Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 164 of 362
Found at i:54044454 original size:47 final size:47
Alignment explanation
Indices: 54044391--54044694 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
54044381 CCCTTCGGGA
* * *
54044391 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
54044438 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54044485 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
54044532 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54044579 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54044626 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54044675 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
54044695 GTACATCAAT
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 193 0.81
49 45 0.19
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:54048088 original size:40 final size:40
Alignment explanation
Indices: 54048056--54048278 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
54048046 CCAGCATGAT
* * *
54048056 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** **
54048096 TGCTCTTCGGGGTTTAGGACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
54048136 TGCTCTTCGGAACTTAGCCC-GATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
54048175 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
54048215 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
54048255 TGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGAT
54048279 CATCGTCGAG
Statistics
Matches: 161, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 36 0.22
40 125 0.78
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:54048198 original size:79 final size:80
Alignment explanation
Indices: 54048056--54048278 Score: 349
Period size: 79 Copynumber: 2.8 Consensus size: 80
54048046 CCAGCATGAT
* * * * * * ** **
54048056 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGGACGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
54048121 TATCACTAGCACGAA
66 TATCACTAGCACGAA
54048136 TGCTCTTCGGAACTTAGCCC-GATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
54048200 TATCACTAGCACGAA
66 TATCACTAGCACGAA
54048215 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
54048279 CATCGTCGAG
Statistics
Matches: 132, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
79 71 0.54
80 61 0.46
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACGAA
Found at i:54048259 original size:119 final size:119
Alignment explanation
Indices: 54048043--54048275 Score: 349
Period size: 119 Copynumber: 2.0 Consensus size: 119
54048033 CGAATACACG
* **
54048043 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAA
* * *
54048108 TTTAGGACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGATACA
66 CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGATACA
* * * *
54048162 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAA
1 TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAA
* * *
54048227 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCG
66 CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCG
54048276 GATCATCGTC
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
119 101 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAA
CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGATACA
Found at i:54048377 original size:37 final size:38
Alignment explanation
Indices: 54048336--54048409 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
54048326 GAATTTTAAT
*
54048336 CCGGACATAATCTCTT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
* *
54048373 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
54048410 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 16 0.48
38 17 0.52
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:54050903 original size:47 final size:47
Alignment explanation
Indices: 54050840--54051143 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
54050830 CCCTTCGGGA
* * *
54050840 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
54050887 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54050934 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
54050981 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54051028 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54051075 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54051124 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
54051144 GTACATCAAT
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 193 0.81
49 45 0.19
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:54054531 original size:40 final size:40
Alignment explanation
Indices: 54054499--54054717 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
54054489 CCAGCATGAT
* * *
54054499 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
54054539 TGCTCTTCGGG-TTTAG--CGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
54054576 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
54054616 TGCTCTTC-GGACTTAG-CCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
54054654 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
54054694 TGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGAT
54054718 CATCGTGAGA
Statistics
Matches: 159, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
37 29 0.18
38 32 0.20
39 17 0.11
40 81 0.51
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:54054662 original size:78 final size:78
Alignment explanation
Indices: 54054499--54054717 Score: 341
Period size: 78 Copynumber: 2.8 Consensus size: 78
54054489 CCAGCATGAT
* * * * * * **
54054499 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGTTTAG-CGGATATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGACTTAGCCGGATATA
54054563 TCACTAGCACGAA
66 TCACTAGCACGAA
54054576 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGACTTAGCCGGATATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGACTTAGCCGGATATA
54054641 TCACTAGCACGAA
66 TCACTAGCACGAA
54054654 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTC-GGACTTAG-CCGGAT
54054718 CATCGTGAGA
Statistics
Matches: 131, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
77 48 0.37
78 69 0.53
79 8 0.06
80 6 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGACTTAGCCGGATATA
TCACTAGCACGAA
Found at i:54054813 original size:37 final size:39
Alignment explanation
Indices: 54054772--54054846 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
54054762 GAATTTTAAT
*
54054772 CCGGACA-A-ATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATATATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
54054809 CCGGACATATATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATATATCTCTTCACATAGCCAGCGGGTCTTTA
54054847 AACTCGGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 7 0.22
38 2 0.06
39 23 0.72
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (39 bp):
CCGGACATATATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:54057341 original size:47 final size:47
Alignment explanation
Indices: 54057278--54057581 Score: 421
Period size: 47 Copynumber: 6.4 Consensus size: 47
54057268 CCCTTCGGGA
* * *
54057278 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
54057325 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
54057372 CTTATCTCATATATACACTTTAACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
54057419 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
54057466 C-TATCAACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATC-ACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54057513 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54057562 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
54057582 GTACATCAAT
Statistics
Matches: 235, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
46 4 0.02
47 182 0.77
48 4 0.02
49 45 0.19
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:54063230 original size:19 final size:19
Alignment explanation
Indices: 54063206--54063243 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
54063196 GTATGCAAAA
54063206 ACGATTTTCAAACTAAGTC
1 ACGATTTTCAAACTAAGTC
54063225 ACGATTTTCAAACTAAGTC
1 ACGATTTTCAAACTAAGTC
54063244 TTCTTTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (19 bp):
ACGATTTTCAAACTAAGTC
Found at i:54067294 original size:52 final size:51
Alignment explanation
Indices: 54067211--54067369 Score: 191
Period size: 50 Copynumber: 3.1 Consensus size: 51
54067201 AAATGCATGG
* *
54067211 TTTAA-GATGCAAAC-TAAATGAACAT-ATGAGTTACTTAATGCATGACTTAA
1 TTTAATGATGCAAACTTAACT-AACATGA-GAGTTACATAATGCATGACTTAA
* * * *
54067261 TTTAATTATGCAAACTTTAACTAACATGAGAGTTACATAAAGCATGTCATAA
1 TTTAATGATGCAAAC-TTAACTAACATGAGAGTTACATAATGCATGACTTAA
* *
54067313 TTT-ATGATGCAAACTTAACTAACATGAGAGTTACATAATGCGTGACTTTA
1 TTTAATGATGCAAACTTAACTAACATGAGAGTTACATAATGCATGACTTAA
54067363 TTTAATG
1 TTTAATG
54067370 CAAAACACAT
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
50 39 0.42
51 21 0.23
52 27 0.29
53 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (51 bp):
TTTAATGATGCAAACTTAACTAACATGAGAGTTACATAATGCATGACTTAA
Found at i:54070058 original size:93 final size:93
Alignment explanation
Indices: 54069949--54070120 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
54069939 GCCCATAAGT
* * * *
54069949 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTTAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54070014 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* * * *
54070042 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
54070107 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
54070121 CAAACATCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:54070108 original size:46 final size:45
Alignment explanation
Indices: 54069941--54070116 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 45
54069931 TGTAACCCGC
* * * * *
54069941 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAC-TTAGTAT
* * *
54069987 CCATAAGTTAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA--CTTAGTAT
* *** * *
54070033 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGTAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGAC-TTAGTAT
*
54070080 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54070117 TGCCCAAACA
Statistics
Matches: 104, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 33 0.32
48 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACTTAGTAT
Found at i:54070135 original size:46 final size:46
Alignment explanation
Indices: 54069996--54070135 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 46
54069986 TCCATAAGTT
* * *
54069996 AACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCT--CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CTAGTG
* * **
54070043 AACTCGGACTCAACTCAACGAGTTCGGA--CATTTGTATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T-AGTG
* *
54070089 AACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGTG
54070135 A
1 A
54070136 CATGTCACTT
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
43 5 0.07
45 2 0.03
46 34 0.46
47 27 0.36
48 5 0.07
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGTG
Found at i:54072095 original size:18 final size:18
Alignment explanation
Indices: 54072061--54072133 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
54072051 TTTCTTTCTC
**
54072061 TTTTCTTTCAAGCTCTTT
1 TTTTCTTTCAATTTCTTT
54072079 TTTTCTTTCAATTTC--T
1 TTTTCTTTCAATTTCTTT
*
54072095 TTTTCTCTC-ATTTCTTT
1 TTTTCTTTCAATTTCTTT
54072112 TTTTCTTCTCTCAATTTCTTT
1 TTTTC-T-T-TCAATTTCTTT
54072133 T
1 T
54072134 ATTTTTCGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
15 5 0.11
16 9 0.20
17 6 0.13
18 14 0.31
20 2 0.04
21 9 0.20
ACGTcount: A:0.10, C:0.22, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTCTTTCAATTTCTTT
Found at i:54072114 original size:16 final size:17
Alignment explanation
Indices: 54072077--54072133 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 17
54072067 TTCAAGCTCT
*
54072077 TTTTTTCTTTCAATTTC
1 TTTTTTCTCTCAATTTC
54072094 -TTTTTCTCTC-ATTTC
1 TTTTTTCTCTCAATTTC
54072109 TTTTTTTCTTCTCTCAATTTC
1 ---TTTT-TTCTCTCAATTTC
54072130 TTTT
1 TTTT
54072134 ATTTTTCGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
15 5 0.15
16 9 0.27
18 4 0.12
19 3 0.09
20 7 0.21
21 5 0.15
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTTCTCTCAATTTC
Found at i:54072122 original size:20 final size:20
Alignment explanation
Indices: 54072094--54072148 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
54072084 TTTCAATTTC
54072094 TTTTTCTCTCATTTCTTTT-
1 TTTTTCTCTCATTTCTTTTA
54072113 TTTCTTCTCTCAATTTCTTTTA
1 TTT-TTCTCTC-ATTTCTTTTA
*
54072135 TTTTTCGCTCATTT
1 TTTTTCTCTCATTT
54072149 TCTCTCATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.09
20 11 0.34
21 15 0.47
22 3 0.09
ACGTcount: A:0.09, C:0.22, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTCTCTCATTTCTTTTA
Found at i:54073018 original size:10 final size:10
Alignment explanation
Indices: 54073003--54073051 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
54072993 ATTTGAATTT
54073003 TTTTTTTTAC
1 TTTTTTTTAC
*
54073013 TTTTTTTTGC
1 TTTTTTTTAC
* *
54073023 TTTTTTTCGAA
1 TTTTTTT-TAC
*
54073034 TTTTTTTCAC
1 TTTTTTTTAC
54073044 TTTTTTTT
1 TTTTTTTT
54073052 TGATATTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.78
Consensus pattern (10 bp):
TTTTTTTTAC
Found at i:54074334 original size:52 final size:51
Alignment explanation
Indices: 54074239--54074397 Score: 173
Period size: 50 Copynumber: 3.1 Consensus size: 51
54074229 AAATGCATGG
* * *
54074239 TTTAA-GATGCAAAC-TAAATGAACA-GATGAGTTACTTAATGCATGGCTTAA
1 TTTAATGATGCAAACTTAACT-AACATGA-GAGTTACATAATGCATGACTTAA
* * * *
54074289 TTTAATTATGCAAACTTTAACTAACATGAGAGTTACATAAAGCATGTCATAA
1 TTTAATGATGCAAAC-TTAACTAACATGAGAGTTACATAATGCATGACTTAA
* * *
54074341 TTT-ATGATGCAAACTTAATTAACATGAGAGTTATATAATGCATGACTTTA
1 TTTAATGATGCAAACTTAACTAACATGAGAGTTACATAATGCATGACTTAA
54074391 TTTAATG
1 TTTAATG
54074398 CAAAACACAT
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
50 38 0.42
51 21 0.23
52 26 0.29
53 6 0.07
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (51 bp):
TTTAATGATGCAAACTTAACTAACATGAGAGTTACATAATGCATGACTTAA
Found at i:54077857 original size:38 final size:38
Alignment explanation
Indices: 54077801--54077895 Score: 111
Period size: 38 Copynumber: 2.5 Consensus size: 38
54077791 GGCACGAAGG
* * * * *
54077801 CCCGAATATAATACCAGCACTAGGCTTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* *
54077839 CCTGGATATATTACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
54077877 CCCGGATATAATT-CCAGCA
1 CCCGGATAT-ATTACCAGCA
54077896 TATAGCCTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 45 0.94
39 3 0.06
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:54077903 original size:38 final size:38
Alignment explanation
Indices: 54077830--54077908 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
54077820 CTAGGCTTGC
* *
54077830 GGGATTTAACCTGGATATATTACCAGCACGAAGCCTGT
1 GGGATTTAACCCGGATATATTACCAGCACGAAGCCTAT
*
54077868 GGGATTTAACCCGGATATAATT-CCAGCA-TATAGCCTAT
1 GGGATTTAACCCGGATAT-ATTACCAGCACGA-AGCCTAT
54077906 GGG
1 GGG
54077909 TCTTTAGGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 1 0.03
38 32 0.89
39 3 0.08
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (38 bp):
GGGATTTAACCCGGATATATTACCAGCACGAAGCCTAT
Found at i:54082960 original size:36 final size:36
Alignment explanation
Indices: 54082842--54082960 Score: 102
Period size: 36 Copynumber: 3.4 Consensus size: 36
54082832 CATTGGTGTT
* * * *
54082842 CCTAGCACTAGTCGAACGAATCGATAAATTATTGCG
1 CCTAGCGCTAGTCGAACGAATTGACAAATTATTGTG
* * * *
54082878 CCTAGTGCTAGTCGGA-TAATTGAC-GA-TAGTTGTG
1 CCTAGCGCTAGTCGAACGAATTGACAAATTA-TTGTG
* *
54082912 CCCAGCAG-TAGTCGAACGAATTAACAAATTATTGTG
1 CCTAGC-GCTAGTCGAACGAATTGACAAATTATTGTG
54082948 CCTAGCGCTAGTC
1 CCTAGCGCTAGTC
54082961 AGATAACCGA
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
33 2 0.03
34 16 0.26
35 13 0.21
36 29 0.47
37 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (36 bp):
CCTAGCGCTAGTCGAACGAATTGACAAATTATTGTG
Found at i:54089929 original size:40 final size:41
Alignment explanation
Indices: 54089874--54089970 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
54089864 CGGCTATGAT
*
54089874 TGGCACTAAGTGTGCG-GTTTAATATAGCTTCGACTATA-AA
1 TGGCACTAAGTGTGCGAG-TTAACATAGCTTCGACTATAGAA
** *
54089914 TGGCACTAAGTGTGCGAGTTGGCATAGCTTCGGCTATAGAA
1 TGGCACTAAGTGTGCGAGTTAACATAGCTTCGACTATAGAA
54089955 -GGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
54089971 TACCGATTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 48 0.94
41 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTAACATAGCTTCGACTATAGAA
Found at i:54098480 original size:42 final size:41
Alignment explanation
Indices: 54098400--54098549 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
54098390 GAGCTTGGTC
54098400 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
54098441 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
54098483 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
54098524 TCGAAGGGCTTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
54098550 GAGTCGGACT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 37 0.41
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:54119178 original size:50 final size:49
Alignment explanation
Indices: 54119057--54119243 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
54119047 TGAGGTCGCA
* * * *
54119057 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
54119108 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
54119158 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
54119207 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
54119244 TAGCTTCGGC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 43 0.36
51 31 0.26
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:54124926 original size:40 final size:40
Alignment explanation
Indices: 54124821--54124987 Score: 234
Period size: 40 Copynumber: 4.2 Consensus size: 40
54124811 CGATTGATAC
* *
54124821 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
54124861 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54124900 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
54124940 CCAGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
54124980 CC-GGCTAA
1 CCGGGCTAA
54124988 ACTCCGAAGG
Statistics
Matches: 117, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
39 43 0.37
40 74 0.63
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54124986 original size:79 final size:79
Alignment explanation
Indices: 54124821--54124987 Score: 232
Period size: 79 Copynumber: 2.1 Consensus size: 79
54124811 CGATTGATAC
* * * *
54124821 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCAGGCTAAGCCCGAAGGCATTTGA
54124886 GCGAGTTACTATAT
66 GCGAGTTACTATAT
*
54124900 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCAGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCAGGCTAAG-CCCGAAGGCATTT
*
54124964 GAGCTAG-TAGCTATAT
64 GAGCGAGTTA-CTATAT
54124980 CC-GGCTAA
1 CCGGGCTAA
54124988 ACTCCGAAGG
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
78 2 0.03
79 51 0.65
80 26 0.33
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCAGGCTAAGCCCGAAGGCATTTGA
GCGAGTTACTATAT
Found at i:54131214 original size:79 final size:81
Alignment explanation
Indices: 54131078--54131260 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
54131068 TCGAATGATG
* *
54131078 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
54131142 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
54131157 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
54131219 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
54131237 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
54131261 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:54131276 original size:40 final size:40
Alignment explanation
Indices: 54131079--54131262 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
54131069 CGAATGATGT
* * * *
54131079 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
54131119 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
54131159 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
54131197 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
54131238 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54131263 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:54131284 original size:79 final size:79
Alignment explanation
Indices: 54131131--54131295 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
54131121 GGACTAAGAT
* **
54131131 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
54131196 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
54131210 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
54131273 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54131289 CCGAAGG
1 CCGAAGG
54131296 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54137366 original size:40 final size:40
Alignment explanation
Indices: 54137309--54137539 Score: 295
Period size: 40 Copynumber: 5.8 Consensus size: 40
54137299 CGGATGATAA
* * * *
54137309 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACTT
* * *
54137349 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACTT
* *
54137389 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACTT
*
54137429 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACT-T
* * *
54137469 CCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACTT
* * *
54137509 CCTGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
54137540 AGCTATATCC
Statistics
Matches: 169, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 8 0.05
40 161 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACTT
Found at i:54137522 original size:120 final size:119
Alignment explanation
Indices: 54137309--54137539 Score: 340
Period size: 120 Copynumber: 1.9 Consensus size: 119
54137299 CGGATGATAA
* * * *
54137309 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCAAAGGCATTGG
* *
54137374 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
66 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCA-TTGAGCGAGTTATTACAT
*
54137429 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTA-TATCCGGGCTAAGTCCCAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCAAAGGCATT
* *
54137492 GGTGCGAGTTACTACATCCTGGCTATGTCCCGAAGGCATTGAGCGAGT
64 GGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGAGCGAGT
54137540 AGCTATATCC
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
119 10 0.10
120 89 0.89
121 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCAAAGGCATTGG
TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTGAGCGAGTTATTACAT
Found at i:54144833 original size:12 final size:12
Alignment explanation
Indices: 54144816--54144842 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
54144806 GGTATGCCAT
54144816 TTGTGTGTGGTA
1 TTGTGTGTGGTA
54144828 TTGTGTGTGGTA
1 TTGTGTGTGGTA
54144840 TTG
1 TTG
54144843 AGTATAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.52
Consensus pattern (12 bp):
TTGTGTGTGGTA
Found at i:54145568 original size:40 final size:41
Alignment explanation
Indices: 54145392--54145618 Score: 307
Period size: 41 Copynumber: 5.6 Consensus size: 41
54145382 TACTCGAATG
54145392 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
54145433 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
* **
54145474 ACATCCGAACTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
* * *
54145515 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACT
* * * *
54145555 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
* * *
54145595 ATATCTGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
54145619 CTTGTGCGAG
Statistics
Matches: 171, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 61 0.36
41 108 0.63
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
Found at i:54149239 original size:42 final size:42
Alignment explanation
Indices: 54149182--54149344 Score: 186
Period size: 42 Copynumber: 3.9 Consensus size: 42
54149172 TAAGGTTATG
*
54149182 TGTGATTTCATGTAAGATCATATCTGGGATATGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* *
54149224 TGTGATTTCGTGTAAGACCATGTCTGGGATATGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
** * * * *
54149266 T-TAGACATCGTGTAAGACCATAGCT-GGCTATCGGCATTGATA
1 TGT-GATTTCATGTAAGACCATATCTGGGATAT-GGCATCGATA
** *
54149308 TGTGATCCCATGTAAGACCATATCTAGGATATGGCAT
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCAT
54149345 TGGTATCTTT
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 6 0.06
42 90 0.88
43 6 0.06
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:54153407 original size:40 final size:40
Alignment explanation
Indices: 54153347--54153449 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
54153337 TAACACCAGT
* *
54153347 TTGTGGATAAGCCACCAGTATTGGAGATAAACTGTCAATA
1 TTGTGGACAAGCCACTAGTATTGGAGATAAACTGTCAATA
* *
54153387 TTGTGGACAAGCCACTAGTATTGTAGATAAACTGTCAGTA
1 TTGTGGACAAGCCACTAGTATTGGAGATAAACTGTCAATA
*
54153427 TTGTAGACAAGCCACTAGTATTG
1 TTGTGGACAAGCCACTAGTATTG
54153450 CAGACAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (40 bp):
TTGTGGACAAGCCACTAGTATTGGAGATAAACTGTCAATA
Found at i:54153408 original size:20 final size:20
Alignment explanation
Indices: 54153385--54153456 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
54153375 AAACTGTCAA
*
54153385 TATTGTGGACAAGCCACTAG
1 TATTGTAGACAAGCCACTAG
* * **
54153405 TATTGTAGATAA-ACTGTCAG
1 TATTGTAGACAAGCCACT-AG
54153425 TATTGTAGACAAGCCACTAG
1 TATTGTAGACAAGCCACTAG
*
54153445 TATTGCAGACAA
1 TATTGTAGACAA
54153457 AATACCAGTA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 2 0.05
20 36 0.90
21 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (20 bp):
TATTGTAGACAAGCCACTAG
Found at i:54153466 original size:40 final size:40
Alignment explanation
Indices: 54153341--54153466 Score: 137
Period size: 40 Copynumber: 3.2 Consensus size: 40
54153331 ATCTAATAAC
* * *
54153341 ACCAGT-TTGTGGATAAGCCACCAGTATTGGAGATAAACT
1 ACCAGTATTGTGGACAAGCCACTAGTATTGCAGATAAACT
** * *
54153380 GTCAATATTGTGGACAAGCCACTAGTATTGTAGATAAACT
1 ACCAGTATTGTGGACAAGCCACTAGTATTGCAGATAAACT
** * * *
54153420 GTCAGTATTGTAGACAAGCCACTAGTATTGCAGACAAAAT
1 ACCAGTATTGTGGACAAGCCACTAGTATTGCAGATAAACT
54153460 ACCAGTA
1 ACCAGTA
54153467 CTTCCTCCTT
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 3 0.04
40 70 0.96
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (40 bp):
ACCAGTATTGTGGACAAGCCACTAGTATTGCAGATAAACT
Found at i:54159724 original size:40 final size:40
Alignment explanation
Indices: 54159674--54159883 Score: 289
Period size: 40 Copynumber: 5.2 Consensus size: 40
54159664 CACAAGGTCG
* * * * *
54159674 TCGGGTCTTAGCCCGG-ATATGGTCACTAGCGCAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCT
54159714 TCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCT
54159754 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
*
54159794 TCGAGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
* * * * *
54159834 TCGGGACTTAGCCCTGAATTAATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
54159874 TCGGGACTTA
1 TCGGGACTTA
54159884 ACCCCGTTAG
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 155 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
Found at i:54159789 original size:80 final size:80
Alignment explanation
Indices: 54159634--54159883 Score: 310
Period size: 80 Copynumber: 3.1 Consensus size: 80
54159624 ACCCACTTAT
* *** * * * * *
54159634 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGTCGTCGGGTCTTAGCCCGG-ATATGG
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAG
*
54159696 TCACTAGCGCAAATGC
65 TCACTAGCACAAATGC
54159712 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
54159777 AACTCGCACAAATGC
66 CACTAGCACAAATGC
* * *
54159792 CTTCGAGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCTGAATTAA
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
*
54159856 TCACTAGCACAAATGT
65 TCACTAGCACAAATGC
54159872 CTTCGGGACTTA
1 CTTCGGGACTTA
54159884 ACCCCGTTAG
Statistics
Matches: 149, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
78 12 0.08
79 18 0.12
80 117 0.79
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
CACTAGCACAAATGC
Found at i:54167934 original size:40 final size:40
Alignment explanation
Indices: 54167869--54168093 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
54167859 GGATATAACC
* * * * *
54167869 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
54167908 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
54167948 ACTCGCACAAATGCCTTCGAGACTTAGCCCGAAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
54167988 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
54168028 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
54168068 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
54168094 ACCCCGTTAG
Statistics
Matches: 165, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 6 0.04
40 157 0.95
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:54172691 original size:21 final size:22
Alignment explanation
Indices: 54172667--54172726 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
54172657 TGTTTATGGC
*
54172667 TTATGATTTAAGGGTT-GGGGT
1 TTATGGTTTAAGGGTTAGGGGT
* * *
54172688 TTATGGGTTATGGGTTATGGGT
1 TTATGGTTTAAGGGTTAGGGGT
*
54172710 TAATGGTTTAAGGGTTA
1 TTATGGTTTAAGGGTTA
54172727 AGGCTTAGGG
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (22 bp):
TTATGGTTTAAGGGTTAGGGGT
Found at i:54172700 original size:7 final size:7
Alignment explanation
Indices: 54172688--54172741 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
54172678 GGGTTGGGGT
54172688 TTATGGG
1 TTATGGG
54172695 TTATGGG
1 TTATGGG
54172702 TTATGGG
1 TTATGGG
*
54172709 TTAATGGT
1 TT-ATGGG
*
54172717 TTAAGGG
1 TTATGGG
* *
54172724 TTAAGGC
1 TTATGGG
*
54172731 TTAGGGG
1 TTATGGG
54172738 TTAT
1 TTAT
54172742 TGTTTTGTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (7 bp):
TTATGGG
Found at i:54172739 original size:43 final size:42
Alignment explanation
Indices: 54172660--54172741 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
54172650 GAGATTATGT
** * *
54172660 TTATGGCTTATGATTTAAGGGTTGGGGTTTATGGGTTATGGG
1 TTATGGCTTATGATTTAAGGGTTAAGGCTTAGGGGTTATGGG
* *
54172702 TTATGGGTTAATGGTTTAAGGGTTAAGGCTTAGGGGTTAT
1 TTATGGCTT-ATGATTTAAGGGTTAAGGCTTAGGGGTTAT
54172742 TGTTTTGTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 8 0.24
43 25 0.76
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (42 bp):
TTATGGCTTATGATTTAAGGGTTAAGGCTTAGGGGTTATGGG
Found at i:54172957 original size:21 final size:20
Alignment explanation
Indices: 54172933--54172989 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
54172923 TTGTTTTGTG
54172933 GTTTATGGTTTAAGGAATATA
1 GTTTA-GGTTTAAGGAATATA
* *
54172954 GTTTAGGGTTTAGGGGATATA
1 GTTTA-GGTTTAAGGAATATA
54172975 GTTTAGAGTTTAAGG
1 GTTTAG-GTTTAAGG
54172990 TTATGGGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (20 bp):
GTTTAGGTTTAAGGAATATA
Found at i:54172984 original size:28 final size:28
Alignment explanation
Indices: 54172953--54173007 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
54172943 TAAGGAATAT
*
54172953 AGTTTAGGGTT-TAGGGGATATAGTTTAG
1 AGTTTAAGGTTAT-GGGGATATAGTTTAG
54172981 AGTTTAAGGTTATGGGGATATAGTTTA
1 AGTTTAAGGTTATGGGGATATAGTTTA
54173008 ATGATTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (28 bp):
AGTTTAAGGTTATGGGGATATAGTTTAG
Found at i:54175264 original size:14 final size:14
Alignment explanation
Indices: 54175245--54175289 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
54175235 TAATGTATAT
54175245 ATATATCAATATGC
1 ATATATCAATATGC
54175259 ATATAT--ATA--C
1 ATATATCAATATGC
54175269 ATATATCAATATGC
1 ATATATCAATATGC
54175283 ATATATC
1 ATATATC
54175290 TTGGGTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
12 6 0.22
14 14 0.52
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (14 bp):
ATATATCAATATGC
Found at i:54175272 original size:24 final size:24
Alignment explanation
Indices: 54175240--54175288 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
54175230 GATTGTAATG
*
54175240 TATATATATATCAATATGCATATA
1 TATACATATATCAATATGCATATA
54175264 TATACATATATCAATATGCATATA
1 TATACATATATCAATATGCATATA
54175288 T
1 T
54175289 CTTGGGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (24 bp):
TATACATATATCAATATGCATATA
Found at i:54176209 original size:23 final size:23
Alignment explanation
Indices: 54176179--54176225 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
54176169 AAAAGTATTT
*
54176179 TGTTAAGAAAATTTATTTGATAA
1 TGTTAAGAAAATTCATTTGATAA
54176202 TGTTAAGAAAATTCATTTGATAA
1 TGTTAAGAAAATTCATTTGATAA
54176225 T
1 T
54176226 AATAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.43
Consensus pattern (23 bp):
TGTTAAGAAAATTCATTTGATAA
Found at i:54176241 original size:22 final size:22
Alignment explanation
Indices: 54176182--54176241 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
54176172 AGTATTTTGT
**
54176182 TAAGAAAATTTATTTGATAATGT
1 TAAGAAAA-TTATTTGATAATAA
54176205 TAAGAAAATTCATTTGATAATAA
1 TAAGAAAATT-ATTTGATAATAA
54176228 TAA-AAAAGTTATTT
1 TAAGAAAA-TTATTT
54176242 TTATTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
TAAGAAAATTATTTGATAATAA
Found at i:54176587 original size:49 final size:49
Alignment explanation
Indices: 54176534--54176631 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
54176524 TGCTATAATC
54176534 TCAACTAACTACTCAATCTTATTATTTAAATTTATTTTACTATAAAAAT
1 TCAACTAACTACTCAATCTTATTATTTAAATTTATTTTACTATAAAAAT
*
54176583 TCAACTAACTACTGAATCTTATTATTTAAATTTATTTTACTATAAAAAT
1 TCAACTAACTACTCAATCTTATTATTTAAATTTATTTTACTATAAAAAT
54176632 CAAATTACTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.45
Consensus pattern (49 bp):
TCAACTAACTACTCAATCTTATTATTTAAATTTATTTTACTATAAAAAT
Found at i:54176985 original size:9 final size:9
Alignment explanation
Indices: 54176973--54177268 Score: 214
Period size: 9 Copynumber: 33.6 Consensus size: 9
54176963 TATATCATAT
54176973 CATAACTTA
1 CATAACTTA
*
54176982 CATAATTTA
1 CATAACTTA
54176991 CATAACTTA
1 CATAACTTA
*
54177000 TATAACTTA
1 CATAACTTA
* *
54177009 GATAA-ATA
1 CATAACTTA
*
54177017 TATAACTTA
1 CATAACTTA
54177026 CATAACTTA
1 CATAACTTA
54177035 CATAACTTA
1 CATAACTTA
54177044 CATAACTTA
1 CATAACTTA
* *
54177053 TATAA-ATA
1 CATAACTTA
* *
54177061 TATAATTTA
1 CATAACTTA
54177070 CATAACTTA
1 CATAACTTA
54177079 CATAACTTA
1 CATAACTTA
*
54177088 TATAACTTA
1 CATAACTTA
* *
54177097 GATAA-ATA
1 CATAACTTA
*
54177105 TATAACTTA
1 CATAACTTA
54177114 CATAACTTA
1 CATAACTTA
*
54177123 CATAA-ATA
1 CATAACTTA
* * *
54177131 TATATCATA
1 CATAACTTA
*
54177140 TCATTACTTA
1 -CATAACTTA
54177150 CATAA--TA
1 CATAACTTA
*
54177157 CATAA-ATA
1 CATAACTTA
* * *
54177165 TATATCATA
1 CATAACTTA
54177174 TCATAACTTA
1 -CATAACTTA
54177184 CATAACTTA
1 CATAACTTA
*
54177193 TATAACTTA
1 CATAACTTA
* *
54177202 GATAA-ATA
1 CATAACTTA
*
54177210 TATAACTTA
1 CATAACTTA
*
54177219 CATAA-ATA
1 CATAACTTA
* * *
54177227 TATATCATA
1 CATAACTTA
*
54177236 TCATATCTTA
1 -CATAACTTA
54177246 CATAACTTA
1 CATAACTTA
*
54177255 CAAAACTTA
1 CATAACTTA
54177264 CATAA
1 CATAA
54177269 TACATAAATA
Statistics
Matches: 230, Mismatches: 46, Indels: 22
0.77 0.15 0.07
Matches are distributed among these distances:
7 7 0.03
8 40 0.17
9 165 0.72
10 18 0.08
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:54177024 original size:44 final size:44
Alignment explanation
Indices: 54176969--54177127 Score: 273
Period size: 44 Copynumber: 3.6 Consensus size: 44
54176959 AATATATATC
*
54176969 ATATCATAACTTACATAATTTACATAACTTATATAACTTAGATAA
1 ATAT-ATAACTTACATAACTTACATAACTTATATAACTTAGATAA
* *
54177014 ATATATAACTTACATAACTTACATAACTTACATAACTTATATAA
1 ATATATAACTTACATAACTTACATAACTTATATAACTTAGATAA
*
54177058 ATATATAATTTACATAACTTACATAACTTATATAACTTAGATAA
1 ATATATAACTTACATAACTTACATAACTTATATAACTTAGATAA
54177102 ATATATAACTTACATAACTTACATAA
1 ATATATAACTTACATAACTTACATAA
54177128 ATATATATCA
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 103 0.96
45 4 0.04
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (44 bp):
ATATATAACTTACATAACTTACATAACTTATATAACTTAGATAA
Found at i:54177027 original size:35 final size:35
Alignment explanation
Indices: 54176992--54177268 Score: 197
Period size: 35 Copynumber: 7.9 Consensus size: 35
54176982 CATAATTTAC
* * * * * *
54176992 ATAACTTATATAACTTAGATAA-ATATATAACTTAC
1 ATAACTTACATAACTTACATAACTTACATAA-ATAT
*
54177027 ATAACTTACATAACTTACATAACTTATATAAATAT
1 ATAACTTACATAACTTACATAACTTACATAAATAT
* * * *
54177062 ATAATTTACATAACTTACATAACTTATATAACTTAG
1 ATAACTTACATAACTTACATAACTTACATAA-ATAT
* *
54177098 ATAA-ATATATAACTTACATAACTTACATAAATAT
1 ATAACTTACATAACTTACATAACTTACATAAATAT
* * *
54177132 ATATCATATCATTACTTACATAA--TACATAAATAT
1 ATAACTTA-CATAACTTACATAACTTACATAAATAT
* * * * *
54177166 ATATCATATCATAACTTACATAACTTATATAACTTAG
1 ATAACTTA-CATAACTTACATAACTTACATAA-ATAT
* * * * *
54177203 ATAA-ATATATAACTTACATAA-ATATATATCATAT
1 ATAACTTACATAACTTACATAACTTACATA-AATAT
* *
54177237 CATATCTTACATAACTTACAAAACTTACATAA
1 -ATAACTTACATAACTTACATAACTTACATAA
54177269 TACATAAATA
Statistics
Matches: 198, Mismatches: 33, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
34 46 0.23
35 94 0.47
36 48 0.24
37 10 0.05
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (35 bp):
ATAACTTACATAACTTACATAACTTACATAAATAT
Found at i:54177149 original size:62 final size:62
Alignment explanation
Indices: 54177071--54177251 Score: 199
Period size: 62 Copynumber: 2.9 Consensus size: 62
54177061 TATAATTTAC
* * * *
54177071 ATAACTTACATAACTTATATAACTTAGATAAATATATAACTTA-CATAACTTACATAA-ATAT
1 ATAACATACAT-ACTTATATAACTTACATAAATATATATCATATCATAACTTACATAACATAT
* * *
54177132 ATATCATATCATTACTTACATAA--TACATAAATATATATCATATCATAACTTACATAACTTAT
1 ATAACATA-CA-TACTTATATAACTTACATAAATATATATCATATCATAACTTACATAACATAT
* * ** *
54177194 ATAACTTAGATAAATATATAACTTACATAAATATATATCATATCATATCTTACATAAC
1 ATAACATACATACTTATATAACTTACATAAATATATATCATATCATAACTTACATAAC
54177252 TTACAAAACT
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
60 24 0.24
61 21 0.21
62 54 0.54
63 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (62 bp):
ATAACATACATACTTATATAACTTACATAAATATATATCATATCATAACTTACATAACATAT
Found at i:54182425 original size:13 final size:14
Alignment explanation
Indices: 54182409--54182437 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54182399 TTATAAATAT
54182409 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
54182422 TTATAATGGTTTAA
1 TTATAATGGTTTAA
54182436 TT
1 TT
54182438 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:54182885 original size:21 final size:21
Alignment explanation
Indices: 54182860--54182900 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
54182850 CATCAACAAG
*
54182860 GGAGGCAGCGGCAGCAGCGAA
1 GGAGGCAGAGGCAGCAGCGAA
*
54182881 GGAGGCAGAGGCAGCCGCGA
1 GGAGGCAGAGGCAGCAGCGA
54182901 TGGCAGCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.49, T:0.00
Consensus pattern (21 bp):
GGAGGCAGAGGCAGCAGCGAA
Found at i:54183405 original size:43 final size:41
Alignment explanation
Indices: 54183273--54183408 Score: 148
Period size: 43 Copynumber: 3.2 Consensus size: 41
54183263 CAAAATTAGA
*
54183273 GGCGTTTGTAACAAAAGCGCCGCTAAAAGCCATGACTTTTAGC
1 GGCGTTTGTAA-AAAAGCGCCGCTAAAAGCCATGACTTTT-GT
* * * **
54183316 GGCACTTTTTAAACAAA-CGCCGCTAAAAGTCATGACTATTAAT
1 GGC-GTTTGTAAA-AAAGCGCCGCTAAAAGCCATGACT-TTTGT
54183359 GGCGTTTGTAAGAAAAGCGCCGCTAAAAGCCATGATCTTTTGT
1 GGCGTTTGTAA-AAAAGCGCCGCTAAAAGCCATGA-CTTTTGT
54183402 GGCGTTT
1 GGCGTTT
54183409 TTTTTCAAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
42 9 0.12
43 54 0.71
44 13 0.17
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GGCGTTTGTAAAAAAGCGCCGCTAAAAGCCATGACTTTTGT
Found at i:54187700 original size:28 final size:29
Alignment explanation
Indices: 54187648--54187706 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
54187638 TAATTTTTTA
54187648 TTAAATTAAAATAATAGAGATACTAAATCT
1 TTAAATTAAAATAATAGAGATACT-AATCT
54187678 TTAAATTAAAA-ATATA-A-ATACTAATCT
1 TTAAATTAAAATA-ATAGAGATACTAATCT
54187705 TT
1 TT
54187707 TTTAGTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 7 0.25
28 5 0.18
29 2 0.07
30 14 0.50
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (29 bp):
TTAAATTAAAATAATAGAGATACTAATCT
Found at i:54200363 original size:11 final size:11
Alignment explanation
Indices: 54200347--54200371 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54200337 TTGATGAGTG
54200347 ATTATAATTGA
1 ATTATAATTGA
54200358 ATTATAATTGA
1 ATTATAATTGA
54200369 ATT
1 ATT
54200372 TGATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
ATTATAATTGA
Found at i:54204102 original size:27 final size:25
Alignment explanation
Indices: 54204055--54204124 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
54204045 ATTTAAATTT
* *
54204055 AAACATAA-AAATATT-ATTAAATTA
1 AAAC-TAATAAATATTGAATAAATGA
54204079 AAACTAAATAAATATTTGAATAAATGA
1 AAACT-AATAAATA-TTGAATAAATGA
**
54204106 AGTCTAATAAATATTGAAT
1 AAACTAATAAATATTGAAT
54204125 TACACTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 1 0.03
24 6 0.16
25 11 0.29
26 10 0.26
27 10 0.26
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
AAACTAATAAATATTGAATAAATGA
Found at i:54206091 original size:37 final size:37
Alignment explanation
Indices: 54206050--54206123 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
54206040 TATAAGTAGC
*
54206050 ATGGATGTTCACCCTTATATACATACAATTGATTTAT
1 ATGGATGTTCACCCTTATACACATACAATTGATTTAT
54206087 ATGGATGTTCACCCTTATACACATACAATTGATTTAT
1 ATGGATGTTCACCCTTATACACATACAATTGATTTAT
54206124 GTTTTTTTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (37 bp):
ATGGATGTTCACCCTTATACACATACAATTGATTTAT
Found at i:54217152 original size:43 final size:43
Alignment explanation
Indices: 54217103--54217243 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 43
54217093 GATTACTGAG
* * *
54217103 ATGTGATTACATGTAAGACCGTATCTGGGACATTGGCATTG-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
* *
54217145 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTGACATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
* * * * *
54217189 ATATGATTTCATGTAAGACCATGTCTGGGACATCGGCAACGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
*
54217232 ATGTGATAACAT
1 ATGTGATTACAT
54217244 CTGGGATATG
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 79 0.96
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
Found at i:54220536 original size:17 final size:19
Alignment explanation
Indices: 54220501--54220537 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
54220491 TTTAATTAGC
54220501 ATTATGAGATAAAATTATT
1 ATTATGAGATAAAATTATT
*
54220520 ATTATTAGA-AAAA-TATT
1 ATTATGAGATAAAATTATT
54220537 A
1 A
54220538 CTGTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTATGAGATAAAATTATT
Found at i:54220633 original size:12 final size:11
Alignment explanation
Indices: 54220601--54220625 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54220591 TTGATATTTG
54220601 AAATTTTTATA
1 AAATTTTTATA
54220612 AAATTTTTATA
1 AAATTTTTATA
54220623 AAA
1 AAA
54220626 ATTATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATTTTTATA
Found at i:54222932 original size:20 final size:20
Alignment explanation
Indices: 54222909--54222947 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
54222899 TGAACATGGT
54222909 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
54222929 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
54222948 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:54223054 original size:24 final size:23
Alignment explanation
Indices: 54222998--54223144 Score: 177
Period size: 24 Copynumber: 6.2 Consensus size: 23
54222988 GAGGAAGTGA
*
54222998 AAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
54223021 TAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
54223044 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
**
54223068 CAAAAGGGCTTACACCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
54223092 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* * *
54223115 AAAAAAGGCTTTTGTCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
54223140 AAAAG
1 AAAAG
54223145 AGGCAAGGCC
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.39
24 65 0.60
25 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:54223114 original size:71 final size:71
Alignment explanation
Indices: 54222998--54223144 Score: 213
Period size: 71 Copynumber: 2.1 Consensus size: 71
54222988 GAGGAAGTGA
** * * * *
54222998 AAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACACCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTATGCCCCA
54223063 GTTATC
66 GTTATC
* *
54223069 AAAAGGGCTTACACCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTTTGTCCCA
1 AAAAGGGCTTACACCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTATGCCCCA
*
54223134 GTTATT
66 GTTATC
54223140 AAAAG
1 AAAAG
54223145 AGGCAAGGCC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (71 bp):
AAAAGGGCTTACACCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTATGCCCCA
GTTATC
Found at i:54223134 original size:47 final size:45
Alignment explanation
Indices: 54222999--54223142 Score: 171
Period size: 47 Copynumber: 3.1 Consensus size: 45
54222989 AGGAAGTGAA
* * *
54222999 AAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCTAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCC-AGTTAT-T
**
54223046 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTA-TGCCCAGTTATT
* *
54223093 AAAGGGCTTATGCCCCAGTTATAAAAAAGGCTTTTGTCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATG-CCCAGTTATT
54223140 AAA
1 AAA
54223143 AGAGGCAAGG
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
47 65 0.77
48 16 0.19
49 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (45 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCAGTTATT
Found at i:54223392 original size:31 final size:31
Alignment explanation
Indices: 54223357--54223420 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
54223347 CGTTTACAGT
*
54223357 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
54223388 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
54223419 AA
1 AA
54223421 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:54225689 original size:23 final size:23
Alignment explanation
Indices: 54225659--54225704 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
54225649 CATCACCGAT
*
54225659 GCCATGTCCCAGACATGGTCTTA
1 GCCATGTCCCAGACATAGTCTTA
*
54225682 GCCATGTCCTAGACATAGTCTTA
1 GCCATGTCCCAGACATAGTCTTA
54225705 CACAGGCACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (23 bp):
GCCATGTCCCAGACATAGTCTTA
Found at i:54225732 original size:71 final size:71
Alignment explanation
Indices: 54225611--54225752 Score: 205
Period size: 71 Copynumber: 2.0 Consensus size: 71
54225601 CATCGTCGAT
* *
54225611 GCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATCACCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATAGTCTTACACTAGCACACATATCATCACCAATGCCATGTCCCAGACATG
54225676 GTCTTA
66 GTCTTA
* ** **
54225682 GCCATGTCCTAGACATAGTCTTACAC-AGGCACGTATATCATCACCAATGCCATGTCTTAGACAT
1 GCCATGTCCCAGACATAGTCTTACACTA-GCACACATATCATCACCAATGCCATGTCCCAGACAT
54225746 GGTCTTA
65 GGTCTTA
54225753 CATAGGCACA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
70 1 0.02
71 62 0.98
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (71 bp):
GCCATGTCCCAGACATAGTCTTACACTAGCACACATATCATCACCAATGCCATGTCCCAGACATG
GTCTTA
Found at i:54225743 original size:48 final size:48
Alignment explanation
Indices: 54225682--54225851 Score: 209
Period size: 48 Copynumber: 3.5 Consensus size: 48
54225672 CATGGTCTTA
* *
54225682 GCCATGTCCTAGACATAGTCTTACACAGGCACGTATATCATCACCAAT
1 GCCATGTCCTAGACATGGTCTTACACAGGCACATATATCATCACCAAT
* * * *
54225730 GCCATGTCTTAGACATGGTCTTACATAGGCACATATATCATCGCCGAT
1 GCCATGTCCTAGACATGGTCTTACACAGGCACATATATCATCACCAAT
* * *
54225778 GCCATGTCCCAGACATGGTCTTACACAGGCAC-TCATCTCAGAT-ATCAAT
1 GCCATGTCCTAGACATGGTCTTACACAGGCACAT-ATATC--ATCACCAAT
*
54225827 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGTCCTAGACATGGTCTTACA
54225852 TGGAATCTAA
Statistics
Matches: 106, Mismatches: 13, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 75 0.71
49 28 0.26
50 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
GCCATGTCCTAGACATGGTCTTACACAGGCACATATATCATCACCAAT
Found at i:54228600 original size:22 final size:22
Alignment explanation
Indices: 54228557--54228600 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
54228547 TCAATAAGCA
**
54228557 TATAATAAAGCATTTAGCACAT
1 TATAATAAAGCATTTAAAACAT
*
54228579 TATATTAAAGCATTTAAAACAT
1 TATAATAAAGCATTTAAAACAT
54228601 ACTACCATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (22 bp):
TATAATAAAGCATTTAAAACAT
Found at i:54232013 original size:43 final size:43
Alignment explanation
Indices: 54231881--54232026 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
54231871 CAATGCTAAC
*
54231881 GTCCCAGACATGGTCTTATATGT-AATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTATATGTAAATTCAATAT-GATGCCTAT
* * * * * *
54231924 ATCCCAGACAGGGTCTTACACG-AAA-TCAGATACGATGCCAAT
1 GTCCCAGACATGGTCTTATATGTAAATTCA-ATATGATGCCTAT
* *
54231966 GTCCCAGACATGGTCTTATATGTAAATCTCAAT-TGAGGCCTGT
1 GTCCCAGACATGGTCTTATATGTAAAT-TCAATATGATGCCTAT
*
54232009 GTCCCAGACACGGTCTTA
1 GTCCCAGACATGGTCTTA
54232027 CACGATGTCT
Statistics
Matches: 82, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 28 0.34
43 49 0.60
44 2 0.02
45 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTATATGTAAATTCAATATGATGCCTAT
Found at i:54235194 original size:52 final size:52
Alignment explanation
Indices: 54235128--54235231 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
54235118 TGAAGCAGAG
54235128 GATATTTTTTCTTTACAGTCACTTTATTAAGTTGATGGTAATCAATACACAT
1 GATATTTTTTCTTTACAGTCACTTTATTAAGTTGATGGTAATCAATACACAT
54235180 GATATTTTTTCTTTACAGTCACTTTATTAAGTTGATGGTAATCAATACACAT
1 GATATTTTTTCTTTACAGTCACTTTATTAAGTTGATGGTAATCAATACACAT
54235232 TCTCATTGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (52 bp):
GATATTTTTTCTTTACAGTCACTTTATTAAGTTGATGGTAATCAATACACAT
Found at i:54242950 original size:19 final size:19
Alignment explanation
Indices: 54242914--54242952 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
54242904 TTTTCATCAT
* *
54242914 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
54242933 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
54242952 A
1 A
54242953 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:54243463 original size:28 final size:28
Alignment explanation
Indices: 54243415--54243505 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
54243405 GTGACAGAGT
*
54243415 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
54243444 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
54243472 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
54243500 CACCAG
1 CACCAG
54243506 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:54243658 original size:28 final size:28
Alignment explanation
Indices: 54243611--54243675 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
54243601 AAATTAACCC
*
54243611 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
** *
54243639 TAGGGGTATAATTGTAATTTTTCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
54243667 TAAGGGTAT
1 TAGGGGTAT
54243676 TCTAGTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:54250090 original size:28 final size:28
Alignment explanation
Indices: 54250042--54250122 Score: 135
Period size: 28 Copynumber: 2.9 Consensus size: 28
54250032 GTGACAGAGT
* *
54250042 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGGGC
54250071 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
54250099 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGATAATTTGTGGCA
54250123 TAGCCACTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 43 0.86
29 7 0.14
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:54250285 original size:28 final size:28
Alignment explanation
Indices: 54250238--54250302 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
54250228 AAATTAACCC
*
54250238 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
54250266 TAGGAGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
54250294 TAGGGGTAT
1 TAGGGGTAT
54250303 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:54250829 original size:21 final size:22
Alignment explanation
Indices: 54250785--54250829 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
54250775 TCTAATGGCT
* *
54250785 AGATCCAAGTCTGATCGCTCCAA
1 AGATCCAAGCCT-ATCGATCCAA
54250808 AGATCCAAGCCT-TCGATCCAA
1 AGATCCAAGCCTATCGATCCAA
54250829 A
1 A
54250830 CCTTGAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (22 bp):
AGATCCAAGCCTATCGATCCAA
Found at i:54255236 original size:7 final size:7
Alignment explanation
Indices: 54255224--54255248 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
54255214 CATCTACGTC
54255224 TCTATCT
1 TCTATCT
54255231 TCTATCT
1 TCTATCT
54255238 TCTATCT
1 TCTATCT
54255245 TCTA
1 TCTA
54255249 GGAGTCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (7 bp):
TCTATCT
Found at i:54256324 original size:20 final size:20
Alignment explanation
Indices: 54256287--54256325 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54256277 AAAATTTCAG
* *
54256287 AGTTTTAATTTTGAAAATCA
1 AGTTCTAATTTGGAAAATCA
*
54256307 AGTTCTAATTTGGTAAATC
1 AGTTCTAATTTGGAAAATC
54256326 GTATGATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (20 bp):
AGTTCTAATTTGGAAAATCA
Found at i:54257899 original size:12 final size:15
Alignment explanation
Indices: 54257868--54257899 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
54257858 ATCTACAAGA
54257868 AACAAAAATTAACAC
1 AACAAAAATTAACAC
54257883 AACAAAAATTAACAC
1 AACAAAAATTAACAC
54257898 AA
1 AA
54257900 GTAAGCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (15 bp):
AACAAAAATTAACAC
Found at i:54263564 original size:46 final size:46
Alignment explanation
Indices: 54263453--54263665 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 46
54263443 GGTAAGGTGT
*
54263453 CGATGCCATGTCCCAGACATGGTCTTACATTGAC--ACATCTCGTA-GC
1 CGATG-CATGTCCCAAACAT-GTCTTACATTGACTTACATCTCG-AGGC
* * *
54263499 TGATGCATGTCCCAGACATGTCTTACATTGACTTACATTTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACATTGACTTACATCTCGAGGC
* * *
54263545 CGATGCATGTCCCAAACATGTCTTACACT-AGCATT-CATCTCAATGC
1 CGATGCATGTCCCAAACATGTCTTACATTGA-C-TTACATCTCGAGGC
* * * * * **
54263591 CAATGCCATGTCCCAAACATGGTCTTACACTG-GTTCTCATAAT-TTGGC
1 CGATG-CATGTCCCAAACAT-GTCTTACATTGACTT-ACAT-CTCGAGGC
54263639 CGATGCATGTCCCAAACATGTCTTACA
1 CGATGCATGTCCCAAACATGTCTTACA
54263666 CTAGCTCACA
Statistics
Matches: 141, Mismatches: 15, Indels: 22
0.79 0.08 0.12
Matches are distributed among these distances:
44 13 0.09
45 16 0.11
46 62 0.44
47 30 0.21
48 19 0.13
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACATTGACTTACATCTCGAGGC
Found at i:54263608 original size:47 final size:47
Alignment explanation
Indices: 54263542--54263670 Score: 151
Period size: 47 Copynumber: 2.7 Consensus size: 47
54263532 TACATTTCGA
*
54263542 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCATTCATC-TCAA-T
1 GGCCAATGCATGTCCCAAACATGTCTTACACTAGCATTC-TCAT-AATT
*
54263589 -GCCAATGCCATGTCCCAAACATGGTCTTACACT-G-GTTCTCATAATTT
1 GGCCAATG-CATGTCCCAAACAT-GTCTTACACTAGCATTCTCATAA-TT
*
54263636 GGCCGATGCATGTCCCAAACATGTCTTACACTAGC
1 GGCCAATGCATGTCCCAAACATGTCTTACACTAGC
54263671 TCACACAAGT
Statistics
Matches: 71, Mismatches: 3, Indels: 15
0.80 0.03 0.17
Matches are distributed among these distances:
45 4 0.06
46 20 0.28
47 31 0.44
48 16 0.23
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (47 bp):
GGCCAATGCATGTCCCAAACATGTCTTACACTAGCATTCTCATAATT
Found at i:54271222 original size:47 final size:47
Alignment explanation
Indices: 54271115--54271242 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 47
54271105 TACATTTTGA
*
54271115 GGCCAATGAATGTCCCAATCATGTCTTACACTAGCACTCGTCTCAAT
1 GGCCAATGAATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAAT
* * * *
54271162 -GCCGATGCCATGTCCCAAACATGGTCTTACACT-G-GCTC-TCTTAATGT
1 GGCCAATG-AATGTCCCAAACAT-GTCTTACACTAGCACTCGTCTCAA--T
* *
54271209 GGCCAATGAATGTCCCAGACATGTGTTACACTAG
1 GGCCAATGAATGTCCCAAACATGTCTTACACTAG
54271243 TGTGACACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
45 5 0.08
46 18 0.27
47 27 0.41
48 16 0.24
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (47 bp):
GGCCAATGAATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAAT
Found at i:54274619 original size:18 final size:18
Alignment explanation
Indices: 54274582--54274619 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
54274572 TTTGTGATGA
54274582 ATTTAAAGTATTAGTTGTT
1 ATTTAAAGTATTA-TTGTT
54274601 ATTTATAAGTATT-TTGTT
1 ATTTA-AAGTATTATTGTT
54274619 A
1 A
54274620 AGTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (18 bp):
ATTTAAAGTATTATTGTT
Found at i:54276318 original size:15 final size:16
Alignment explanation
Indices: 54276289--54276318 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54276279 CAAACATGCT
54276289 TTAACACATTATCAAA
1 TTAACACATTATCAAA
54276305 TTAACACA-TATCAA
1 TTAACACATTATCAA
54276319 GAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:54277497 original size:33 final size:33
Alignment explanation
Indices: 54277428--54277570 Score: 205
Period size: 33 Copynumber: 4.3 Consensus size: 33
54277418 AGTCAGACCA
* * * **
54277428 AACACACCAAATGCTCACACGAGCCAATCCCTCC
1 AACACACC-AATGCTCATAAGAGCTAATCCAACC
*
54277462 AACACACCAATACTCATAAGAGCTAATCCAACC
1 AACACACCAATGCTCATAAGAGCTAATCCAACC
*
54277495 AACACACCAATTCTCATAAGAGCTAATCCAACC
1 AACACACCAATGCTCATAAGAGCTAATCCAACC
*
54277528 AATACACCAATGCTCATAAGAGCTAATCCAACC
1 AACACACCAATGCTCATAAGAGCTAATCCAACC
54277561 AACACACCAA
1 AACACACCAA
54277571 ACAGAGTGTA
Statistics
Matches: 99, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 91 0.92
34 8 0.08
ACGTcount: A:0.43, C:0.36, G:0.07, T:0.15
Consensus pattern (33 bp):
AACACACCAATGCTCATAAGAGCTAATCCAACC
Found at i:54279512 original size:15 final size:16
Alignment explanation
Indices: 54279492--54279524 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
54279482 TAAGTAAATG
54279492 AAATGGAAAG-TAAGT
1 AAATGGAAAGATAAGT
*
54279507 AAATGGAATGATAAGT
1 AAATGGAAAGATAAGT
54279523 AA
1 AA
54279525 GTAAATGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (16 bp):
AAATGGAAAGATAAGT
Found at i:54279527 original size:24 final size:20
Alignment explanation
Indices: 54279482--54279553 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
54279472 AAGCTTATGC
*
54279482 TAAGTAAATGAAATGGA-AAG
1 TAAGTAAATGGAAT-GATAAG
54279502 TAAGTAAATGGAATGATAAG
1 TAAGTAAATGGAATGATAAG
*
54279522 TAAGTAAATGGAATGATGAG
1 TAAGTAAATGGAATGATAAG
54279542 TAAGTAAATGGA
1 TAAGTAAATGGA
54279554 GTGGTTGATA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 2 0.04
20 47 0.96
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (20 bp):
TAAGTAAATGGAATGATAAG
Found at i:54288067 original size:20 final size:19
Alignment explanation
Indices: 54288044--54288094 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
54288034 ATCAACTCAC
54288044 TTGAGCTCATTTTAGCTCGT
1 TTGAGCTCATTTTAG-TCGT
*
54288064 TTGAGCTTGATTTTAGTCGT
1 TTGAGC-TCATTTTAGTCGT
*
54288084 TTCAGCTCATT
1 TTGAGCTCATT
54288095 CCTTTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.15
20 15 0.56
21 8 0.30
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGAGCTCATTTTAGTCGT
Found at i:54289124 original size:41 final size:41
Alignment explanation
Indices: 54289067--54289152 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
54289057 GTGTGGTGTT
54289067 AACCTATCCTTCTATCCATCTTTCCACCTTAGCAATATAGA
1 AACCTATCCTTCTATCCATCTTTCCACCTTAGCAATATAGA
*
54289108 AACCTATCCTTCTATCCATCTTTCCACCTTAGCAATATAGG
1 AACCTATCCTTCTATCCATCTTTCCACCTTAGCAATATAGA
54289149 AACC
1 AACC
54289153 GAGGTTACAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.29, C:0.33, G:0.06, T:0.33
Consensus pattern (41 bp):
AACCTATCCTTCTATCCATCTTTCCACCTTAGCAATATAGA
Found at i:54291425 original size:48 final size:48
Alignment explanation
Indices: 54291373--54291654 Score: 383
Period size: 48 Copynumber: 5.9 Consensus size: 48
54291363 TTCATTCTTC
*
54291373 CCCTTTCTCAATCGGTTTCCCTTTAACCGATTGCTTCTAGTTCTTTTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
* * * *
54291421 CCCTTTCCCAATCGGTTTCCCTTTGATCGATTACTTCTAGTTCCTTTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
* *
54291469 CCCTTTCTCAATCAGTTTCCATTTGACCGATTGCTTCTAGTTCGTTTTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTC-TTTTT
* * * *
54291518 -CTTTTCTCAACCGGTTTCCCTTTGATCGATTGCTTTTAG-T-TTTTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
* *
54291563 CCCTTTCTCAATCGATTTCCCTTTGACCGATTGCTTCTAGTTATTTTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
* * *
54291611 CCCTTTCTCAATCGATTTCCC-TTGACCGGTTGCTTCTTGTTCTT
1 CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTT
54291655 CTCCCCTCCC
Statistics
Matches: 205, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
45 5 0.02
46 34 0.17
47 22 0.11
48 140 0.68
49 4 0.02
ACGTcount: A:0.12, C:0.28, G:0.12, T:0.48
Consensus pattern (48 bp):
CCCTTTCTCAATCGGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
Found at i:54292548 original size:26 final size:26
Alignment explanation
Indices: 54292512--54292564 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
54292502 ACCTAGACCT
*
54292512 CTAATTGATAAAATGACTATTATGCC
1 CTAAGTGATAAAATGACTATTATGCC
*
54292538 CTAAGTGATAAAATGACTGTTATGCC
1 CTAAGTGATAAAATGACTATTATGCC
54292564 C
1 C
54292565 CTATGAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (26 bp):
CTAAGTGATAAAATGACTATTATGCC
Found at i:54292649 original size:12 final size:12
Alignment explanation
Indices: 54292629--54292667 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
54292619 GTATGATATT
*
54292629 ATGACATGATGC
1 ATGATATGATGC
54292641 ATGATATGATGC
1 ATGATATGATGC
* *
54292653 ATCATATGTTGC
1 ATGATATGATGC
54292665 ATG
1 ATG
54292668 GGGATGGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (12 bp):
ATGATATGATGC
Found at i:54299196 original size:47 final size:47
Alignment explanation
Indices: 54299138--54299512 Score: 552
Period size: 47 Copynumber: 8.0 Consensus size: 47
54299128 TTTAGGATTT
* *
54299138 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
54299185 AATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
54299232 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
54299279 AATGTGGTGAATATGAACATGCATATATGTGATAAGGCCAAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
** * *
54299326 TGTGAGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
54299373 AATGTGATTAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
54299420 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * *
54299467 AATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
54299513 TAGTGTGAAA
Statistics
Matches: 292, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 292 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:54299288 original size:25 final size:25
Alignment explanation
Indices: 54299213--54299288 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
54299203 ATGTATATAT
54299213 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
54299238 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
54299260 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
54299285 GTGA
1 GTGA
54299289 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:54299476 original size:25 final size:25
Alignment explanation
Indices: 54299401--54299476 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
54299391 ATGCATATAT
54299401 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
54299426 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
54299448 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
54299473 GTGA
1 GTGA
54299477 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:54299520 original size:94 final size:94
Alignment explanation
Indices: 54299138--54299512 Score: 624
Period size: 94 Copynumber: 4.0 Consensus size: 94
54299128 TTTAGGATTT
54299138 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
*
54299203 ATGTATATATGTGATAAGGCCGAATGGCC
66 ATGCATATATGTGATAAGGCCGAATGGCC
54299232 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
*
54299297 ATGCATATATGTGATAAGGCCAAATGGCC
66 ATGCATATATGTGATAAGGCCGAATGGCC
** * * * * * * * *
54299326 TGTGAGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATTAATGTGAGC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
54299391 ATGCATATATGTGATAAGGCCGAATGGCC
66 ATGCATATATGTGATAAGGCCGAATGGCC
54299420 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* *
54299485 ATGCATATATGTGGTAAAGCCGAATGGC
66 ATGCATATATGTGATAAGGCCGAATGGC
54299513 TAGTGTGAAA
Statistics
Matches: 256, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 256 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (94 bp):
AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
ATGCATATATGTGATAAGGCCGAATGGCC
Found at i:54299520 original size:141 final size:141
Alignment explanation
Indices: 54299138--54299512 Score: 610
Period size: 141 Copynumber: 2.7 Consensus size: 141
54299128 TTTAGGATTT
54299138 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* *
54299203 ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAG
66 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATATGTGATAAG
54299268 GCCGAATGGCC
131 GCCGAATGGCC
* * * * * *
54299279 AATGTGGTGAATATGAACATGCATATATGTGATAAGGCCAAATGGCC--TGTGAGATGAATGTGA
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTG-G-TGAATATGA
* *
54299342 ACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATTAATGTGAGCATGCATATATGTGATA
64 ACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATATGTGATA
54299407 AGGCCGAATGGCC
129 AGGCCGAATGGCC
54299420 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* *
54299485 ATGCATATATGTGGTAAAGCCGAATGGC
66 ATGCATATATGTGATAAGGCCGAATGGC
54299513 TAGTGTGAAA
Statistics
Matches: 211, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
139 4 0.02
140 1 0.00
141 201 0.95
142 1 0.00
143 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (141 bp):
AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATATGTGATAAG
GCCGAATGGCC
Found at i:54299567 original size:141 final size:138
Alignment explanation
Indices: 54299138--54299554 Score: 445
Period size: 141 Copynumber: 3.0 Consensus size: 138
54299128 TTTAGGATTT
54299138 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* * * *
54299203 ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC-ATATGTG-TGA-T
66 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGA--AAT-T-A--ATGCGATGTGCGTTTATT
**
54299265 AAGGCCGAATGGCC
125 GTGGCCGAATGGCC
* * * * * *
54299279 AATGTGGTGAATATGAACATGCATATATGTGATAAGGCCAAATGGCC--TGTGAGATGAATGTGA
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTG-G-TGAATATGA
* * * *
54299342 ACATGCATATATGTGATGAGGCCGAATGGCCAATGTG--ATTAATGTGA-GCATGCATATATGTG
64 ACATGCATATATGTGATAAGGCCGAATGGCCAATGTGAAATTAATGCGATG--TGCGTTTAT-TG
54299404 ATAAGGCCGAATGGCC
126 -T--GGCCGAATGGCC
54299420 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* * * * *
54299485 ATGCATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATAGGCGATGTGCGTTTATTGTGG
66 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGAAAT-TA-ATGCGATGTGCGTTTATTGTGG
54299550 CCGAA
129 CCGAA
54299555 CGACCAAATG
Statistics
Matches: 227, Mismatches: 31, Indels: 37
0.77 0.11 0.13
Matches are distributed among these distances:
133 3 0.01
134 1 0.00
135 3 0.01
136 2 0.01
137 2 0.01
138 1 0.00
139 4 0.02
140 8 0.04
141 179 0.79
142 2 0.01
143 8 0.04
144 9 0.04
145 4 0.02
146 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (138 bp):
AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
ATGCATATATGTGATAAGGCCGAATGGCCAATGTGAAATTAATGCGATGTGCGTTTATTGTGGCC
GAATGGCC
Found at i:54299725 original size:37 final size:37
Alignment explanation
Indices: 54299675--54299826 Score: 241
Period size: 37 Copynumber: 4.1 Consensus size: 37
54299665 GGAAATATAT
* * *
54299675 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54299712 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54299749 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
54299786 TCCGGGTAAGACCCGATAAGTTCGTGTGGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54299823 TCCG
1 TCCG
54299827 AGCTAAAGGT
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 108 1.00
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:54313561 original size:48 final size:48
Alignment explanation
Indices: 54313509--54313750 Score: 310
Period size: 48 Copynumber: 5.1 Consensus size: 48
54313499 TTCATTCTTC
* * * * * *
54313509 CCCTTTCTTATTCGGTTTCCCTTTGACCAATTGTTTCTAATTCTTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
*
54313557 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTTTAGTTC-TTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
**
54313604 CCCTTTCTCAATCAGTTTCCCTTTGATTGATTGCTTCTAGTTCTTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
** *
54313652 CCCTTTCTCAATTGGTTTCCCTTTGACCGATTGCTTCTAGTTATTTTT
1 CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
* * * *
54313700 CCCTTTCTCAAT-TGATTTCCC-TTGATCGATTGCTTCTTGTTCTTTTC
1 CCCTTTCTCAATCAG-TTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
54313747 CCCT
1 CCCT
54313751 CCCTTTTTCA
Statistics
Matches: 172, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
47 71 0.41
48 101 0.59
ACGTcount: A:0.12, C:0.27, G:0.10, T:0.51
Consensus pattern (48 bp):
CCCTTTCTCAATCAGTTTCCCTTTGACCGATTGCTTCTAGTTCTTTTT
Found at i:54313642 original size:95 final size:96
Alignment explanation
Indices: 54313509--54313750 Score: 319
Period size: 95 Copynumber: 2.5 Consensus size: 96
54313499 TTCATTCTTC
* * * * * * *
54313509 CCCTTTCTTATTCGGTTTCCCTTTGACCAATTGTTTCTAATTCTTTTTCCCTTTCTCAATCAGTT
1 CCCTTTCTCAATCAGTTTCCCTTTGATCGATTGCTTCTAGTTCTTTTTCCCTTTCTCAATCAGTT
*
54313574 TCCCTTTGACCGATTGCTTTTAGTT-CTTTT
66 TCCCTTTGACCGATTGCTTCTAGTTACTTTT
* **
54313604 CCCTTTCTCAATCAGTTTCCCTTTGATTGATTGCTTCTAGTTCTTTTTCCCTTTCTCAATTGGTT
1 CCCTTTCTCAATCAGTTTCCCTTTGATCGATTGCTTCTAGTTCTTTTTCCCTTTCTCAATCAGTT
*
54313669 TCCCTTTGACCGATTGCTTCTAGTTATTTTT
66 TCCCTTTGACCGATTGCTTCTAGTTACTTTT
* * *
54313700 CCCTTTCTCAAT-TGATTTCCC-TTGATCGATTGCTTCTTGTTCTTTTCCCCT
1 CCCTTTCTCAATCAG-TTTCCCTTTGATCGATTGCTTCTAGTTCTTTTTCCCT
54313751 CCCTTTTTCA
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
95 107 0.83
96 22 0.17
ACGTcount: A:0.12, C:0.27, G:0.10, T:0.51
Consensus pattern (96 bp):
CCCTTTCTCAATCAGTTTCCCTTTGATCGATTGCTTCTAGTTCTTTTTCCCTTTCTCAATCAGTT
TCCCTTTGACCGATTGCTTCTAGTTACTTTT
Found at i:54315684 original size:67 final size:67
Alignment explanation
Indices: 54315611--54315742 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
54315601 TTTCCATTTC
*** *
54315611 AGAGAGCACACTCCCACGAACCTCATTTCTCACAGTGGGATTACTAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCCACGAACCTCATTTCTCACAGCAAGATTACCAGTCCAGGCTAAATCCCCTA
54315676 TG
66 TG
** * *
54315678 AGAGAGCACACTCCTGCGAACTTCATTTCTTACAGCAAGATTACCAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCCACGAACCTCATTTCTCACAGCAAGATTACCAGTCCAGGCTAAATCCCCTA
54315743 GAATGACAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCACGAACCTCATTTCTCACAGCAAGATTACCAGTCCAGGCTAAATCCCCTA
TG
Found at i:54328924 original size:16 final size:16
Alignment explanation
Indices: 54328903--54328947 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
54328893 AAAGACGACT
54328903 GAACCCTAACATGAAG
1 GAACCCTAACATGAAG
54328919 GAACCCTAAC-T----
1 GAACCCTAACATGAAG
54328930 GAACCCTAACATGAAG
1 GAACCCTAACATGAAG
54328946 GA
1 GA
54328948 CGACTGGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
11 10 0.42
12 1 0.04
15 1 0.04
16 12 0.50
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (16 bp):
GAACCCTAACATGAAG
Found at i:54340473 original size:40 final size:40
Alignment explanation
Indices: 54340406--54340647 Score: 334
Period size: 40 Copynumber: 6.1 Consensus size: 40
54340396 CGATGATAAT
* *
54340406 TCCGGGCTAAG-CCCGAAGGCTTTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* *
54340444 TTCCGGGCTAAGTTCCGAAGGCATTTGTGCTAGTGACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
54340484 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
54340525 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
54340565 TCCGGGCTAAGTCCCGAA-GCATTTGTGCGAACT-ACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATA
* *
54340604 TCCGGGCTAAGTCCC-AAGGCATTTGAGCGAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
54340643 TCCGG
1 TCCGG
54340648 TTAAAGCCCG
Statistics
Matches: 189, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
38 4 0.02
39 63 0.33
40 121 0.64
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
Found at i:54348697 original size:40 final size:40
Alignment explanation
Indices: 54348457--54348682 Score: 294
Period size: 40 Copynumber: 5.7 Consensus size: 40
54348447 GGATGATAAT
* **
54348457 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* ** * * *
54348496 TTTCGGGCTAAGTCATGAAGGTATTTGTGCTAGTGACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
54348536 TTTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
54348577 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* **
54348617 TCCGGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
54348657 TCCAGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54348683 AGTGAGTGGC
Statistics
Matches: 169, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 168 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:54354277 original size:55 final size:55
Alignment explanation
Indices: 54354193--54354302 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
54354183 TTTCAAGAGT
54354193 TAGTGATGTGAGGAAGGCTTTGGTGATGAATCGAACTGTTCTTGTACTTTTGTAC
1 TAGTGATGTGAGGAAGGCTTTGGTGATGAATCGAACTGTTCTTGTACTTTTGTAC
54354248 TAGTGATGTGAGGAAGGCTTTGGTGATGAATCGAACTGTTCTTGTACTTTTGTAC
1 TAGTGATGTGAGGAAGGCTTTGGTGATGAATCGAACTGTTCTTGTACTTTTGTAC
54354303 AAGGAAGCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.22, C:0.11, G:0.29, T:0.38
Consensus pattern (55 bp):
TAGTGATGTGAGGAAGGCTTTGGTGATGAATCGAACTGTTCTTGTACTTTTGTAC
Found at i:54358393 original size:40 final size:39
Alignment explanation
Indices: 54358323--54358540 Score: 287
Period size: 40 Copynumber: 5.5 Consensus size: 39
54358313 CAACCAAGTA
* *
54358323 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAG-TAACTCGCACAAATG
* *
54358362 CCTTTGGGACTTAGCCCAGACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATG
*
54358402 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATG
* *
54358442 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
* *
54358482 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATG
54358522 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
54358541 TTATCATCCA
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 14 0.08
40 151 0.92
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGAATAGTAACTCGCACAAATG
Found at i:54364422 original size:47 final size:47
Alignment explanation
Indices: 54364293--54364423 Score: 192
Period size: 47 Copynumber: 2.8 Consensus size: 47
54364283 TACAATCGGT
* * *
54364293 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGCAACTTATCCCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* **
54364340 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATC-CCA
54364388 AA-TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
54364424 TTATTCACAC
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
47 74 0.96
48 3 0.04
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:54366180 original size:48 final size:48
Alignment explanation
Indices: 54366128--54366258 Score: 154
Period size: 48 Copynumber: 2.7 Consensus size: 48
54366118 TATGTGCGCT
* * * *
54366128 AGTGTAAGACCATGCCTGGGACATGGCGTCGGCAACAATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACAAGACGAGAGCC
* * *** * *
54366176 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGAGGCGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACAAGACGAGAGCC
*
54366224 AGTGTAAGACTATGTCTGGGACATGGCATCGGCAA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
54366259 TTTACTCTCT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACAAGACGAGAGCC
Found at i:54371919 original size:16 final size:15
Alignment explanation
Indices: 54371895--54371924 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
54371885 AACTGTTTTA
54371895 TTACAAATTTCACTC
1 TTACAAATTTCACTC
54371910 TTACATAATTTCACT
1 TTACA-AATTTCACT
54371925 TCCTACATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:54372216 original size:49 final size:50
Alignment explanation
Indices: 54372124--54372265 Score: 187
Period size: 50 Copynumber: 2.9 Consensus size: 50
54372114 AACCGAAGCT
* * * * *
54372124 ATCTAGTACGCATAGTAGCCTACACTTAGTACTTCACATGTGACC-AACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
* * *
54372173 ATCTGGTACACATAGTAGCCTGCACCTAGTAGTACACACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
* *
54372223 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
54372266 TCGAAGTTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 38 0.47
50 42 0.52
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACA
Found at i:54374485 original size:39 final size:39
Alignment explanation
Indices: 54374418--54374679 Score: 373
Period size: 39 Copynumber: 6.7 Consensus size: 39
54374408 ACAAACCCTA
* ** *
54374418 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAACCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
54374458 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
54374498 CGGGGCTTAGCCCGAATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
54374537 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
54374576 TGGGACTTAGCTCGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
54374615 CAGGACTTAGCCCGGATATGACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
54374654 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
54374680 TTATAAAGTC
Statistics
Matches: 202, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 183 0.91
40 19 0.09
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:54374833 original size:28 final size:28
Alignment explanation
Indices: 54374752--54374833 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
54374742 ATTTAATCAT
* *
54374752 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
54374780 TCAATGTCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
54374808 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
54374834 ATTTGATTGC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Done.