656 ATAACTGTCA
Statistics
Matches: 216, Mismatches: 20, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 13 0.06
40 203 0.94
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
Found at i:78698530 original size:23 final size:23
Alignment explanation
Indices: 78698499--78698571 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
78698489 GATATATCAC
78698499 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * *
78698522 TAGCCCGAAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
78698539 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
*
78698562 TAGCCCGAAT
1 TAGCACGAAT
78698572 ATATCACCAG
Statistics
Matches: 37, Mismatches: 7, Indels: 12
0.66 0.12 0.21
Matches are distributed among these distances:
17 9 0.24
18 3 0.08
19 2 0.05
21 2 0.05
22 3 0.08
23 18 0.49
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:78700214 original size:46 final size:46
Alignment explanation
Indices: 78700146--78700282 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
78700136 TATATATACA
* *
78700146 CATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * * *
78700192 CATCTCATACACGTTTCGCATTAGCCATTCGCCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
**
78700238 CATCTCATACACATTTCACATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
78700283 ATACACTTCC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:78700368 original size:47 final size:47
Alignment explanation
Indices: 78700253--78700395 Score: 155
Period size: 47 Copynumber: 3.0 Consensus size: 47
78700243 CATACACATT
* ** * * *
78700253 TCACATTAGCCATTCGG-CTTCGCCACATATATACACT-TCCACGTTCA
1 TCACATTGGCCATTCGGCCTT-ATCACATATATGCA-TGTTCACATTCA
* **
78700300 TCACATTGGTCATTCTACCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
78700347 TCACATTGGCCATTCGGCCTTATGGCATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
78700394 TC
1 TC
78700396 TCATAAAATC
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
46 1 0.01
47 76 0.95
48 3 0.04
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:78723093 original size:47 final size:47
Alignment explanation
Indices: 78722877--78723790 Score: 1648
Period size: 47 Copynumber: 19.3 Consensus size: 47
78722867 NNNNNNNNNN
* *
78722877 TATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTG
*
78722926 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTG
*
78722975 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTG
78723024 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723071 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723118 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723165 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723212 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723259 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723306 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723353 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723400 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723447 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723494 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723541 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723588 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
78723635 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
*
78723682 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
* * * * * * * *
78723729 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
*
78723776 TATAAATGTGATAAG
1 TATATATGTGATAAG
78723791 TCCTGAAGGG
Statistics
Matches: 852, Mismatches: 13, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
47 711 0.83
48 3 0.00
49 138 0.16
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
Found at i:78724047 original size:37 final size:37
Alignment explanation
Indices: 78723915--78724046 Score: 219
Period size: 37 Copynumber: 3.6 Consensus size: 37
78723905 TCTAAAGATA
78723915 CGATGACTACGTGTGGAGATTATGTCCGGGTAAGACC
1 CGATGACTACGTGTGGAGATTATGTCCGGGTAAGACC
*
78723952 CAATGACTACGTGTGGAGATTATGTCCGGGTAAGACC
1 CGATGACTACGTGTGGAGATTATGTCCGGGTAAGACC
*
78723989 CGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACC
1 CGATGACTACGTGTGGAGATTATGTCCGGGTAAGACC
* * *
78724026 CGATAACTTCGTATGGAGATT
1 CGATGACTACGTGTGGAGATT
78724047 TCGTCTGAGC
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
CGATGACTACGTGTGGAGATTATGTCCGGGTAAGACC
Found at i:78725378 original size:40 final size:40
Alignment explanation
Indices: 78725334--78725861 Score: 774
Period size: 40 Copynumber: 13.2 Consensus size: 40
78725324 GGGCTAAATC
* *
78725334 CCGAAGAACATTCGTGCTAGTGATTTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
78725374 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
*
78725414 CCAAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
*
78725454 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAATTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
* * *
78725494 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAATC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
78725534 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
* * * *
78725574 CCGAAGAGCATTCGTGCTAGTGATATATCTAGG-CTAAATC
1 CCGAAGAGCATTCGTGCTAGTGATGTATC-CGGACTAAGTT
78725614 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
* * * *
78725654 CCGAAGAGCATTCGTGCTAGTGATATATCTAGG-CTAAATC
1 CCGAAGAGCATTCGTGCTAGTGATGTATC-CGGACTAAGTT
78725694 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
78725734 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
* ***
78725774 CCGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTT
* * * * * * *
78725814 CCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTC
1 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
78725854 CCGAAGAG
1 CCGAAGAG
78725862 TAATCATGCT
Statistics
Matches: 444, Mismatches: 38, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
39 5 0.01
40 434 0.98
41 5 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
Found at i:78727949 original size:12 final size:12
Alignment explanation
Indices: 78727932--78727957 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
78727922 CTGAGTTTGT
78727932 AATTCGGGTGTC
1 AATTCGGGTGTC
78727944 AATTCGGGTGTC
1 AATTCGGGTGTC
78727956 AA
1 AA
78727958 ATCCCTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (12 bp):
AATTCGGGTGTC
Found at i:78730039 original size:61 final size:61
Alignment explanation
Indices: 78729944--78730064 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
78729934 GGGGAGTACG
78729944 AAAATGTACAACGATTTGAAACGTCAATTTTGGTGGCATGGTATGAAACGAGACATCTCCA
1 AAAATGTACAACGATTTGAAACGTCAATTTTGGTGGCATGGTATGAAACGAGACATCTCCA
**
78730005 AAAATGTACAACGATTTGAAACGTTGATTTTGGTGGCATGGTATGAAACGAGACATCTCC
1 AAAATGTACAACGATTTGAAACGTCAATTTTGGTGGCATGGTATGAAACGAGACATCTCC
78730065 GACTTTGTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (61 bp):
AAAATGTACAACGATTTGAAACGTCAATTTTGGTGGCATGGTATGAAACGAGACATCTCCA
Found at i:78736631 original size:12 final size:12
Alignment explanation
Indices: 78736614--78736639 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
78736604 CTGAGTTTGT
78736614 AATTCGGGTGTC
1 AATTCGGGTGTC
78736626 AATTCGGGTGTC
1 AATTCGGGTGTC
78736638 AA
1 AA
78736640 ATCCCTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (12 bp):
AATTCGGGTGTC
Found at i:78740098 original size:124 final size:124
Alignment explanation
Indices: 78739878--78740127 Score: 482
Period size: 124 Copynumber: 2.0 Consensus size: 124
78739868 GGGGGAGAGT
*
78739878 TGTGACAGCCCAAAACTGACCCTAGTCGGGAAGTGGTTTCGGGACTGCTAAACTGAGTCTTATAA
1 TGTGACAGCCCAAAACTGACCCTAGTCGGGAAGTGGTTTCGGGACTGCTAAACCGAGTCTTATAA
78739943 ATAATTAAAAGTTATATTCTGTGTTTATGATGTGAGTAAATGCATGTGTGAAAGTTTCA
66 ATAATTAAAAGTTATATTCTGTGTTTATGATGTGAGTAAATGCATGTGTGAAAGTTTCA
*
78740002 TGTGACAGCCCAAAACTGACCCTAGTCGGGAAGTGGTTTCGGGACTGCTAAACCGAGTCTTATAG
1 TGTGACAGCCCAAAACTGACCCTAGTCGGGAAGTGGTTTCGGGACTGCTAAACCGAGTCTTATAA
78740067 ATAATTAAAAGTTATATTCTGTGTTTATGATGTGAGTAAATGCATGTGTGAAAGTTTCA
66 ATAATTAAAAGTTATATTCTGTGTTTATGATGTGAGTAAATGCATGTGTGAAAGTTTCA
78740126 TG
1 TG
78740128 CATTAATTTG
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (124 bp):
TGTGACAGCCCAAAACTGACCCTAGTCGGGAAGTGGTTTCGGGACTGCTAAACCGAGTCTTATAA
ATAATTAAAAGTTATATTCTGTGTTTATGATGTGAGTAAATGCATGTGTGAAAGTTTCA
Found at i:78742416 original size:40 final size:40
Alignment explanation
Indices: 78742361--78742547 Score: 329
Period size: 40 Copynumber: 4.7 Consensus size: 40
78742351 AACATTGGAT
78742361 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
78742401 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
78742441 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
78742481 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
78742521 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
78742548 ATGTGTTTGC
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:78751392 original size:46 final size:46
Alignment explanation
Indices: 78751339--78751514 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
78751329 TATTTGGGCA
*
78751339 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
78751385 TCCGAACTCGTTGAGTTGAGTCCTAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
78751432 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
78751478 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78751515 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 27 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:78758711 original size:89 final size:90
Alignment explanation
Indices: 78758558--78758737 Score: 317
Period size: 89 Copynumber: 2.0 Consensus size: 90
78758548 TTGAAGAGGG
*
78758558 TTTTTCTAAAAATTATTTTTTTGGAAATTTTTTATTTCCCAACTTAAGTTGACTTGTTTCTGAAA
1 TTTTTCTAAAAATTATTTTTTTGGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTCTGAAA
78758623 TGATGCTATTGAAAGTGTGGCACGC
66 TGATGCTATTGAAAGTGTGGCACGC
* *
78758648 TTTTTCTAAAAATTGTTTTTTT-GAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTTTGAAA
1 TTTTTCTAAAAATTATTTTTTTGGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTCTGAAA
*
78758712 TGATGCTATTGAAGGTGTGGCACGC
66 TGATGCTATTGAAAGTGTGGCACGC
78758737 T
1 T
78758738 AAGTCTCCGA
Statistics
Matches: 86, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 65 0.76
90 21 0.24
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.47
Consensus pattern (90 bp):
TTTTTCTAAAAATTATTTTTTTGGAAATTTTTTATTTCCCAACTTAACTTGACTTGTTTCTGAAA
TGATGCTATTGAAAGTGTGGCACGC
Found at i:78772409 original size:15 final size:15
Alignment explanation
Indices: 78772391--78772433 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
78772381 TCTAAGACAT
78772391 AGAAATCCAAGATAA
1 AGAAATCCAAGATAA
**
78772406 AGAAACTCCCAAGATTC
1 AGAAA-T-CCAAGATAA
78772423 AGAAATCCAAG
1 AGAAATCCAAG
78772434 TTACAATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.51, C:0.21, G:0.14, T:0.14
Consensus pattern (15 bp):
AGAAATCCAAGATAA
Found at i:78776865 original size:44 final size:45
Alignment explanation
Indices: 78776779--78777403 Score: 251
Period size: 50 Copynumber: 12.6 Consensus size: 45
78776769 CTGGTACGCA
* * * * * *
78776779 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTG-G
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGAG
*
78776823 TAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTG----A-G
*
78776873 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATC---T-GA-G
* * **
78776923 TAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAACGGGTAC-GCA-
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C----TTAAC-CAT-CTG-AG
*
78776974 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATC---T-GA-G
* * **
78777024 TAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAACGGGTAC-GCA-
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C----TTAAC-CAT-CTG-AG
*
78777075 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATC---T-GA-G
* * **
78777125 TAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAACGGGTAC-GCA-
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C----TTAAC-CAT-CTG-AG
*
78777176 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATC---T-GA-G
* * **
78777226 TAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAA-CAGGTACACA-
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C----TTAACCA--T-CTGAG
* ** * * *
78777277 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCT-G---A-G
* * *
78777327 TAGGAGCCTGTACTTAGTACTACACACGTGAATTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTG----A-G
*
78777377 TAGTAGCCTACACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
78777404 ATGATCGAAG
Statistics
Matches: 443, Mismatches: 67, Indels: 136
0.69 0.10 0.21
Matches are distributed among these distances:
44 40 0.09
45 4 0.01
46 14 0.03
47 1 0.00
48 4 0.01
49 4 0.01
50 225 0.51
51 117 0.26
52 3 0.01
53 5 0.01
54 3 0.01
55 15 0.03
56 4 0.01
57 4 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (45 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGAG
Found at i:78777046 original size:151 final size:152
Alignment explanation
Indices: 78776823--78777510 Score: 705
Period size: 151 Copynumber: 4.6 Consensus size: 152
78776813 ATCAATCTGG
* *
78776823 TAGTAGCCTGCACTTAATACTACACACGTGACTTAA-CCATCTGATACATGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAAGCCATCTGATACACGTAGTAGCCTGCACT
* *
78776887 TAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTTAGTACTACACACGT
66 TAGTACTACACACGTGACTTAACCATCTGATAGACGTAGTAGCCTACACTTAGTACTACACACGT
78776952 GATCAAAGTTAACGGGTACGCA
131 GATCAAAGTTAACGGGTACGCA
* * * *
78776974 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGA-CCATCTGATAGACGTAGTAGCCTACCCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAAGCCATCTGATACACGTAGTAGCCTGCACT
* ** * * * * *
78777038 TAGTACTACACACGTGA-TCAAAGTTAACGGGTACG-CATAGTAGCCTGCACTTAGTACTACACA
66 TAGTACTACACACGTGACT-TAA-CCATCTGATA-GACGTAGTAGCCTACACTTAGTACTACACA
** ** * * * *
78777101 CGTGA-C-TTGACCATCTGATA-GACG
128 CGTGATCAAAG-TTAACGGGTACG-CA
* * * ** * * * * *
78777125 TAGTAGCCTACCCTTAGTACTACACACGTGA-TCAAAGTTAACGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-TAAGCCATCTGATACACGTAGTAGCCTGCAC
* *
78777189 TTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTTAGTACTACACACG
65 TTAGTACTACACACGTGACTTAACCATCTGATAGACGTAGTAGCCTACACTTAGTACTACACACG
* *
78777254 TGATCAAAGTTAACAGGTACACA
130 TGATCAAAGTTAACGGGTACGCA
* ** * * * * * *
78777277 TAGTAGCCTGCACTTAGTACTACACATGCAACCT-ATCAATCTGGTACACGTAGGAGCCTGTACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAAGCCATCTGATACACGTAGTAGCCTGCACT
* * *
78777341 TAGTACTACACACGTGAATTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACAT
66 TAGTACTACACACGTGACTTAACCATCTGATAGACGTAGTAGCCTACACTTAGTACTACACACGT
*
78777406 GATCGAAGTTAACGGGTACGCA
131 GATCAAAGTTAACGGGTACGCA
* * * * * *
78777428 TAGTAGCCTGCACTTAGTACTACACATGCGACCT-ATCAATTCTG-TACATGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAAGCCA-TCTGATACACGTAGTAGCCTGCAC
* *
78777491 TTAGTACTACATAAGTGACT
65 TTAGTACTACACACGTGACT
78777511 CATAATGGAT
Statistics
Matches: 435, Mismatches: 88, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
150 5 0.01
151 319 0.73
152 108 0.25
153 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (152 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAAGCCATCTGATACACGTAGTAGCCTGCACT
TAGTACTACACACGTGACTTAACCATCTGATAGACGTAGTAGCCTACACTTAGTACTACACACGT
GATCAAAGTTAACGGGTACGCA
Found at i:78777357 original size:101 final size:101
Alignment explanation
Indices: 78776873--78777302 Score: 842
Period size: 101 Copynumber: 4.3 Consensus size: 101
78776863 CTGATACATG
78776873 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
78776938 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
66 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
78776974 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
78777039 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
66 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
78777075 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
78777140 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
66 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
78777176 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
* *
78777241 AGTACTACACACGTGATCAAAGTTAACAGGTACACA
66 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
78777277 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
78777303 TGCAACCTAT
Statistics
Matches: 327, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 327 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
Found at i:78777424 original size:101 final size:101
Alignment explanation
Indices: 78777319--78777501 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 101
78777309 CTATCAATCT
* * * * *
78777319 GGTACACGTAGGAGCCTGTACTTAGTACTACACACGTGAATTAACCA-TCTGATACACGTAGTAG
1 GGTACACATAGGAGCCTGCACTTAGTACTACACACGCGAACTAACAATTCTG-TACACGTAGTAG
78777383 CCTACACTTAGTACTACACACATGATCGAAGTTAACG
65 CCTACACTTAGTACTACACACATGATCGAAGTTAACG
* * * * * *
78777420 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATTCTGTACATGTAGTAGC
1 GGTACACATAGGAGCCTGCACTTAGTACTACACACGCGAACTAACAATTCTGTACACGTAGTAGC
*
78777485 CTGCACTTAGTACTACA
66 CTACACTTAGTACTACA
78777502 TAAGTGACTC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
101 65 0.94
102 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
GGTACACATAGGAGCCTGCACTTAGTACTACACACGCGAACTAACAATTCTGTACACGTAGTAGC
CTACACTTAGTACTACACACATGATCGAAGTTAACG
Found at i:78777434 original size:202 final size:202
Alignment explanation
Indices: 78776873--78777453 Score: 641
Period size: 202 Copynumber: 2.9 Consensus size: 202
78776863 CTGATACATG
** * * * * *
78776873 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
1 TAGTAGCCTGCACTTAGTACTACACACGCAACCTGACAATCTGATACACGTAGGAGCCTACACTT
** * * * *
78776938 AGTACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGT
66 AGTACTACACACGTGATCAAAGCCAACGGATACACATAGTAGCCTACACTTAGTACTACACACAT
* * * * *
78777003 GACTTGACCATCTGATAGACGTAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAACGG
131 GACTCGACCAACGGATAGACATAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAACAG
*
78777068 GTACGCA
196 GTACACA
** * * * * *
78777075 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
1 TAGTAGCCTGCACTTAGTACTACACACGCAACCTGACAATCTGATACACGTAGGAGCCTACACTT
** * * * *
78777140 AGTACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGT
66 AGTACTACACACGTGATCAAAGCCAACGGATACACATAGTAGCCTACACTTAGTACTACACACAT
* * * *
78777205 GACTTGACCATCTGATAGACGTAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAACAG
131 GACTCGACCAACGGATAGACATAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAACAG
78777270 GTACACA
196 GTACACA
* * **
78777277 TAGTAGCCTGCACTTAGTACTACACATGCAACCT-ATCAATCTGGTACACGTAGGAGCCTGTACT
1 TAGTAGCCTGCACTTAGTACTACACACGCAACCTGA-CAATCTGATACACGTAGGAGCCTACACT
* * * *
78777341 TAGTACTACACACGTGAAT-TAA-CCATCTGATACACGTAGTAGCCTACACTTAGTACTACACAC
65 TAGTACTACACACGTG-ATCAAAGCCAACGGATACACATAGTAGCCTACACTTAGTACTACACAC
** * * *
78777404 ATGA-TCGAAGTTAACGGGTACG-CATAGTAGCCTGCACTTAGTACTACACA
129 ATGACTCG-A-CCAACGGATA-GACATAGTAGCCTACCCTTAGTACTACACA
78777454 TGCGACCTAT
Statistics
Matches: 342, Mismatches: 32, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
200 2 0.01
201 38 0.11
202 299 0.87
203 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (202 bp):
TAGTAGCCTGCACTTAGTACTACACACGCAACCTGACAATCTGATACACGTAGGAGCCTACACTT
AGTACTACACACGTGATCAAAGCCAACGGATACACATAGTAGCCTACACTTAGTACTACACACAT
GACTCGACCAACGGATAGACATAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAACAG
GTACACA
Found at i:78777434 original size:303 final size:303
Alignment explanation
Indices: 78776873--78777453 Score: 794
Period size: 303 Copynumber: 1.9 Consensus size: 303
78776863 CTGATACATG
78776873 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
* * *
78776938 AGTACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGT
66 AGTACTACACACGTGATCAAAGTTAACAGGTACACATAGTAGCCTGCACTTAGTACTACACACGC
* * * * * * **
78777003 GACTTGACCATCTGATAGACGTAGTAGCCTACCCTTAGTACTACACACGTGATCAAAGTTAACGG
131 AACCTGACAATCTGATACACGTAGGAGCCTACACTTAGTACTACACACGTGATCAAAGCCAACGG
* * * * * * * *
78777068 GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCC
196 ATACACATAGTAGCCTACACTTAGTACTACACACATGACTCGACCAACGGATAGACATAGTAGCC
*
78777133 TACCCTTAGTACTACACACGTGATCAAAGTTAACGGGTACGCA
261 TACACTTAGTACTACACACGTGATCAAAGTTAACGGGTACGCA
78777176 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
*
78777241 AGTACTACACACGTGATCAAAGTTAACAGGTACACATAGTAGCCTGCACTTAGTACTACACATGC
66 AGTACTACACACGTGATCAAAGTTAACAGGTACACATAGTAGCCTGCACTTAGTACTACACACGC
* ** * *
78777306 AACCT-ATCAATCTGGTACACGTAGGAGCCTGTACTTAGTACTACACACGTGAAT-TAA-CCATC
131 AACCTGA-CAATCTGATACACGTAGGAGCCTACACTTAGTACTACACACGTG-ATCAAAGCCAAC
* * ** *
78777368 TGATACACGTAGTAGCCTACACTTAGTACTACACACATGA-TCGAAGTTAACGGGTACG-CATAG
194 GGATACACATAGTAGCCTACACTTAGTACTACACACATGACTCG-A-CCAACGGATA-GACATAG
*
78777431 TAGCCTGCACTTAGTACTACACA
256 TAGCCTACACTTAGTACTACACA
78777454 TGCGACCTAT
Statistics
Matches: 241, Mismatches: 32, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
301 2 0.01
302 38 0.16
303 198 0.82
304 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (303 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTGACCATCTGATAGACGTAGTAGCCTACCCTT
AGTACTACACACGTGATCAAAGTTAACAGGTACACATAGTAGCCTGCACTTAGTACTACACACGC
AACCTGACAATCTGATACACGTAGGAGCCTACACTTAGTACTACACACGTGATCAAAGCCAACGG
ATACACATAGTAGCCTACACTTAGTACTACACACATGACTCGACCAACGGATAGACATAGTAGCC
TACACTTAGTACTACACACGTGATCAAAGTTAACGGGTACGCA
Found at i:78778162 original size:30 final size:30
Alignment explanation
Indices: 78778126--78778182 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
78778116 AAAATCATAG
*
78778126 TTTCACAAATTTACATTTTGACCCCTAAAC
1 TTTCACAAATTTACACTTTGACCCCTAAAC
* *
78778156 TTTCACATATTTACACTTTGGCCCCTA
1 TTTCACAAATTTACACTTTGACCCCTA
78778183 GGCTCGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.05, T:0.39
Consensus pattern (30 bp):
TTTCACAAATTTACACTTTGACCCCTAAAC
Found at i:78780111 original size:46 final size:46
Alignment explanation
Indices: 78780055--78780227 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
78780045 TGGTTGAGCA
* *
78780055 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
78780101 TCTGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * ** *
78780148 TCCGAACTCGTTAAGTTGAGTCTAAGTTCATTTATGGATGCAAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
78780194 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
78780228 GGGGCGGGTT
Statistics
Matches: 97, Mismatches: 23, Indels: 14
0.72 0.17 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 55 0.57
47 24 0.25
48 3 0.03
50 6 0.06
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:78780211 original size:93 final size:93
Alignment explanation
Indices: 78780052--78780222 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
78780042 GGATGGTTGA
* * * * * *
78780052 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGT
78780117 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
78780145 GCATCCGAACTCGTTAAGTTGAGTCTAAGTTCATTTATGGATGCAAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGT
78780210 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
78780223 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:78788213 original size:48 final size:48
Alignment explanation
Indices: 78788172--78788989 Score: 1627
Period size: 48 Copynumber: 17.0 Consensus size: 48
78788162 TACATGAATC
78788172 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788220 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788268 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788316 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788364 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788412 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788460 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788508 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788556 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788604 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788652 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788700 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788748 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788796 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788844 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788892 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
*
78788940 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACAGGCA
1 CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
78788988 CA
1 CA
78788990 TTTAGCATGG
Statistics
Matches: 769, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 769 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (48 bp):
CACATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCA
Found at i:78794491 original size:21 final size:22
Alignment explanation
Indices: 78794465--78794506 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
78794455 GTGTATTTTG
78794465 ATGTTTGATGATAGA-AAACAC
1 ATGTTTGATGATAGATAAACAC
* *
78794486 ATGTTTGTTGCTAGATAAACA
1 ATGTTTGATGATAGATAAACA
78794507 ACATTTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (22 bp):
ATGTTTGATGATAGATAAACAC
Found at i:78806935 original size:300 final size:300
Alignment explanation
Indices: 78806393--78806999 Score: 1106
Period size: 300 Copynumber: 2.0 Consensus size: 300
78806383 ATTTTATTAT
* *
78806393 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTTGTTAAGAAATTTTATCGTTT
1 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTCGATAAGAAATTTTATCGTTT
* *
78806458 GAATACTTAATTTGAGAAAAAAGACTAAATCACGTAAAGTGCAAAAGTGATGTTCTAATAGCTAA
66 GAATACTTAATTTGAGAAAAAAGACTAAATCACGTAAAGTACAAAAATGATGTTCTAATAGCTAA
* * *
78806523 AGGCATTAAATGGCTATGAAATTAAATAGTGGAGGTTCTTATCTGGTAAATATACCATTGTTAAT
131 AGGCATTAAATGGCTATGAAATTAAATAGTGAAGGTCCTTATCTAGTAAATATACCATTGTTAAT
78806588 ATGAATGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
196 ATGAATGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
78806653 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
261 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
78806693 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTCGATAAGAAATTTTATCGTTT
1 TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTCGATAAGAAATTTTATCGTTT
* *
78806758 GAATACTTAATTTGATAAAAAGGACTAAATCACGTAAAGTACAAAAATGATGTTCTAATAGCTAA
66 GAATACTTAATTTGAGAAAAAAGACTAAATCACGTAAAGTACAAAAATGATGTTCTAATAGCTAA
* *
78806823 AGGCATTAAATGGCTATGAAATTAAATAGTGAAGGTCCTTGTCTAGTAAATATATCATTGTTAAT
131 AGGCATTAAATGGCTATGAAATTAAATAGTGAAGGTCCTTATCTAGTAAATATACCATTGTTAAT
*
78806888 ATGAGTGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
196 ATGAATGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
78806953 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
261 AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
78806993 TATTTTA
1 TATTTTA
78807000 GTCCATTTTC
Statistics
Matches: 295, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
300 295 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (300 bp):
TATTTTAATGTCTACAGCATGATAGTATGATTGTGTGAAATTTTCGATAAGAAATTTTATCGTTT
GAATACTTAATTTGAGAAAAAAGACTAAATCACGTAAAGTACAAAAATGATGTTCTAATAGCTAA
AGGCATTAAATGGCTATGAAATTAAATAGTGAAGGTCCTTATCTAGTAAATATACCATTGTTAAT
ATGAATGGACATTTATGGACTTATATTAAGTGATTCTAATGAATTTTATTAAAGGTTATAATAGT
AATTAATAAATAAAAATTTAATAAGTTTAATAAAACCAAA
Found at i:78811834 original size:13 final size:13
Alignment explanation
Indices: 78811816--78811846 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
78811806 CATTTCCAGC
78811816 TTACCTTAGGATA
1 TTACCTTAGGATA
*
78811829 TTACCTTAGGTTA
1 TTACCTTAGGATA
78811842 TTACC
1 TTACC
78811847 ATGTAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (13 bp):
TTACCTTAGGATA
Found at i:78815445 original size:25 final size:25
Alignment explanation
Indices: 78815417--78815471 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
78815407 ATTAGACATC
*
78815417 AAAATACACAAATATCTATCATGAA
1 AAAAAACACAAATATCTATCATGAA
*** *
78815442 AAAAAATTTAAATATCTATCATTAA
1 AAAAAACACAAATATCTATCATGAA
78815467 AAAAA
1 AAAAA
78815472 TTTAGACTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAAAACACAAATATCTATCATGAA
Found at i:78815473 original size:24 final size:25
Alignment explanation
Indices: 78815426--78815475 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
78815416 CAAAATACAC
78815426 AAATATCTATCATGAAAAAAAATTT
1 AAATATCTATCATGAAAAAAAATTT
*
78815451 AAATATCTATCAT-TAAAAAAATTT
1 AAATATCTATCATGAAAAAAAATTT
78815475 A
1 A
78815476 GACTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (25 bp):
AAATATCTATCATGAAAAAAAATTT
Found at i:78824309 original size:39 final size:40
Alignment explanation
Indices: 78824214--78824475 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
78824204 TTGAATGATG
*
78824214 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
78824252 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
78824293 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
78824332 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
78824371 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
78824410 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
78824449 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
78824476 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:78833083 original size:28 final size:27
Alignment explanation
Indices: 78833026--78833177 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
78833016 TAAATTGTGC
*
78833026 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
78833053 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
78833081 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
78833108 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
78833136 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
78833163 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78833178 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:78833091 original size:55 final size:55
Alignment explanation
Indices: 78833026--78833177 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
78833016 TAAATTGTGC
*
78833026 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
78833081 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
78833136 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
78833178 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:78838293 original size:79 final size:81
Alignment explanation
Indices: 78838157--78838341 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
78838147 TTGAATGATG
*
78838157 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
78838221 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
78838236 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
78838298 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
78838316 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
78838342 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:78838355 original size:40 final size:40
Alignment explanation
Indices: 78838158--78838341 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
78838148 TGAATGATGT
* * * *
78838158 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
78838198 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
78838238 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
78838276 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
78838317 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
78838342 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:78838363 original size:79 final size:79
Alignment explanation
Indices: 78838210--78838374 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
78838200 GGACTAAGAT
* **
78838210 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
78838275 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
78838289 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
78838352 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
78838368 CCGAAGG
1 CCGAAGG
78838375 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:78843137 original size:31 final size:31
Alignment explanation
Indices: 78843096--78843197 Score: 118
Period size: 31 Copynumber: 3.3 Consensus size: 31
78843086 ACACCGGTAA
*
78843096 ATAGTACCTGATAAAATATAAACACC-GACAC
1 ATAGTGCCTGATAAAATATAAACACCAG-CAC
* * * *
78843127 ATTGTGCCTGATACAATATAAACATCAGTAC
1 ATAGTGCCTGATAAAATATAAACACCAGCAC
*
78843158 ATAGTACCTGCA-AAAATATAAACACCAGCAC
1 ATAGTGCCTG-ATAAAATATAAACACCAGCAC
78843189 ATAGTGCCT
1 ATAGTGCCT
78843198 ACTATACCTA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
31 56 0.97
32 2 0.03
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.23
Consensus pattern (31 bp):
ATAGTGCCTGATAAAATATAAACACCAGCAC
Found at i:78843342 original size:14 final size:13
Alignment explanation
Indices: 78843309--78843352 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
78843299 TTTGTGTTTA
*
78843309 TTATGTGTGAATT
1 TTATGTGTTAATT
78843322 TATATGTGTTAATT
1 T-TATGTGTTAATT
*
78843336 TTCATGTTTTAATT
1 TT-ATGTGTTAATT
78843350 TTA
1 TTA
78843353 CTGTTTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 24 0.89
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (13 bp):
TTATGTGTTAATT
Found at i:78846597 original size:17 final size:17
Alignment explanation
Indices: 78846575--78846655 Score: 85
Period size: 17 Copynumber: 4.8 Consensus size: 17
78846565 AACTTACCAT
78846575 ACCCAATACCCACATAA
1 ACCCAATACCCACATAA
* *
78846592 ACCCAA-ACCCAAAATCA
1 ACCCAATACCC-ACATAA
78846609 ACCCAATACCCACATAA
1 ACCCAATACCCACATAA
* **
78846626 ACCCAA-ACCCAAAATCT
1 ACCCAATACCC-ACATAA
78846643 ACCCAATACCCAC
1 ACCCAATACCCAC
78846656 CACCCAACCC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.15
17 36 0.69
18 8 0.15
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (17 bp):
ACCCAATACCCACATAA
Found at i:78846615 original size:34 final size:34
Alignment explanation
Indices: 78846575--78846655 Score: 153
Period size: 34 Copynumber: 2.4 Consensus size: 34
78846565 AACTTACCAT
78846575 ACCCAATACCCACATAAACCCAAACCCAAAATCA
1 ACCCAATACCCACATAAACCCAAACCCAAAATCA
*
78846609 ACCCAATACCCACATAAACCCAAACCCAAAATCT
1 ACCCAATACCCACATAAACCCAAACCCAAAATCA
78846643 ACCCAATACCCAC
1 ACCCAATACCCAC
78846656 CACCCAACCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (34 bp):
ACCCAATACCCACATAAACCCAAACCCAAAATCA
Found at i:78848760 original size:15 final size:15
Alignment explanation
Indices: 78848740--78848784 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
78848730 CTATTTTAAG
78848740 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
*
78848755 TTTATTTTAA-ATTA
1 TTTATTTTAATTTTA
78848769 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
78848784 T
1 T
78848785 ATTAATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
15 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:78854963 original size:56 final size:56
Alignment explanation
Indices: 78854900--78855029 Score: 224
Period size: 56 Copynumber: 2.3 Consensus size: 56
78854890 ACCATGGAAT
78854900 CGATATATGTGTGTGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGTGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
* *
78854956 CGATATATGTGTGTAACTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGTGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
* *
78855012 CGATTTATGTGTGCGAGT
1 CGATATATGTGTGTGAGT
78855030 TAAACCCTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (56 bp):
CGATATATGTGTGTGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTC
Found at i:78859090 original size:25 final size:25
Alignment explanation
Indices: 78859061--78859108 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
78859051 TTATAATATG
* * *
78859061 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
78859086 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
78859109 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:78859159 original size:9 final size:9
Alignment explanation
Indices: 78859147--78859203 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
78859137 TTTGATAAAC
78859147 ATGATATGT
1 ATGATATGT
*
78859156 ATGATATGCAC
1 ATGATATG--T
*
78859167 ATGACATGT
1 ATGATATGT
*
78859176 ATGATATGCAC
1 ATGATATG--T
78859187 ATGATATGT
1 ATGATATGT
78859196 ATGATATG
1 ATGATATG
78859204 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:78859170 original size:20 final size:20
Alignment explanation
Indices: 78859145--78859207 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
78859135 ATTTTGATAA
78859145 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
78859165 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
78859185 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
78859205 ACA
1 ACA
78859208 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:78860661 original size:14 final size:14
Alignment explanation
Indices: 78860642--78860671 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78860632 CATTCCGAAG
*
78860642 TATATATATATACA
1 TATATACATATACA
78860656 TATATACATATACA
1 TATATACATATACA
78860670 TA
1 TA
78860672 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATACATATACA
Found at i:78861212 original size:56 final size:56
Alignment explanation
Indices: 78861121--78861243 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
78861111 GAGATTGGTG
* * *
78861121 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
78861178 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
78861233 CTGAGTGTGCG
1 CTAAGTGTGCG
78861244 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:78861230 original size:27 final size:28
Alignment explanation
Indices: 78861121--78861243 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
78861111 GAGATTGGTG
* * * *
78861121 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
78861150 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
78861178 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
78861206 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
78861233 CTGAGTGTGCG
1 CTAAGTGTGCG
78861244 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:78861254 original size:27 final size:27
Alignment explanation
Indices: 78861146--78861256 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
78861136 TAAATTGTAC
* * *
78861146 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
78861174 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
78861202 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
78861229 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
78861256 A
1 A
78861257 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:78868980 original size:8 final size:8
Alignment explanation
Indices: 78868964--78868997 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
78868954 CATTCCGAAG
*
78868964 TATATATA
1 TATACATA
78868972 TATACATA
1 TATACATA
78868980 TATACATA
1 TATACATA
78868988 TATACATA
1 TATACATA
78868996 TA
1 TA
78868998 CATAAGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (8 bp):
TATACATA
Found at i:78868998 original size:14 final size:15
Alignment explanation
Indices: 78868964--78869001 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
78868954 CATTCCGAAG
*
78868964 TATATATATATACATA
1 TATACATATATACA-A
78868980 TATACATATATAC-A
1 TATACATATATACAA
78868994 TATACATA
1 TATACATA
78869002 AGTATGCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
16 12 0.57
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (15 bp):
TATACATATATACAA
Found at i:78869560 original size:27 final size:28
Alignment explanation
Indices: 78869451--78869574 Score: 178
Period size: 28 Copynumber: 4.4 Consensus size: 28
78869441 GAGATTGGCG
* * * *
78869451 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
78869480 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
78869508 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
78869536 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
78869563 CTGAGTGTGCGA
1 CTAAGTGTGCGA
78869575 ACTTAATATA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 25 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:78871180 original size:281 final size:281
Alignment explanation
Indices: 78870677--78871237 Score: 1025
Period size: 281 Copynumber: 2.0 Consensus size: 281
78870667 GGATTCCCTG
78870677 TTCCGACTTTGGAAATTCTTTATAAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTACA
1 TTCCGACTTTGGAAATTCTTTATAAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTACA
*
78870742 GATTCCTCTATGAGTCTAGTTTTTATAGAAACAAACGAAATCAGTATTGAAGCTCTGTGCAGGGA
66 GATTCCTCTATGACTCTAGTTTTTATAGAAACAAACGAAATCAGTATTGAAGCTCTGTGCAGGGA
* *
78870807 GATATCCAATTCGTAATGCGCAAGGGTCAGAGTAGTCGATCCCTGTAACATGGGAGACTTTTACT
131 GATATCCAATTCGTAATGCGAAAGGGTCAGAGTAGTCGATCCCTGTAACATGGGAGACTTTGACT
**
78870872 AATAAACTGTACTAATTGGCCTGACCAAAAATTCTACAAAAATTCTACCATATATTTATATGAGT
196 AATAAACTGTACTAATTGGCCTGACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGT
78870937 CTAGTTCCAGGGAAAATTTAT
261 CTAGTTCCAGGGAAAATTTAT
*
78870958 TTCCGACTTTGGAAATTCTTTATAAATTAACCAGAGATAATTAGGAGTCATGCCATATATTTACA
1 TTCCGACTTTGGAAATTCTTTATAAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTACA
* *
78871023 GATTCCTCTCTGACTCTAGTTTTTATAGAAATAAAC-AACATCAGTATTGAAGCTCTGTGCAGGG
66 GATTCCTCTATGACTCTAGTTTTTATAGAAACAAACGAA-ATCAGTATTGAAGCTCTGTGCAGGG
*
78871087 AGATATCCAATTCGTAATGCGAAAGGGTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTGAC
130 AGATATCCAATTCGTAATGCGAAAGGGTCAGAGTAGTCGATCCCTGTAACATGGGAGACTTTGAC
78871152 TAATAAACTGTACTAATTGGCCTGACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAG
195 TAATAAACTGTACTAATTGGCCTGACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAG
78871217 TCTAGTTCCAGGGAAAATTTA
260 TCTAGTTCCAGGGAAAATTTA
78871238 CGGAACTGGA
Statistics
Matches: 270, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
280 2 0.01
281 268 0.99
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (281 bp):
TTCCGACTTTGGAAATTCTTTATAAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTACA
GATTCCTCTATGACTCTAGTTTTTATAGAAACAAACGAAATCAGTATTGAAGCTCTGTGCAGGGA
GATATCCAATTCGTAATGCGAAAGGGTCAGAGTAGTCGATCCCTGTAACATGGGAGACTTTGACT
AATAAACTGTACTAATTGGCCTGACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGT
CTAGTTCCAGGGAAAATTTAT
Found at i:78878013 original size:30 final size:31
Alignment explanation
Indices: 78877967--78878030 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
78877957 ATTTCTTATG
78877967 CCAATATTTCGATACCCATATCTTTGAATTT
1 CCAATATTTCGATACCCATATCTTTGAATTT
* *
78877998 CCAATATTT-GATACCCTTATCTTTGACTTT
1 CCAATATTTCGATACCCATATCTTTGAATTT
78878028 CCA
1 CCA
78878031 TAATATGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (31 bp):
CCAATATTTCGATACCCATATCTTTGAATTT
Found at i:78883188 original size:50 final size:51
Alignment explanation
Indices: 78883081--78883209 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 51
78883071 AAAGAGATCC
* * * * **
78883081 CATGTAAGACCATGTCTGGAACATGGCGTTGGTACCAAGATGAGAGGTCCT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCCT
* * * *
78883132 C-CGTAAGACCATGTTTGGGACATGGCATGGGCACCTATATGAGAACT-CT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCCT
* *
78883181 CATGTAAGACCATATCTGGGATATGGCAT
1 CATGTAAGACCATGTCTGGGACATGGCAT
78883210 TAGCAGTACA
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
49 3 0.05
50 59 0.94
51 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (51 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAACTCCT
Found at i:78894971 original size:27 final size:27
Alignment explanation
Indices: 78894441--78894960 Score: 628
Period size: 27 Copynumber: 19.3 Consensus size: 27
78894431 AGAGGCCAAT
* *
78894441 AAATGACCAAAATAACCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
78894468 AAATGACCAAAATACTCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
78894495 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
78894522 GAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
78894549 GAATGACCAAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
78894576 AAAT-AGCCAAAATAACCCCATAGGGTA
1 AAATGA-CCGAAATACCCCCATAGGGTA
* *
78894603 AAATAATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
78894630 GAACGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
78894657 AAAGGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
78894684 AAATGACCAAAATACTCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
78894711 AAATGACTAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
78894738 AAATAACCAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
78894765 GAATGACAGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
***
78894792 AAATGACCGAAATACCCCCATAAAATA
1 AAATGACCGAAATACCCCCATAGGGTA
** * *
78894819 AAATGACTAAAATACCCCCATAAGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
78894846 AAATGACCGAAATACCCCTATAGTGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
78894873 AAATGATCGAAATAACCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
78894900 GAATGATCGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
78894927 AAATAATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
78894954 AAATGAC
1 AAATGAC
78894961 TGTTATACCC
Statistics
Matches: 431, Mismatches: 60, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 429 1.00
28 1 0.00
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.17
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:78899596 original size:52 final size:52
Alignment explanation
Indices: 78899536--78899639 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
78899526 TTACCCCTCA
*
78899536 ATAGTGTTTAAATTTTTAGGTAAACCTCGAAATTAGGACCAG-ACTCGGCATT
1 ATAGTGTTTAAATTTTTAGGTAAACCTCGAAATGAGGACCAGAAC-CGGCATT
*
78899588 ATAGTGTTTAACTTTTTAGGTAAACCTCGAAATGAGGACCAGAACCGGCATT
1 ATAGTGTTTAAATTTTTAGGTAAACCTCGAAATGAGGACCAGAACCGGCATT
78899640 CGGAGAGTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 47 0.96
53 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (52 bp):
ATAGTGTTTAAATTTTTAGGTAAACCTCGAAATGAGGACCAGAACCGGCATT
Found at i:78903937 original size:17 final size:16
Alignment explanation
Indices: 78903894--78903963 Score: 52
Period size: 17 Copynumber: 4.2 Consensus size: 16
78903884 TTTTTGGTAC
* * *
78903894 TTTAGGGTTTATGTTT
1 TTTAGAGTTTAAGGTT
*
78903910 TTTAGATTTTAAGGTT
1 TTTAGAGTTTAAGGTT
*
78903926 TTTACGAGTTT-AGGACT
1 TTTA-GAGTTTAAGG-TT
*
78903943 TTTATGGGTTTAAGGTT
1 TTTA-GAGTTTAAGGTT
78903960 TTTA
1 TTTA
78903964 ACTGTTCTGG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
16 19 0.45
17 20 0.48
18 3 0.07
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.54
Consensus pattern (16 bp):
TTTAGAGTTTAAGGTT
Found at i:78908628 original size:23 final size:23
Alignment explanation
Indices: 78908598--78908642 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
78908588 TTTCTTAGTG
* *
78908598 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCAGGATATTACAA
78908621 TAGTAATTTTCAGGATATTACA
1 TAGTAATTTTCAGGATATTACA
78908643 GAGCCATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (23 bp):
TAGTAATTTTCAGGATATTACAA
Found at i:78919841 original size:61 final size:59
Alignment explanation
Indices: 78919720--78919844 Score: 135
Period size: 61 Copynumber: 2.1 Consensus size: 59
78919710 TTTATAAAAA
* * * *
78919720 AATATAATATTTATCAAAATAAAATATTAGATTAAATTTAATATTAAATCTATTAAATT
1 AATATAATACTTATCAAAATAAAATATTAAATTAAATTTAATATTAAATCAATCAAATT
* * * * *
78919779 AATATAATACTTATCTACAATATAACTATTAAATTTAATTTAATATTAAGGT-AATCACATT
1 AATATAATACTTATC-AAAATA-AAATATTAAATTAAATTTAATATTAA-ATCAATCAAATT
78919840 AATAT
1 AATAT
78919845 TAAATTAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 14 0.26
60 5 0.09
61 34 0.63
62 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (59 bp):
AATATAATACTTATCAAAATAAAATATTAAATTAAATTTAATATTAAATCAATCAAATT
Found at i:78920416 original size:27 final size:25
Alignment explanation
Indices: 78920361--78920428 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
78920351 CTTCCCTAAG
* *
78920361 CCCCCAAAACTTTTTTCCTTTTGCTTT
1 CCCCCAAAAC--TTTTACTTTTCCTTT
78920388 CCCCCAAAACTTTTACTTTCTCCTGTT
1 CCCCCAAAACTTTTACTTT-TCCT-TT
*
78920415 CCCTCAAAACTTTT
1 CCCCCAAAACTTTT
78920429 TTTTCAAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 8 0.22
26 3 0.08
27 25 0.69
ACGTcount: A:0.19, C:0.35, G:0.03, T:0.43
Consensus pattern (25 bp):
CCCCCAAAACTTTTACTTTTCCTTT
Found at i:78920805 original size:19 final size:19
Alignment explanation
Indices: 78920781--78920818 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
78920771 AAGTTAATAC
*
78920781 AAATTTGATTACGATGGGT
1 AAATTTGATGACGATGGGT
*
78920800 AAATTTGATGACGGTGGGT
1 AAATTTGATGACGATGGGT
78920819 GGCAGAGGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.32, T:0.34
Consensus pattern (19 bp):
AAATTTGATGACGATGGGT
Found at i:78922091 original size:16 final size:16
Alignment explanation
Indices: 78922070--78922100 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78922060 ACCATGAATG
*
78922070 TCACAAGTGAATTAAT
1 TCACAAATGAATTAAT
78922086 TCACAAATGAATTAA
1 TCACAAATGAATTAA
78922101 GAATTAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (16 bp):
TCACAAATGAATTAAT
Found at i:78923122 original size:24 final size:24
Alignment explanation
Indices: 78923090--78923138 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
78923080 CCTAAGAGTT
78923090 TGATTTTCTCCCTTTTACATAGTC
1 TGATTTTCTCCCTTTTACATAGTC
78923114 TGATTTTCTCCCTTTTACATAGTC
1 TGATTTTCTCCCTTTTACATAGTC
78923138 T
1 T
78923139 TCAATCTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.08, T:0.51
Consensus pattern (24 bp):
TGATTTTCTCCCTTTTACATAGTC
Found at i:78923207 original size:25 final size:25
Alignment explanation
Indices: 78923164--78923231 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
78923154 AAGAAAGAAA
*
78923164 TAAAACAGCAAAA-AGAAAATCTACTC
1 TAAAA-AG-AAAAGAGAAAATCTAATC
78923190 TAAAAAGAAAAGAGAAAATCTAATC
1 TAAAAAGAAAAGAGAAAATCTAATC
*
78923215 TACAAATGAAAAG-GAAA
1 TA-AAAAGAAAAGAGAAA
78923232 GGAAAGGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
24 4 0.11
25 20 0.53
26 14 0.37
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.15
Consensus pattern (25 bp):
TAAAAAGAAAAGAGAAAATCTAATC
Done.