Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 145 of 322
Found at i:47552710 original size:49 final size:49
Alignment explanation
Indices: 47552489--47552841 Score: 587
Period size: 49 Copynumber: 7.4 Consensus size: 49
47552479 CCCTTCGGGA
* * *
47552489 CTTATCACAT-T-TATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47552536 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47552583 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47552630 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47552677 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47552726 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47552775 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47552824 CCTATCACATATATATAC
1 CTTATCACATATATATAC
47552842 TTGTACATCA
Statistics
Matches: 295, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.00
47 143 0.48
49 151 0.51
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47555477 original size:40 final size:40
Alignment explanation
Indices: 47555432--47555627 Score: 261
Period size: 40 Copynumber: 4.9 Consensus size: 40
47555422 CGAATACACG
* * *
47555432 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * ** * **
47555472 ACACCAGCACAAATGCT-TTCGAGG-TTTAGCAAGGATATA
1 TCACTAGCATGAATGCTCTTCG-GGACTTAGCCCGGATATA
* *
47555511 TCACTAGCACGAATGCTCTTCGGGACTTAGCCTGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
47555551 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
47555591 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
47555628 CATTGTCGAG
Statistics
Matches: 137, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 31 0.23
40 106 0.77
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:47555754 original size:38 final size:38
Alignment explanation
Indices: 47555685--47555759 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
47555675 GAATTTTAAT
*
47555685 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
47555723 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
47555760 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:47558113 original size:49 final size:47
Alignment explanation
Indices: 47557892--47558393 Score: 835
Period size: 47 Copynumber: 10.6 Consensus size: 47
47557882 CCCTTCGGGA
* * * * * *
47557892 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47557938 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47557986 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47558033 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47558080 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47558129 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47558176 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47558225 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47558274 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47558321 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47558368 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
47558394 CACAATTATC
Statistics
Matches: 436, Mismatches: 14, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
46 2 0.00
47 289 0.66
48 2 0.00
49 143 0.33
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47558121 original size:96 final size:96
Alignment explanation
Indices: 47557892--47558393 Score: 842
Period size: 96 Copynumber: 5.3 Consensus size: 96
47557882 CCCTTCGGGA
* * * * * *
47557892 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATA
*
47557954 CACTTTCACATTCATCACATCGGCTATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
47557986 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
47558049 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
47558080 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
47558145 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
47558176 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
47558241 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
47558274 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
47558337 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
47558368 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
47558394 CACAATTATC
Statistics
Matches: 390, Mismatches: 9, Indels: 18
0.94 0.02 0.04
Matches are distributed among these distances:
93 1 0.00
94 142 0.36
95 2 0.01
96 198 0.51
98 47 0.12
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47570027 original size:25 final size:23
Alignment explanation
Indices: 47569990--47570044 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
47569980 ATATTAAAAG
*
47569990 AAATATTGTAAATTGTAAATTTTAA
1 AAATATTGGAAA-T-TAAATTTTAA
* *
47570015 AATTATTGGAAATTATATTTTAA
1 AAATATTGGAAATTAAATTTTAA
47570038 AAATATT
1 AAATATT
47570045 TGTTACTAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 15 0.58
24 1 0.04
25 10 0.38
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (23 bp):
AAATATTGGAAATTAAATTTTAA
Found at i:47570406 original size:75 final size:75
Alignment explanation
Indices: 47570317--47570467 Score: 275
Period size: 75 Copynumber: 2.0 Consensus size: 75
47570307 ATATTAATTG
*
47570317 AATGAATTAAGTTGGGTAAAATTACCATGGAGGTCTTTATACTAAGAATCAGATTGCATTTTGTC
1 AATGAATTAAGTTGGGTAAAAATACCATGGAGGTCTTTATACTAAGAATCAGATTGCATTTTGTC
47570382 TCCTTAAAAA
66 TCCTTAAAAA
* *
47570392 AATGAATTAAGTTGGGTAAAAATACCATGGAGGTCTTTATACTAAGAATCAGGTTGCATTTTGTG
1 AATGAATTAAGTTGGGTAAAAATACCATGGAGGTCTTTATACTAAGAATCAGATTGCATTTTGTC
47570457 TCCTTAAAAA
66 TCCTTAAAAA
47570467 A
1 A
47570468 TTGACAAATT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (75 bp):
AATGAATTAAGTTGGGTAAAAATACCATGGAGGTCTTTATACTAAGAATCAGATTGCATTTTGTC
TCCTTAAAAA
Found at i:47573928 original size:3 final size:3
Alignment explanation
Indices: 47573922--47573984 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
47573912 TAGTATGATG
* *
47573922 ATA ATA ATA ATA GA-A GTA ATA ATA A-A AAA ATAA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
*
47573967 A-A TACA ATA ATA ATA ATA
1 ATA -ATA ATA ATA ATA ATA
47573985 TAAAAAATGT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 3 0.06
3 42 0.84
4 5 0.10
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:47573957 original size:15 final size:18
Alignment explanation
Indices: 47573922--47573984 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 18
47573912 TAGTATGATG
*
47573922 ATAATAAT-AATAGAAGTA
1 ATAATAATAAATACAA-TA
*
47573940 ATAATAAAAAAATA-AATA
1 ATAAT-AATAAATACAATA
47573958 ATAATAATAAATACAATA
1 ATAATAATAAATACAATA
47573976 ATAATAATA
1 ATAATAATA
47573985 TAAAAAATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.17
18 25 0.62
19 4 0.10
20 4 0.10
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (18 bp):
ATAATAATAAATACAATA
Found at i:47573962 original size:21 final size:20
Alignment explanation
Indices: 47573938--47573991 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
47573928 ATAATAGAAG
47573938 TAATAATAAAAAAATAAATAA
1 TAATAATAAAAAAAT-AATAA
*
47573959 TAATAATAAATACAATAATAA
1 TAATAATAAA-AAAATAATAA
47573980 TAAT-ATAAAAAA
1 TAATAATAAAAAA
47573992 TGTCTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 19 0.63
22 4 0.13
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
TAATAATAAAAAAATAATAA
Found at i:47576752 original size:45 final size:44
Alignment explanation
Indices: 47576673--47576795 Score: 135
Period size: 45 Copynumber: 2.8 Consensus size: 44
47576663 TATTTATAGC
* * *
47576673 TTCAATCTGTTCCACTG-CATCTTCAGGGATATAAGA-TTCGCTATT
1 TTCAATCTGCTCCACTGCCA-CTTCAAGGAGATAAGACTT-GCTA-T
*
47576718 TTCAGTCTGCTCCACTGCCACTTCAAGGAGATAAGACTTGCTAT
1 TTCAATCTGCTCCACTGCCACTTCAAGGAGATAAGACTTGCTAT
* *
47576762 CTCAATCTGCTCCACTGCTACTTC-AGAGAGATAA
1 TTCAATCTGCTCCACTGCCACTTCAAG-GAGATAA
47576796 AGCTAGTGGC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
43 2 0.03
44 29 0.43
45 33 0.49
46 4 0.06
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCCACTTCAAGGAGATAAGACTTGCTAT
Found at i:47601545 original size:22 final size:21
Alignment explanation
Indices: 47601496--47601534 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
47601486 GTTGAAATAG
47601496 AATG-TAA-AAATAATTTAAA
1 AATGATAATAAATAATTTAAA
47601515 AATGATAATAAATGAATTTA
1 AATGATAATAAAT-AATTTA
47601535 TAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 4 0.24
22 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AATGATAATAAATAATTTAAA
Found at i:47602029 original size:22 final size:20
Alignment explanation
Indices: 47601990--47602052 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 20
47601980 TGATGATGAT
*
47601990 AATAATAGAAGTAATAAAAAA
1 AATAATA-AAATAATAAAAAA
47602011 AATAAT-AAATAATAATAAATA
1 AATAATAAAATAATAA-AAA-A
47602032 CAATAATAAAAT-ATAAAAAA
1 -AATAATAAAATAATAAAAAA
47602052 A
1 A
47602053 GTCCAATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 9 0.24
20 4 0.11
21 10 0.27
22 10 0.27
23 4 0.11
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (20 bp):
AATAATAAAATAATAAAAAA
Found at i:47603023 original size:11 final size:11
Alignment explanation
Indices: 47603007--47603040 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
47602997 CGTGGGCACT
*
47603007 GACGTGGGGCG
1 GACGTGGCGCG
*
47603018 GACGTGGTGCG
1 GACGTGGCGCG
47603029 GACGTGGCGCG
1 GACGTGGCGCG
47603040 G
1 G
47603041 TGGAGCAGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.09, C:0.21, G:0.59, T:0.12
Consensus pattern (11 bp):
GACGTGGCGCG
Found at i:47605660 original size:21 final size:21
Alignment explanation
Indices: 47605613--47605661 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
47605603 TTATAGCAAC
47605613 AGAAAATTAATTTAAATTTAT
1 AGAAAATTAATTTAAATTTAT
* *
47605634 ATGAAAA-TAATTTGAATTATTT
1 A-GAAAATTAATTTAAATT-TAT
47605656 AGAAAA
1 AGAAAA
47605662 AAAAGATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (21 bp):
AGAAAATTAATTTAAATTTAT
Found at i:47605943 original size:18 final size:21
Alignment explanation
Indices: 47605897--47605945 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
47605887 AAGTTTTATA
47605897 TAATATCA-TTTTTTAAACAAT
1 TAAT-TCACTTTTTTAAACAAT
47605918 TAATTCACTTTTTT-AA-AAT
1 TAATTCACTTTTTTAAACAAT
47605937 T-ATTCACTT
1 TAATTCACTT
47605946 CCATATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.30
19 4 0.15
20 5 0.19
21 10 0.37
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATTCACTTTTTTAAACAAT
Found at i:47607250 original size:3 final size:3
Alignment explanation
Indices: 47607244--47607272 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
47607234 CTACTACAGC
47607244 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
47607273 ATTCATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:47607424 original size:37 final size:38
Alignment explanation
Indices: 47607365--47607436 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 38
47607355 TTAATGTTGG
* *
47607365 TTAAAATATGTCTTATTATATTTTTAGTAAATTTAAAAT
1 TTAAAATATGTATTATTATATTTATAG-AAATTTAAAAT
*
47607404 TTAATATATGTATT-TT-TATTTATAGAAATTTAA
1 TTAAAATATGTATTATTATATTTATAGAAATTTAA
47607437 TTACTCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 8 0.27
37 8 0.27
38 2 0.07
39 12 0.40
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (38 bp):
TTAAAATATGTATTATTATATTTATAGAAATTTAAAAT
Found at i:47607461 original size:29 final size:27
Alignment explanation
Indices: 47607396--47607464 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 27
47607386 TTTTAGTAAA
*
47607396 TTTAAAATTTAATATATGTATTTTTAT
1 TTTAAAATTTAATATATCTATTTTTAT
47607423 TTATAGAAATTTAAT-TACTCTATTTTTTAAT
1 TT-TA-AAATTTAATATA-TCTA-TTTTT-AT
47607454 TTTAAAATTTA
1 TTTAAAATTTA
47607465 TGTTCAATTG
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 2 0.06
28 4 0.11
29 19 0.53
30 7 0.19
31 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (27 bp):
TTTAAAATTTAATATATCTATTTTTAT
Found at i:47614511 original size:18 final size:18
Alignment explanation
Indices: 47614471--47614523 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
47614461 CAGTTACTTT
* *
47614471 ATAACAGTCAGTTATACA
1 ATAACAGTCAATTATTCA
*
47614489 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
* *
47614507 GTAACATTCAATTATTC
1 ATAACAGTCAATTATTC
47614524 CATAGCAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:47614679 original size:6 final size:6
Alignment explanation
Indices: 47614665--47614699 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
47614655 CACCGCAACG
* *
47614665 GTAACA GTAATA GTAACA GTAACA GTCACA GTAAC
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAAC
47614700 GGTACACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (6 bp):
GTAACA
Found at i:47616336 original size:58 final size:58
Alignment explanation
Indices: 47616265--47616379 Score: 194
Period size: 58 Copynumber: 2.0 Consensus size: 58
47616255 TCACTTACTA
47616265 AACTTCCTAAATATTTTTAATAAATATTTACAAATCCATTTTTCATAAACGAAGACCT
1 AACTTCCTAAATATTTTTAATAAATATTTACAAATCCATTTTTCATAAACGAAGACCT
* ** *
47616323 AACTTTCTAAATATTTTTAATAAATATTTATGAATCCATTTTTCATAAACGGAGACC
1 AACTTCCTAAATATTTTTAATAAATATTTACAAATCCATTTTTCATAAACGAAGACC
47616380 CAAAAATACA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (58 bp):
AACTTCCTAAATATTTTTAATAAATATTTACAAATCCATTTTTCATAAACGAAGACCT
Found at i:47621020 original size:6 final size:6
Alignment explanation
Indices: 47621009--47621041 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
47620999 CACTACAATG
47621009 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
47621042 CACAAAGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:47632013 original size:21 final size:21
Alignment explanation
Indices: 47631978--47632038 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
47631968 CACTTAAAAC
47631978 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
47631998 AGGGCAACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
* *
47632019 AGGGAAACACGCCAGTGTGG
1 AGGGCAACACGCCCGTGTGG
47632039 CCATTATGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 5 0.14
21 31 0.86
ACGTcount: A:0.25, C:0.25, G:0.39, T:0.11
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:47633321 original size:49 final size:49
Alignment explanation
Indices: 47633268--47633384 Score: 130
Period size: 49 Copynumber: 2.4 Consensus size: 49
47633258 GTCGATGTCG
* *
47633268 TGTCCCAAACAGTTCTTACACT-GACTTTCATATATCGAG-GCCGATGCCA
1 TGTCCCAAACAGGTCTTACACTAG-CTCTCATATATCG-GTGCCGATGCCA
* * *
47633317 TGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGGTGTCGATGCCA
1 TGTCCCAAACAGGTCTTACACTAGCTCTCATATATCGGTGCCGATGCCA
** *
47633366 TGTCGTAGACAGGTCTTAC
1 TGTCCCAAACAGGTCTTAC
47633385 GCTAACACAC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 1 0.02
49 57 0.97
50 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
TGTCCCAAACAGGTCTTACACTAGCTCTCATATATCGGTGCCGATGCCA
Found at i:47638681 original size:21 final size:21
Alignment explanation
Indices: 47638641--47638684 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
47638631 ACGCCCTTGC
*
47638641 GGAAGGGCAACATACCCGTGT
1 GGAAGGGCAACACACCCGTGT
* *
47638662 GGAAGGGCAACACGCTCGTGT
1 GGAAGGGCAACACACCCGTGT
47638683 GG
1 GG
47638685 CTATTATAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.39, T:0.14
Consensus pattern (21 bp):
GGAAGGGCAACACACCCGTGT
Found at i:47653301 original size:6 final size:6
Alignment explanation
Indices: 47653290--47653317 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
47653280 TTTCTTGCAA
47653290 TTTAAT TTTAAT TTTAAT TTTAAT TTTA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTA
47653318 TTATTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:47664023 original size:41 final size:40
Alignment explanation
Indices: 47663978--47664111 Score: 121
Period size: 41 Copynumber: 3.3 Consensus size: 40
47663968 GGAAGCAATG
47663978 TGCTGGTGAATTAAATCAGGCTTTATGCCTAGCAGGCTTAT
1 TGCTGGTGAATTAAATCAGGCTTTATGCCTAGCAGGCTT-T
* * * * *
47664019 TGCTGGTGTATAAAATCAGACTTTGA-GTCTAGCAGGCCTTG
1 TGCTGGTGAATTAAATCAGGCTTT-ATGCCTAGCAGG-CTTT
* ** * *
47664060 TGCTCGTGTGTGATA-CAGGC-TTATGCCTAGCAGGCTTT
1 TGCTGGTGAATTAAATCAGGCTTTATGCCTAGCAGGCTTT
47664098 ATGCTGGTGAATTA
1 -TGCTGGTGAATTA
47664112 GTAAAAGCTT
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
38 4 0.05
39 20 0.27
40 4 0.05
41 41 0.56
42 4 0.05
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (40 bp):
TGCTGGTGAATTAAATCAGGCTTTATGCCTAGCAGGCTTT
Found at i:47671534 original size:44 final size:44
Alignment explanation
Indices: 47671469--47671844 Score: 245
Period size: 44 Copynumber: 8.5 Consensus size: 44
47671459 CGACCTACTT
* * * * *
47671469 CAACTTCAGAGG-TATAGGATTTATAGCTTTAATCTGCTCTACTG
1 CAACTTCAG-GGAGATAAGATTTGTAGCTTTAATCTACTCCACTG
* ** * * *
47671513 CAACTTCAGAGAGATAAGATTTGCTATATTCAGTCTACTCCATTG
1 CAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTACTCCACTG
* * * * *
47671558 CAACTTCAGGGAGATAAGACTTGTA-TTTTAACCTGCCCCACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTG
* * * * * * *
47671601 CAAATTCAGGGGGATAAGGTTTGCTATCTTTGATCTATTCCACTA
1 CAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTACTCCACTG
* * * *
47671646 CAACTTCAGGGAGATAAGATCTGTAACTTCAATCTACTCCTCTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTG
* * * * *
47671690 CAACTTTAGGGAGATAAGGTTTGTGGCTTTAATTTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTG
* * * * * *
47671734 TAACTTCAGGGAGATAAAACTTGGAACTTTAA-CTTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTTAATC-TACTCCACTG
* * * * * * * * * *
47671778 TATCTTTAGGGGGATGAGGTTTGTGGCTTTAATTTGCTCCATTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTG
**
47671822 TGACTTCAGGGAGATAAGATTTG
1 CAACTTCAGGGAGATAAGATTTG
47671845 CTATTGGTAG
Statistics
Matches: 249, Mismatches: 77, Indels: 12
0.74 0.23 0.04
Matches are distributed among these distances:
43 31 0.12
44 153 0.61
45 65 0.26
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTG
Found at i:47671572 original size:45 final size:44
Alignment explanation
Indices: 47671279--47671750 Score: 215
Period size: 44 Copynumber: 10.6 Consensus size: 44
47671269 CTACGATTTG
* * * ** *
47671279 CTCCAATGCAATTTTAGGGAGA-AGAGATTTGTAGCTTCGATCTA
1 CTCCACTGCAACTTCAGGGAGATA-AGATTTGTATATTCAATCTA
* * ** * *
47671323 CTCCGCTGGAACTTCAAAGAGATAAGACTTGGTA-ATTTCAACCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTTGTATA-TTCAATCTA
* * * * * *
47671368 CTCCACTGCATCTTCAAGGAGATAAGGTTTGCGA-CTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TATATTCAATCTA
* * *
47671412 CTCTACTGCAACTTCAGGGAGATAAGATTCACCATGGTA-ACTT-GATCCGA
1 CTCCACTGCAACTTCAGGGAGATAAGATT-----T-GTATA-TTCAAT-CTA
* * * * * ** * *
47671462 C-CTACTTCAACTTCAGAGG-TATAGGATTTATAGCTTTAATCTG
1 CTCCACTGCAACTTCAG-GGAGATAAGATTTGTATATTCAATCTA
* * *
47671505 CTCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TATATTCAATCTA
* * * * *
47671550 CTCCATTGCAACTTCAGGGAGATAAGACTTGTAT-TTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATATTCAATCTA
* * * * * **
47671593 CCCCACTGCAAATTCAGGGGGATAAGGTTTGCTATCTTTGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TATATTCAATCTA
* * *
47671638 TTCCACTACAACTTCAGGGAGATAAGATCTGTA-ACTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATA-TTCAATCTA
* * * *** * * *
47671682 CTCCTCTGCAACTTTAGGGAGATAAGGTTTGTGGCTTTAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATATTCAATCTA
*
47671726 CTCCACTGTAACTTCAGGGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
47671751 AACTTGGAAC
Statistics
Matches: 317, Mismatches: 89, Indels: 44
0.70 0.20 0.10
Matches are distributed among these distances:
43 37 0.12
44 147 0.46
45 101 0.32
49 25 0.08
50 7 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTATATTCAATCTA
Found at i:47672194 original size:14 final size:14
Alignment explanation
Indices: 47672177--47672208 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
47672167 TGAATTTGGG
*
47672177 TAGTTGAAACTAAT
1 TAGTTCAAACTAAT
47672191 TAGTTCAAACTAAT
1 TAGTTCAAACTAAT
47672205 TAGT
1 TAGT
47672209 CCCATTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (14 bp):
TAGTTCAAACTAAT
Found at i:47673994 original size:49 final size:49
Alignment explanation
Indices: 47673941--47674040 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
47673931 TATAAATTTT
47673941 TTAAATTTAAAAAATAAAAAATAAAAAAAATTCGGGTATTTTTCGGTAA
1 TTAAATTTAAAAAATAAAAAATAAAAAAAATTCGGGTATTTTTCGGTAA
* *
47673990 TTAAATTTAAAAAATAAAATATAAAAAAAATTTGGGTATTTTTCGGTAA
1 TTAAATTTAAAAAATAAAAAATAAAAAAAATTCGGGTATTTTTCGGTAA
47674039 TT
1 TT
47674041 CGGTTAATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (49 bp):
TTAAATTTAAAAAATAAAAAATAAAAAAAATTCGGGTATTTTTCGGTAA
Found at i:47674050 original size:9 final size:9
Alignment explanation
Indices: 47674034--47674076 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
47674024 GGTATTTTTC
47674034 GGTAATTCG
1 GGTAATTCG
*
47674043 GTTAATTCG
1 GGTAATTCG
*
47674052 GTTAATTCG
1 GGTAATTCG
47674061 GGTAATTCG
1 GGTAATTCG
47674070 GGTAATT
1 GGTAATT
47674077 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (9 bp):
GGTAATTCG
Found at i:47674254 original size:12 final size:12
Alignment explanation
Indices: 47674237--47674261 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47674227 AGTAATTTCG
47674237 GGTCGGTTAACC
1 GGTCGGTTAACC
47674249 GGTCGGTTAACC
1 GGTCGGTTAACC
47674261 G
1 G
47674262 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:47677946 original size:24 final size:24
Alignment explanation
Indices: 47677919--47677980 Score: 124
Period size: 24 Copynumber: 2.6 Consensus size: 24
47677909 TTTTAGCTAG
47677919 TTGCTCTTGCATATGCGCTTGTAA
1 TTGCTCTTGCATATGCGCTTGTAA
47677943 TTGCTCTTGCATATGCGCTTGTAA
1 TTGCTCTTGCATATGCGCTTGTAA
47677967 TTGCTCTTGCATAT
1 TTGCTCTTGCATAT
47677981 CCCTTTGCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (24 bp):
TTGCTCTTGCATATGCGCTTGTAA
Found at i:47682092 original size:26 final size:27
Alignment explanation
Indices: 47682063--47682129 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
47682053 AGTTTAAAAC
47682063 AAATGATATGTAAAAT-AATTT-AAGAT
1 AAATGATATGTAAAATGAATTTAAAG-T
* **
47682089 AAATAATAAAT-AAATGAATTTAAAGT
1 AAATGATATGTAAAATGAATTTAAAGT
*
47682115 AAATGTTATGTAAAA
1 AAATGATATGTAAAA
47682130 AGAAATTCAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
25 4 0.13
26 21 0.68
27 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATGATATGTAAAATGAATTTAAAGT
Found at i:47682260 original size:27 final size:26
Alignment explanation
Indices: 47682203--47682312 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 26
47682193 TAAAAAAGGG
* ** *
47682203 ATAATACATATAAAAATTTGAAATTTG
1 ATAATACATAAAAAAATTT-AAAAGTA
*
47682230 ATAATATATAAAAAAATTTAAAAGT-
1 ATAATACATAAAAAAATTTAAAAGTA
47682255 A-AATA-ATAAAAAAATTTAAAA-TGA
1 ATAATACATAAAAAAATTTAAAAGT-A
47682279 ATAATACATAAAACAAATTTAAAAAGTAA
1 ATAATACATAAAA-AAATTT-AAAAGT-A
47682308 ATAAT
1 ATAAT
47682313 GGTACAATGC
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
22 1 0.01
23 16 0.23
24 5 0.07
25 5 0.07
26 10 0.14
27 23 0.32
28 4 0.06
29 7 0.10
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (26 bp):
ATAATACATAAAAAAATTTAAAAGTA
Found at i:47682281 original size:22 final size:23
Alignment explanation
Indices: 47682232--47682312 Score: 99
Period size: 23 Copynumber: 3.3 Consensus size: 23
47682222 GAAATTTGAT
47682232 AATATATAAAAAAATTTAAAAGTA
1 AATA-ATAAAAAAATTTAAAAGTA
*
47682256 AATAATAAAAAAATTTAAAATGAA
1 AATAATAAAAAAATTTAAAA-GTA
47682280 TAATACATAAAACAAATTTAAAAAGTA
1 -AATA-ATAAAA-AAATTT-AAAAGTA
47682307 AATAAT
1 AATAAT
47682313 GGTACAATGC
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
23 16 0.32
24 6 0.12
25 6 0.12
26 10 0.20
27 8 0.16
28 4 0.08
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
AATAATAAAAAAATTTAAAAGTA
Found at i:47695867 original size:10 final size:10
Alignment explanation
Indices: 47695852--47695912 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
47695842 ATATTGTTAT
47695852 ACATGATATG
1 ACATGATATG
47695862 ACATGATATG
1 ACATGATATG
*
47695872 CACATGATTTG
1 -ACATGATATG
** *
47695883 TTATGAGATG
1 ACATGATATG
47695893 CACATGATATG
1 -ACATGATATG
47695904 -CTATGATAT
1 AC-ATGATAT
47695913 AGTCATTATA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
9 1 0.03
10 23 0.57
11 16 0.40
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (10 bp):
ACATGATATG
Found at i:47695877 original size:21 final size:20
Alignment explanation
Indices: 47695852--47695912 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
47695842 ATATTGTTAT
47695852 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* * *
47695873 ACATGATTTGTTATGAGATGC
1 ACATGATATG-CATGATATGC
47695894 ACATGATATGCTATGATAT
1 ACATGATATGC-ATGATAT
47695913 AGTCATTATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:47695878 original size:11 final size:11
Alignment explanation
Indices: 47695852--47695904 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
47695842 ATATTGTTAT
47695852 ACATGATATG-
1 ACATGATATGC
47695862 ACATGATATGC
1 ACATGATATGC
*
47695873 ACATGATTTG-
1 ACATGATATGC
** *
47695883 TTATGAGATGC
1 ACATGATATGC
47695894 ACATGATATGC
1 ACATGATATGC
47695905 TATGATATAG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:47696016 original size:24 final size:24
Alignment explanation
Indices: 47695960--47696030 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
47695950 AGGAAGTGCG
*
47695960 AAAG-GGCTTTGCCCCAGTTCACCA
1 AAAGAGGCTTTGCCCCAGTT-ATCA
*
47695984 AAA-AGGGCTTTGCCCCAGTTATTA
1 AAAGA-GGCTTTGCCCCAGTTATCA
**
47696008 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAGAGGCTTTGCC-CCAGTTAT
47696031 ATGATAAAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 15 0.38
25 24 0.62
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAGAGGCTTTGCCCCAGTTATCA
Found at i:47696133 original size:35 final size:36
Alignment explanation
Indices: 47696056--47696143 Score: 133
Period size: 38 Copynumber: 2.4 Consensus size: 36
47696046 TGCTGCTAGT
* *
47696056 GGAGAGTTTGGTTGGGTGGGTTGAGTTATTCCCTACAT
1 GGAGAGCTTGGTTGGGTGGGTTGAGTTA-T-CCTACAC
47696094 GGAGAGCTTGGTTGGGTGGGTTGAGTTA-CCTACAC
1 GGAGAGCTTGGTTGGGTGGGTTGAGTTATCCTACAC
47696129 GGAGAGCTTGGTTGG
1 GGAGAGCTTGGTTGG
47696144 TACGGGTAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
35 21 0.44
38 27 0.56
ACGTcount: A:0.16, C:0.11, G:0.41, T:0.32
Consensus pattern (36 bp):
GGAGAGCTTGGTTGGGTGGGTTGAGTTATCCTACAC
Found at i:47702244 original size:18 final size:19
Alignment explanation
Indices: 47702217--47702258 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
47702207 TAACACCCAG
* *
47702217 ATTTTCGAGATTTTCGT-A
1 ATTTTAGAGACTTTCGTAA
*
47702235 ATTTTAGAGACTTTGGTAA
1 ATTTTAGAGACTTTCGTAA
47702254 ATTTT
1 ATTTT
47702259 TTAAAATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50
Consensus pattern (19 bp):
ATTTTAGAGACTTTCGTAA
Found at i:47704121 original size:25 final size:25
Alignment explanation
Indices: 47704053--47704123 Score: 108
Period size: 24 Copynumber: 2.9 Consensus size: 25
47704043 TTATAATATG
*
47704053 AAAAATGACCATTTTGCACCTAGGT
1 AAAAATGACCATTTTGCCCCTAGGT
47704078 -AAAATGACCATTTTGCCCCTAGGT
1 AAAAATGACCATTTTGCCCCTAGGT
* *
47704102 AAAAATGACCATTATACCCCTA
1 AAAAATGACCATTTTGCCCCTA
47704124 TGGTTTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
24 23 0.55
25 19 0.45
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTTTGCCCCTAGGT
Found at i:47704178 original size:10 final size:10
Alignment explanation
Indices: 47704159--47704222 Score: 60
Period size: 10 Copynumber: 6.3 Consensus size: 10
47704149 GAGATATTGT
47704159 TATG-CATGA
1 TATGACATGA
47704168 TATGACATGA
1 TATGACATGA
47704178 TATGCACATGA
1 TATG-ACATGA
**
47704189 TATGTTATGA
1 TATGACATGA
*
47704199 GATGCACATGA
1 TATG-ACATGA
47704210 TATG-CTATGA
1 TATGAC-ATGA
47704220 TAT
1 TAT
47704223 ACTCATTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
9 5 0.11
10 23 0.51
11 17 0.38
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (10 bp):
TATGACATGA
Found at i:47704189 original size:21 final size:20
Alignment explanation
Indices: 47704163--47704238 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
47704153 TATTGTTATG
47704163 CATGATATGACATGATATGCA
1 CATGATATG-CATGATATGCA
* *
47704184 CATGATATGTTATGAGATGCA
1 CATGATATG-CATGATATGCA
* *
47704205 CATGATATGCTATGATATACT
1 CATGATATGC-ATGATATGCA
*
47704226 CATTATATGCATG
1 CATGATATGCATG
47704239 GGTTGGGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
20 3 0.07
21 43 0.93
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
CATGATATGCATGATATGCA
Found at i:47706314 original size:17 final size:17
Alignment explanation
Indices: 47706285--47706341 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
47706275 GAAAACGAGT
47706285 AAAATGACATAATCGGTA
1 AAAAT-ACATAATCGGTA
* *
47706303 AAAATACCTAAT-GTTTA
1 AAAATACATAATCG-GTA
* *
47706320 TAACTACATAATCGGTA
1 AAAATACATAATCGGTA
47706337 AAAAT
1 AAAAT
47706342 GATTAGCATG
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
16 1 0.03
17 22 0.76
18 6 0.21
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (17 bp):
AAAATACATAATCGGTA
Found at i:47706454 original size:30 final size:30
Alignment explanation
Indices: 47706397--47706454 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47706387 TTGGAGCTTT
*
47706397 GGGGCAAAAGTGTAAATATGCACAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * *
47706427 GGGGCAAAATTGTAATTTTGCAAAAGTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTT
47706455 AGAGTTAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.28
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:47711435 original size:19 final size:20
Alignment explanation
Indices: 47711411--47711450 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
47711401 ATGTGTTTAT
47711411 TTTGATG-TTTTTAGTAGAA
1 TTTGATGTTTTTTAGTAGAA
47711430 TTTGATGTTTTTTAGTAGAA
1 TTTGATGTTTTTTAGTAGAA
47711450 T
1 T
47711451 ATGAAGCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTGATGTTTTTTAGTAGAA
Found at i:47723204 original size:39 final size:39
Alignment explanation
Indices: 47723141--47723218 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
47723131 ATTGATGACG
*
47723141 ATGATTTTGACACCCTCCACCGCCACATCCACTTGTCTC
1 ATGATTTTGACACACTCCACCGCCACATCCACTTGTCTC
* *
47723180 ATGATTTTGACACAGTCCATCGCCACATCCACTTGTCTC
1 ATGATTTTGACACACTCCACCGCCACATCCACTTGTCTC
47723219 CCTCCAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.22, C:0.37, G:0.12, T:0.29
Consensus pattern (39 bp):
ATGATTTTGACACACTCCACCGCCACATCCACTTGTCTC
Found at i:47731535 original size:43 final size:42
Alignment explanation
Indices: 47731485--47731588 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 42
47731475 CAATGCCGAC
* * *
47731485 GTCCCATACGTGGTCTTACATGC-AATCACATATCGATTCCACT
1 GTCCCATACGTGGTCTTACA-GCAAATCAAATA-CGATGCCAAT
*
47731528 GTCCCATACAG-GGTCTTAC-GCAAATCAAATACGATGCTAAT
1 GTCCCATAC-GTGGTCTTACAGCAAATCAAATACGATGCCAAT
* *
47731569 GTCCCAGACATGGTCTTACA
1 GTCCCATACGTGGTCTTACA
47731589 CGAGAACACA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
41 25 0.49
42 8 0.16
43 17 0.33
44 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (42 bp):
GTCCCATACGTGGTCTTACAGCAAATCAAATACGATGCCAAT
Found at i:47731922 original size:15 final size:16
Alignment explanation
Indices: 47731898--47731941 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
47731888 GTTCTTGATC
*
47731898 TAAACATATTCAAA-T
1 TAAACTTATTCAAACT
47731913 TAAACTTATTCAAACT
1 TAAACTTATTCAAACT
47731929 T-AACTTCATTCAA
1 TAAACTT-ATTCAA
47731942 TTTAGTCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAACTTATTCAAACT
Found at i:47738597 original size:254 final size:255
Alignment explanation
Indices: 47738147--47738655 Score: 912
Period size: 254 Copynumber: 2.0 Consensus size: 255
47738137 CTTTGAAAAT
* *
47738147 ATGGCGACATTACTTATTTGGTGAGAAGTGCCATGTATATTCGGATCACAAAAGTCTCAAATATT
1 ATGGCGACATTAATTATTTGGTGAGAAGTGCCATGTATATTCGGATCAAAAAAGTCTCAAATATT
* *
47738212 TGATGACTCAAAGAGACTTGAATCTGCGACAAAGACGTTGGCTCGAGTTGTTGAAAGATTATGAG
66 TGATGACTCAAAGAGACTTGAATCTGCGACAAAGACGTTGGCTCGAGTTATTAAAAGATTATGAG
47738277 CTTGTCATTGACTATCACCCGGGAAAGGCTAATGTGGTTGCAGATGCCTTAAGTCGTAAATCACT
131 CTTGTCATTGACTATCACCCGGGAAAGGCTAATGTGGTTGCAGATGCCTTAAGTCGTAAATCACT
* *
47738342 GTTTGCTTTACGAGCGATGAATGTACACTTGTCTGTTCTATCTGACAATGTGTTAGTGGC
196 GTTTGCTTTACGAGCGATGAATGTACACTTGTCTATTCTATCCGACAATGTGTTAGTGGC
*
47738402 ATGGCGACATTAATTATTTGGTGAGAAGTGCCATGTATGTTCGGATCAAAAAAGTCTCAAATATT
1 ATGGCGACATTAATTATTTGGTGAGAAGTGCCATGTATATTCGGATCAAAAAAGTCTCAAATATT
* * *
47738467 TGATGACTC-AAGAGACTTGAATTTGCGACAAAGACGTTTGCTTGAGTTATTAAAAGATTATGAG
66 TGATGACTCAAAGAGACTTGAATCTGCGACAAAGACGTTGGCTCGAGTTATTAAAAGATTATGAG
*
47738531 CTTGTCATTGACTATCACCCGGGAAAGGCTAATGTGGTTGCGGATGCCTTAAGTCGTAAATCACT
131 CTTGTCATTGACTATCACCCGGGAAAGGCTAATGTGGTTGCAGATGCCTTAAGTCGTAAATCACT
47738596 GTTTGCTTTACGAGCGATGAATGTACACTTGTCTATTCTATCCGACAATGTGTTAGTGGC
196 GTTTGCTTTACGAGCGATGAATGTACACTTGTCTATTCTATCCGACAATGTGTTAGTGGC
47738656 GGAATTAAAG
Statistics
Matches: 243, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
254 172 0.71
255 71 0.29
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (255 bp):
ATGGCGACATTAATTATTTGGTGAGAAGTGCCATGTATATTCGGATCAAAAAAGTCTCAAATATT
TGATGACTCAAAGAGACTTGAATCTGCGACAAAGACGTTGGCTCGAGTTATTAAAAGATTATGAG
CTTGTCATTGACTATCACCCGGGAAAGGCTAATGTGGTTGCAGATGCCTTAAGTCGTAAATCACT
GTTTGCTTTACGAGCGATGAATGTACACTTGTCTATTCTATCCGACAATGTGTTAGTGGC
Found at i:47740390 original size:118 final size:118
Alignment explanation
Indices: 47740182--47740417 Score: 454
Period size: 118 Copynumber: 2.0 Consensus size: 118
47740172 GAAGAATAGA
47740182 GTGAAGCATTCGGTTATCCTAGGTCAATATTAAGGTAAGAAAGTTTATACTAGTTCTTGAAATTT
1 GTGAAGCATTCGGTTATCCTAGGTCAATATTAAGGTAAGAAAGTTTATACTAGTTCTTGAAATTT
*
47740247 TAGCTGATATGGAGTGAGATATCAAGTTATTTTTGTAACCCATGTTGAAATTT
66 TAGCTGACATGGAGTGAGATATCAAGTTATTTTTGTAACCCATGTTGAAATTT
47740300 GTGAAGCATTCGGTTATCCTAGGTCAATATTAAGGTAAGAAAGTTTATACTAGTTCTTGAAATTT
1 GTGAAGCATTCGGTTATCCTAGGTCAATATTAAGGTAAGAAAGTTTATACTAGTTCTTGAAATTT
*
47740365 TAGTTGACATGGAGTGAGATATCAAGTTATTTTTGTAACCCATGTTGAAATTT
66 TAGCTGACATGGAGTGAGATATCAAGTTATTTTTGTAACCCATGTTGAAATTT
47740418 TGAGTGTGGA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (118 bp):
GTGAAGCATTCGGTTATCCTAGGTCAATATTAAGGTAAGAAAGTTTATACTAGTTCTTGAAATTT
TAGCTGACATGGAGTGAGATATCAAGTTATTTTTGTAACCCATGTTGAAATTT
Found at i:47741827 original size:40 final size:40
Alignment explanation
Indices: 47741757--47742059 Score: 518
Period size: 40 Copynumber: 7.6 Consensus size: 40
47741747 CGGATGATAA
* *
47741757 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
47741797 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
47741837 CGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
47741877 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
47741917 CGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
47741957 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
47741997 CGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
47742037 CGAAGGCATTTGTGCGAGTTACT
1 CGAAGGCATTTGTGCGAGTTACT
47742060 TCCCGAAGGT
Statistics
Matches: 249, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 248 1.00
41 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:47749988 original size:40 final size:40
Alignment explanation
Indices: 47749933--47750548 Score: 1114
Period size: 40 Copynumber: 15.4 Consensus size: 40
47749923 GATGATAACG
* *
47749933 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
47749973 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
47750013 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47750053 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47750093 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47750133 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47750173 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47750213 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47750253 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47750293 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47750333 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47750373 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
47750413 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
47750453 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
47750493 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-GAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
**
47750533 -GGCTAAACCCCGAAGG
1 GGGCTAAGTCCCGAAGG
47750549 TACTTGGTTT
Statistics
Matches: 566, Mismatches: 8, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
39 15 0.03
40 550 0.97
41 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:47758791 original size:19 final size:17
Alignment explanation
Indices: 47758770--47758803 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
47758760 TGATATTTCT
47758770 TTTTAATTATTTATCATC
1 TTTTAATTATTT-TCATC
47758788 TTTTAATTATTTTCAT
1 TTTTAATTATTTTCAT
47758804 TTCCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAATTATTTTCATC
Found at i:47760295 original size:27 final size:26
Alignment explanation
Indices: 47760237--47760300 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
47760227 ATGGTTTAAA
* *
47760237 ACCACATATATCTGTTCTGGTGGCTC
1 ACCACATATTTATGTTCTGGTGGCTC
* *
47760263 AGCCACATATTTATGTTTCTGGTGGGTT
1 A-CCACATATTTATG-TTCTGGTGGCTC
47760291 ACCACATATT
1 ACCACATATT
47760301 ATTATCTAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.03
27 20 0.62
28 11 0.34
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (26 bp):
ACCACATATTTATGTTCTGGTGGCTC
Found at i:47762374 original size:31 final size:31
Alignment explanation
Indices: 47762339--47762398 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
47762329 TTTACAGTTT
*
47762339 CAGTTACAGTCACGCTTTGTGTGAGTATTTA
1 CAGTTACAGTCACACTTTGTGTGAGTATTTA
47762370 CAGTTACAGTCACACTTTGTGTGAGTATT
1 CAGTTACAGTCACACTTTGTGTGAGTATT
47762399 ATTCCTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (31 bp):
CAGTTACAGTCACACTTTGTGTGAGTATTTA
Found at i:47762539 original size:13 final size:13
Alignment explanation
Indices: 47762521--47762554 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47762511 AAAGGGAGAA
*
47762521 TTGAAATGAATAT
1 TTGAAATGAAAAT
47762534 TTGAAATGAAAAT
1 TTGAAATGAAAAT
*
47762547 GTGAAATG
1 TTGAAATG
47762555 TTAAACGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (13 bp):
TTGAAATGAAAAT
Found at i:47764841 original size:42 final size:42
Alignment explanation
Indices: 47764743--47764849 Score: 101
Period size: 42 Copynumber: 2.5 Consensus size: 42
47764733 TGTTACCATG
* * * *
47764743 TAAGGCCATATCTGGGATATGGCGTTGATATGAGATTTCGTC
1 TAAGACCATATCTGGGACATGGCGTTGATATAAGATTTCGTA
* ** *
47764785 TAAGATCACGTCTGGGACATGTC-TTCGA-ATAAGATTTTCGTA
1 TAAGACCATATCTGGGACATGGCGTT-GATATAAGA-TTTCGTA
*
47764827 TAAGACCATATCTGGGATATGGC
1 TAAGACCATATCTGGGACATGGC
47764850 ATCGATGTGA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
41 7 0.14
42 43 0.86
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
TAAGACCATATCTGGGACATGGCGTTGATATAAGATTTCGTA
Found at i:47767669 original size:16 final size:17
Alignment explanation
Indices: 47767637--47767671 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
47767627 AATTTAGTTG
47767637 AAGTATAAACGATGTAT
1 AAGTATAAACGATGTAT
*
47767654 AAGTATATAC-ATGTAT
1 AAGTATAAACGATGTAT
47767670 AA
1 AA
47767672 ATTATTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (17 bp):
AAGTATAAACGATGTAT
Found at i:47768383 original size:41 final size:41
Alignment explanation
Indices: 47768321--47768482 Score: 236
Period size: 41 Copynumber: 4.0 Consensus size: 41
47768311 TGAAAATAAG
* *
47768321 ATGTTTCAGACTTTACGTCTAGCAGGC-TTGATGCCGGTGAA
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
47768362 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
*
47768403 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGGA
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
* * * * *
47768444 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTG
47768483 TTTTATACAA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
41 109 0.97
42 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (41 bp):
ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
Found at i:47775369 original size:41 final size:41
Alignment explanation
Indices: 47775307--47775435 Score: 222
Period size: 41 Copynumber: 3.1 Consensus size: 41
47775297 GTTTGGAATT
47775307 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
* * * *
47775348 GGTGATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
47775389 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
47775430 GGTGAT
1 GGTGAT
47775436 CCGAATATGA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
Found at i:47781591 original size:72 final size:72
Alignment explanation
Indices: 47781474--47782449 Score: 1943
Period size: 72 Copynumber: 13.6 Consensus size: 72
47781464 ACAACTTGAC
*
47781474 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47781539 ACTAACA
66 ACTAACA
47781546 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47781611 ACTAACA
66 ACTAACA
47781618 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47781683 ACTAACA
66 ACTAACA
47781690 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47781755 ACTAACA
66 ACTAACA
47781762 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47781827 ACTAACA
66 ACTAACA
47781834 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47781899 ACTAACA
66 ACTAACA
47781906 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47781971 ACTAACA
66 ACTAACA
47781978 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47782043 ACTAACA
66 ACTAACA
47782050 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47782115 ACTAACA
66 ACTAACA
47782122 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47782187 ACTAACA
66 ACTAACA
47782194 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47782259 ACTAACA
66 ACTAACA
47782266 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47782331 ACTAACA
66 ACTAACA
47782338 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
47782403 ACTAACA
66 ACTAACA
47782410 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
47782450 AATAATAATA
Statistics
Matches: 903, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 903 1.00
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:47782458 original size:3 final size:3
Alignment explanation
Indices: 47782450--47782499 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
47782440 ATTACATCCA
47782450 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47782498 AA
1 AA
47782500 AACATGTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47784722 original size:16 final size:16
Alignment explanation
Indices: 47784701--47784733 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47784691 TCTTGTTGCT
*
47784701 TTGTTACTATAGAATA
1 TTGTTACTATAAAATA
47784717 TTGTTACTATAAAATA
1 TTGTTACTATAAAATA
47784733 T
1 T
47784734 AGAACACTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (16 bp):
TTGTTACTATAAAATA
Found at i:47785509 original size:18 final size:18
Alignment explanation
Indices: 47785482--47785516 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47785472 ACATACAGAG
*
47785482 CCACCGTTCACCATGCTA
1 CCACCATTCACCATGCTA
47785500 CCACCATTCACCATGCT
1 CCACCATTCACCATGCT
47785517 GCCATTGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.46, G:0.09, T:0.23
Consensus pattern (18 bp):
CCACCATTCACCATGCTA
Found at i:47792200 original size:21 final size:21
Alignment explanation
Indices: 47792166--47792206 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47792156 AACTTCTCTC
*
47792166 CTAAACATATTATTTACATAA
1 CTAAACATAGTATTTACATAA
*
47792187 CTAAATATAGTATTTACATA
1 CTAAACATAGTATTTACATA
47792207 TTTAATAGAT
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:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (21 bp):
CTAAACATAGTATTTACATAA
Found at i:47792221 original size:19 final size:19
Alignment explanation
Indices: 47792193--47792233 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
47792183 ATAACTAAAT
47792193 ATAGTATTTACATAT-TTA
1 ATAGTATTTACATATCTTA
47792211 ATAGATATTTACATATCTTA
1 ATAG-TATTTACATATCTTA
47792231 ATA
1 ATA
47792234 TTTTCATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 11 0.52
20 6 0.29
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (19 bp):
ATAGTATTTACATATCTTA
Found at i:47796481 original size:6 final size:6
Alignment explanation
Indices: 47796470--47796520 Score: 75
Period size: 6 Copynumber: 8.3 Consensus size: 6
47796460 TACTCGTTAC
* *
47796470 AAAAAT AAAAAT AAAAGAT AAAAAT AAAAAT AAACAT AAACAT AAAAAT
1 AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
47796519 AA
1 AA
47796521 TCGAACTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 36 0.86
7 6 0.14
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:47798642 original size:19 final size:19
Alignment explanation
Indices: 47798614--47798654 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
47798604 GAAGAAAGAA
* * *
47798614 GAGGAGAAAGAGAAAGGGG
1 GAGGAAAAAGAAAAAAGGG
47798633 GAGGAAAAAGAAAAAAGGG
1 GAGGAAAAAGAAAAAAGGG
47798652 GAG
1 GAG
47798655 AGAGATGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (19 bp):
GAGGAAAAAGAAAAAAGGG
Found at i:47808476 original size:21 final size:21
Alignment explanation
Indices: 47808450--47808490 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
47808440 AACTTCTCTC
*
47808450 CTAAATATGTTATTTACATAA
1 CTAAATATATTATTTACATAA
47808471 CTAAATATATTATTTACATA
1 CTAAATATATTATTTACATA
47808491 TTGAACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (21 bp):
CTAAATATATTATTTACATAA
Found at i:47809692 original size:22 final size:22
Alignment explanation
Indices: 47809667--47809708 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47809657 TTGGAACTGA
*
47809667 TGTGTTATTGTTACCAGTTTGT
1 TGTGTTATTGCTACCAGTTTGT
*
47809689 TGTGTTATTGCTACTAGTTT
1 TGTGTTATTGCTACCAGTTT
47809709 ATTGGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.10, G:0.21, T:0.55
Consensus pattern (22 bp):
TGTGTTATTGCTACCAGTTTGT
Found at i:47811362 original size:22 final size:25
Alignment explanation
Indices: 47811327--47811377 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
47811317 TAAAATAATG
*
47811327 AAAT-TATAATTTTACT-A-TCTAA
1 AAATATATAATTTTAATCAGTCTAA
47811349 AAATATATAA-TTTAATCAGTCTAA
1 AAATATATAATTTTAATCAGTCTAA
47811373 AAATA
1 AAATA
47811378 ATTTTTCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 9 0.36
23 6 0.24
24 10 0.40
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (25 bp):
AAATATATAATTTTAATCAGTCTAA
Found at i:47813610 original size:18 final size:18
Alignment explanation
Indices: 47813583--47813618 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47813573 TCAACCACAA
*
47813583 TCATCGGATGTATGAGGT
1 TCATCCGATGTATGAGGT
47813601 TCATCCGATGTATGAGGT
1 TCATCCGATGTATGAGGT
47813619 AACTAAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (18 bp):
TCATCCGATGTATGAGGT
Found at i:47814208 original size:21 final size:21
Alignment explanation
Indices: 47814178--47814233 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
47814168 ACAAAAGATA
*
47814178 GAAGTGCCATTTCAGTGGAAT
1 GAAGTCCCATTTCAGTGGAAT
47814199 GAAGTCCCATTTCAGTGGAAT
1 GAAGTCCCATTTCAGTGGAAT
47814220 GAAGTCCCATTTCA
1 GAAGTCCCATTTCA
47814234 AATGCATCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (21 bp):
GAAGTCCCATTTCAGTGGAAT
Found at i:47822928 original size:87 final size:87
Alignment explanation
Indices: 47822823--47823414 Score: 764
Period size: 86 Copynumber: 6.8 Consensus size: 87
47822813 ATTTCCAGCT
* * *
47822823 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
47822888 TTAAGGCCCTTCGCCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* *
47822910 TGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
**
47822975 TTAAGGCCCTTCACCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
*
47822997 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATT-TGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
47823061 TTAAGGCCCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
* * * * *
47823083 TGTTTTCCTACTGCTTAGGGAGATAAGATCTGT-AATTCAACCTGTTACCCTACTGCTTAGGGGT
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
**
47823147 TTAAGGTTCTTCGTCTTCGAT-
66 TTAAGGCCCTTCGTCTTCGATC
* * * * * * *
47823168 TATCTCCACTAATGCTTAGGGAGATAAGATCTGT-AATTC-GATCTGTTACCCTACTGCTTAAGG
1 TGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG-CCTGTTACCCTACTGCTTAGGG
* * * *
47823231 GTTTAAGACCCTTTGTCTTTGATC
64 GGTTAAGGCCCTTCGTCTTCGATC
* * * * * * * * *
47823255 TGTTTCCCCACTACTTAGGGGGATAAGGTCTG-CAATTCGGTCTGTTACCCTACTGCTCAGGGGT
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
*
47823319 TTAAGACCCTTCGTCTTCGATC
66 TTAAGGCCCTTCGTCTTCGATC
*
47823341 TGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGG
47823406 GGTTAAGGC
64 GGTTAAGGC
47823415 TTGTAAATTC
Statistics
Matches: 446, Mismatches: 50, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
85 8 0.02
86 279 0.63
87 128 0.29
89 31 0.07
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (87 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGG
TTAAGGCCCTTCGTCTTCGATC
Found at i:47823368 original size:44 final size:43
Alignment explanation
Indices: 47822823--47823503 Score: 392
Period size: 44 Copynumber: 15.7 Consensus size: 43
47822813 ATTTCCAGCT
* * *
47822823 TGTTACCCTACTACTTAGGGGGTTAAGATC-T-GTAAATTC-AGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTTCGT--CTTCGA-TC
* ** *
47822866 TGTTACCCTACTACTTAGGGGGTTAAGGCCCTTCGCCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATCTTCGTCTTCGATC
* * ** * *
47822910 TGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAAT-TTAG-CC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CGTCTTCGATC
** **
47822953 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCACCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATCTTCGTCTTCGATC
* * * *
47822997 TGTTTCCCTACTGCTTAGGGGGTTAAGATC-T-GTAAATTTG-CC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTTCGT--CTTCGATC
**
47823039 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATCTTCGTCTTCGATC
** * * * * *
47823083 TGTTTTCCTACTGCTTAGGGAGATAAGATC-T-GTAATTCAACC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTTCGT-CTTCGATC
* *
47823125 TGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGAT-
1 TGTTACCCTACTGCTTAGGGGGTTAA-GATCTTCGTCTTCGATC
* * * * *
47823168 TATCT-CCACTAATGCTTAGGGAGATAAGATC-T-GTAATTCGATC
1 TGT-TACC-CTACTGCTTAGGGGGTTAAGATCTTCGT-CTTCGATC
* * * * *
47823211 TGTTACCCTACTGCTTAAGGGTTTAAGACCCTTTGTCTTTGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGA-TCTTCGTCTTCGATC
* * * * * * ** *
47823255 TGTTTCCCCACTACTTAGGGGGATAAGGTCTGC-AATTCGGTC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTTCGTCTTCGATC
* * *
47823297 TGTTACCCTACTGCTCAGGGGTTTAAGACCCTTCGTCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGA-TCTTCGTCTTCGATC
* * ** *
47823341 TGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTC-AGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCT-T-CGTCTTCGA-TC
* * *
47823386 TGTTACCCTACTGCTTAGGGGGTTAAG-GCTT-GTAAATTC-AGC
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCTTCGT--CTTCGATC
** * *
47823428 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC
1 -TGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCGTCTTCGATC
* * *
47823473 TATTTCCCTACTGCTTAGGGGGTCAAGATCT
1 TGTTACCCTACTGCTTAGGGGGTTAAGATCT
47823504 GCGAATTCGC
Statistics
Matches: 479, Mismatches: 120, Indels: 78
0.71 0.18 0.12
Matches are distributed among these distances:
41 5 0.01
42 106 0.22
43 125 0.26
44 198 0.41
45 43 0.09
46 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGATCTTCGTCTTCGATC
Found at i:47831642 original size:19 final size:20
Alignment explanation
Indices: 47831606--47831647 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
47831596 GTCTTTTCGC
* *
47831606 GAAATTTAATACACATG-AT
1 GAAATGTAATACAAATGAAT
*
47831625 GAAATGTAATTCAAATGAAT
1 GAAATGTAATACAAATGAAT
47831645 GAA
1 GAA
47831648 TGCAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (20 bp):
GAAATGTAATACAAATGAAT
Found at i:47835365 original size:17 final size:17
Alignment explanation
Indices: 47835343--47835380 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
47835333 CGAAATACAT
*
47835343 AATATACAATAATTTAA
1 AATATAAAATAATTTAA
*
47835360 AATATAAAATAATTTGA
1 AATATAAAATAATTTAA
47835377 AATA
1 AATA
47835381 AATATATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
AATATAAAATAATTTAA
Found at i:47840691 original size:21 final size:22
Alignment explanation
Indices: 47840658--47840698 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
47840648 TTCATTTATG
*
47840658 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
47840679 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
47840699 CAATACATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:47842661 original size:10 final size:10
Alignment explanation
Indices: 47842648--47842693 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
47842638 TAATTTCTAC
47842648 TTATTTTTAT
1 TTATTTTTAT
47842658 TTA--TTTAT
1 TTATTTTTAT
*
47842666 TTCTATTTTAT
1 TTAT-TTTTAT
47842677 TTATTTTTAT
1 TTATTTTTAT
*
47842687 TTGTTTT
1 TTATTTT
47842694 CTAGACATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
8 7 0.23
10 15 0.50
11 8 0.27
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:47843531 original size:43 final size:43
Alignment explanation
Indices: 47843443--47843533 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 43
47843433 TTCCTTGGTC
* * * * ** *
47843443 CACACGGGCATGTACCTCAGTCACACGGTCATGTGCTTCTTTT
1 CACACAGGCATGTACCTCAGCCACACAGCCATGTGCCCCTCTT
* *
47843486 CACACAGGCGTGTGCCTCAGCCACACAGCCATGTGCCCCTCTT
1 CACACAGGCATGTACCTCAGCCACACAGCCATGTGCCCCTCTT
47843529 CACAC
1 CACAC
47843534 TGGCTTTTGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (43 bp):
CACACAGGCATGTACCTCAGCCACACAGCCATGTGCCCCTCTT
Found at i:47844892 original size:45 final size:45
Alignment explanation
Indices: 47844828--47844919 Score: 159
Period size: 45 Copynumber: 2.0 Consensus size: 45
47844818 AATTAGACCC
*
47844828 AAAATTTATTTGGGCTGGACGGCAAGGGCATGAAATCAGCAGGAA
1 AAAATTTATTTGGGCTGGACGGCAAGGGCATGAAAACAGCAGGAA
47844873 AAAATTTATTAT-GGCTGGACGGCAAGGGCATGAAAACAGCAGGAA
1 AAAATTTATT-TGGGCTGGACGGCAAGGGCATGAAAACAGCAGGAA
47844918 AA
1 AA
47844920 TTGATAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 44 0.98
46 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.18
Consensus pattern (45 bp):
AAAATTTATTTGGGCTGGACGGCAAGGGCATGAAAACAGCAGGAA
Found at i:47848785 original size:17 final size:17
Alignment explanation
Indices: 47848763--47848796 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47848753 ACCGGTTATG
*
47848763 ATTCTGTTGCAATTAGT
1 ATTCTGTTACAATTAGT
47848780 ATTCTGTTACAATTAGT
1 ATTCTGTTACAATTAGT
47848797 TACAGTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (17 bp):
ATTCTGTTACAATTAGT
Found at i:47849164 original size:33 final size:33
Alignment explanation
Indices: 47849122--47849496 Score: 435
Period size: 33 Copynumber: 11.0 Consensus size: 33
47849112 GGCATCATCC
* *
47849122 CCTGCTACCTCTCCTCTGGAAAAAGAAACGACA
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* *
47849155 CCTGCTACCTCTCCTCCGGAAAAGGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* *
47849188 GCTGCTACCTCTCCTCCGGAAAAAGGAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
*
47849221 CCTGCTACCTCTCCTCCGGAAAATGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
47849254 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* * * *
47849287 CCTGTTACCTTTCCTCCGGAAAAGGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* * * * **
47849320 TCTTCGACCTCTCCTCTGGAAAAAGTAACAACTCCT
1 CCTGCTACCTCTCCTCCGGAAAAAG--A-AACGACT
*
47849356 GCTACTGCTACCTCTCCTCCGGAAAAAGTAACGACT
1 -C--CTGCTACCTCTCCTCCGGAAAAAGAAACGACT
*
47849392 CCTGCTACTGCCACCTCTCCTCCGGCAAAAGAAACGACT
1 CCTG---CT---ACCTCTCCTCCGGAAAAAGAAACGACT
*
47849431 CCTGCTACCTCTCCTCCGGCAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
** *
47849464 CCTGCTACCTCTCCTTTGGAAAAAGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
47849497 TCTGAAAAAG
Statistics
Matches: 292, Mismatches: 38, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
33 227 0.78
35 1 0.00
36 14 0.05
39 50 0.17
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (33 bp):
CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
Found at i:47850187 original size:183 final size:183
Alignment explanation
Indices: 47849879--47850248 Score: 704
Period size: 183 Copynumber: 2.0 Consensus size: 183
47849869 GTGGGTCAAG
*
47849879 TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGGTG
1 TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
47849944 AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
66 AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
47850009 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
131 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
*
47850062 TTCAAATGGTCACAACCAAGGCGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
1 TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
*
47850127 AAACACGTGGTGCTTGTTTCAATGCTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
66 AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
*
47850192 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGTGTAGGATGTTGGATTT
131 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
47850245 TTCA
1 TTCA
47850249 TCTAAAAACA
Statistics
Matches: 183, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (183 bp):
TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
Found at i:47850426 original size:45 final size:45
Alignment explanation
Indices: 47850376--47850464 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
47850366 TCTTATATTC
* *
47850376 TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGGGAGTCG
1 TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTCG
47850421 TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTC
1 TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTC
47850465 AGTGATCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTCG
Found at i:47869052 original size:42 final size:42
Alignment explanation
Indices: 47869005--47869088 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
47868995 AATACCTATG
47869005 CCCTATGTAATGATCCGATTTTTATCGGTGTAGAAAAATTCA
1 CCCTATGTAATGATCCGATTTTTATCGGTGTAGAAAAATTCA
47869047 CCCTATGTAATGATCCGATTTTTATCGGTGTAGAAAAATTCA
1 CCCTATGTAATGATCCGATTTTTATCGGTGTAGAAAAATTCA
47869089 ATTTTTTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (42 bp):
CCCTATGTAATGATCCGATTTTTATCGGTGTAGAAAAATTCA
Found at i:47869475 original size:19 final size:19
Alignment explanation
Indices: 47869447--47869485 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47869437 ACGTGACAAG
47869447 TCTCTCCTCAACCTATAAA
1 TCTCTCCTCAACCTATAAA
* *
47869466 TCTCTTCTCAATCTATAAA
1 TCTCTCCTCAACCTATAAA
47869485 T
1 T
47869486 AGGAGGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (19 bp):
TCTCTCCTCAACCTATAAA
Found at i:47871678 original size:62 final size:57
Alignment explanation
Indices: 47871552--47871688 Score: 157
Period size: 62 Copynumber: 2.3 Consensus size: 57
47871542 TAATTCATAT
* * * * * *
47871552 AATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
1 AATAATTATATTAA-AATATGATTAAATTATATAGTATTTTATAAAAATATATTTAAC
47871610 AATAATTATATTAAAATATGATTAAATTATTTAGTAGTATTTTTAATAAAAATATATTTAAC
1 AATAATTATATTAAAATATGATTAAATTA--TA-TAGTA-TTTT-ATAAAAATATATTTAAC
*
47871672 AATAATTTTATTAAAAT
1 AATAATTATATTAAAAT
47871689 TTAATAGCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
57 13 0.19
58 14 0.21
59 2 0.03
60 4 0.06
61 4 0.06
62 30 0.45
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (57 bp):
AATAATTATATTAAAATATGATTAAATTATATAGTATTTTATAAAAATATATTTAAC
Found at i:47871877 original size:16 final size:16
Alignment explanation
Indices: 47871856--47871910 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
47871846 TGAATTACTG
47871856 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
* *
47871872 ATTACAGCTCTATTCA
1 ATTACAGCCCTATTCC
*
47871888 ATTACAGCCCTATTTC
1 ATTACAGCCCTATTCC
47871904 ATTACAG
1 ATTACAG
47871911 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:47873300 original size:24 final size:21
Alignment explanation
Indices: 47873279--47873321 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
47873269 AATTTAAATT
47873279 TAATATTTATCATAAAAATAAA
1 TAATA-TTATCATAAAAATAAA
* *
47873301 TACTATTATTATAAAAATAAA
1 TAATATTATCATAAAAATAAA
47873322 AAAATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATATTATCATAAAAATAAA
Found at i:47874411 original size:31 final size:31
Alignment explanation
Indices: 47874363--47874421 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
47874353 TCATATACGC
47874363 AAAATTTAAATTATGATT-AATGTGTATATAT
1 AAAATTTAAATTATGATTCAAT-TGTATATAT
*
47874394 AAAACTTT-AATTTTGATTCAATTGTATA
1 AAAA-TTTAAATTATGATTCAATTGTATA
47874422 AATTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (31 bp):
AAAATTTAAATTATGATTCAATTGTATATAT
Found at i:47876219 original size:484 final size:484
Alignment explanation
Indices: 47875311--47876386 Score: 2116
Period size: 484 Copynumber: 2.2 Consensus size: 484
47875301 ATTTAATTTT
47875311 TGTAATGACCCAAAATTCACGGGCACATAGGGCCTTTGTCTTAGTGAAATAAGTTCGAAAATAAT
1 TGTAATGACCCAAAATTCACGGGCACATAGGGCCTTTGTCTTAGTGAAATAAGTTCGAAAATAAT
47875376 TATTAGAAATATTTATAAGCTTAGTGGTGTGTCTAATTAGGTTGCTTATTGGGCCGTATGAAATA
66 TATTAGAAATATTTATAAGCTTAGTGGTGTGTCTAATTAGGTTGCTTATTGGGCCGTATGAAATA
47875441 GTAGACAGAGTTGGACCGGTTGCTTACCGATTAGCTTTGCCTTCAGAGTTACAAAAGATTCACGA
131 GTAGACAGAGTTGGACCGGTTGCTTACCGATTAGCTTTGCCTTCAGAGTTACAAAAGATTCACGA
47875506 TGTTTTTCATGTTTCTACGTTTCGGAGATATAGGTCAGATCCTTCACATATCATTTCCGCTAAAG
196 TGTTTTTCATGTTTCTACGTTTCGGAGATATAGGTCAGATCCTTCACATATCATTTCCGCTAAAG
47875571 ATATTGAAATTCAATCGGATCTGTCTTATGAAGAAGAACCAGTGCAAATATTAGCTAGAGAAGTA
261 ATATTGAAATTCAATCGGATCTGTCTTATGAAGAAGAACCAGTGCAAATATTAGCTAGAGAAGTA
47875636 AAGGAGTTGAGAAATAAACGGGTTCCTTTAGTAAAAGTGTTATGGAGAAATCATAAAGTGGAAAA
326 AAGGAGTTGAGAAATAAACGGGTTCCTTTAGTAAAAGTGTTATGGAGAAATCATAAAGTGGAAAA
47875701 AGCAACTTGGGAACTGGAAGAAACGATGAGAGCACAATATCCTCATCTTTTCTCAGGTAAATTTC
391 AGCAACTTGGGAACTGGAAGAAACGATGAGAGCACAATATCCTCATCTTTTCTCAGGTAAATTTC
47875766 GAGGACGAAATTTATTAAGAGGGGAGAAA
456 GAGGACGAAATTTATTAAGAGGGGAGAAA
47875795 TGTAATGACCCAAAATTCACGGGCACATAGGGCCTTTGTCTTAGTGAAATAAGTTCGAAAATAAT
1 TGTAATGACCCAAAATTCACGGGCACATAGGGCCTTTGTCTTAGTGAAATAAGTTCGAAAATAAT
47875860 TATTAGAAATATTTATAAGCTTAGTGGTGTGTCTAATTAGGTTGCTTATTGGGCCGTATGAAATA
66 TATTAGAAATATTTATAAGCTTAGTGGTGTGTCTAATTAGGTTGCTTATTGGGCCGTATGAAATA
47875925 GTAGACAGAGTTGGACCGGTTGCTTACCGATTAGCTTTGCCTTCAGAGTTACAAAAGATTCACGA
131 GTAGACAGAGTTGGACCGGTTGCTTACCGATTAGCTTTGCCTTCAGAGTTACAAAAGATTCACGA
47875990 TGTTTTTCATGTTTCTACGTTTCGGAGATATAGGTCAGATCCTTCACATATCATTTCCGCTAAAG
196 TGTTTTTCATGTTTCTACGTTTCGGAGATATAGGTCAGATCCTTCACATATCATTTCCGCTAAAG
47876055 ATATTGAAATTCAATCGGATCTGTCTTATGAAGAAGAACCAGTGCAAATATTAGCTAGAGAAGTA
261 ATATTGAAATTCAATCGGATCTGTCTTATGAAGAAGAACCAGTGCAAATATTAGCTAGAGAAGTA
47876120 AAGGAGTTGAGAAATAAACGGGTTCCTTTAGTAAAAGTGTTATGGAGAAATCATAAAGTGGAAAA
326 AAGGAGTTGAGAAATAAACGGGTTCCTTTAGTAAAAGTGTTATGGAGAAATCATAAAGTGGAAAA
47876185 AGCAACTTGGGAACTGGAAGAAACGATGAGAGCACAATATCCTCATCTTTTCTCAGGTAAATTTC
391 AGCAACTTGGGAACTGGAAGAAACGATGAGAGCACAATATCCTCATCTTTTCTCAGGTAAATTTC
47876250 GAGGACGAAATTTATTAAGAGGGGAGAAA
456 GAGGACGAAATTTATTAAGAGGGGAGAAA
*
47876279 TGTAATGACCCAAAATTCACGGGCACATAGGGCCTTCGTCTTAGTGAAATAAGTTCGAAAATAAT
1 TGTAATGACCCAAAATTCACGGGCACATAGGGCCTTTGTCTTAGTGAAATAAGTTCGAAAATAAT
* * *
47876344 TATTAAAAATATTTATGAGTTTAGTGGTGTGTCTAATTAGGTT
66 TATTAGAAATATTTATAAGCTTAGTGGTGTGTCTAATTAGGTT
47876387 TTAATTAGGT
Statistics
Matches: 588, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
484 588 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (484 bp):
TGTAATGACCCAAAATTCACGGGCACATAGGGCCTTTGTCTTAGTGAAATAAGTTCGAAAATAAT
TATTAGAAATATTTATAAGCTTAGTGGTGTGTCTAATTAGGTTGCTTATTGGGCCGTATGAAATA
GTAGACAGAGTTGGACCGGTTGCTTACCGATTAGCTTTGCCTTCAGAGTTACAAAAGATTCACGA
TGTTTTTCATGTTTCTACGTTTCGGAGATATAGGTCAGATCCTTCACATATCATTTCCGCTAAAG
ATATTGAAATTCAATCGGATCTGTCTTATGAAGAAGAACCAGTGCAAATATTAGCTAGAGAAGTA
AAGGAGTTGAGAAATAAACGGGTTCCTTTAGTAAAAGTGTTATGGAGAAATCATAAAGTGGAAAA
AGCAACTTGGGAACTGGAAGAAACGATGAGAGCACAATATCCTCATCTTTTCTCAGGTAAATTTC
GAGGACGAAATTTATTAAGAGGGGAGAAA
Found at i:47876567 original size:23 final size:22
Alignment explanation
Indices: 47876541--47876597 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
47876531 ATAATGACAA
*
47876541 TTGTAATAAAA-ATATTGGTACAT
1 TTGTAATAAAAGATA-T-GTACAC
47876564 TTGTAATAAATAGATATGTACAC
1 TTGTAATAAA-AGATATGTACAC
47876587 TTGTAATAAAA
1 TTGTAATAAAA
47876598 TAACTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 25 0.81
24 2 0.06
25 3 0.10
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (22 bp):
TTGTAATAAAAGATATGTACAC
Found at i:47876827 original size:22 final size:21
Alignment explanation
Indices: 47876795--47876835 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
47876785 TAAACAAAGT
47876795 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
47876816 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
47876836 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:47877803 original size:21 final size:21
Alignment explanation
Indices: 47877747--47877807 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
47877737 TTTACTGATC
*
47877747 AGGCACTTTATGTGTCTATTTT
1 AGGCACTTTATGTGTC-GTTTT
* **
47877769 AGGCACCTCGTGTGTCGTTTT
1 AGGCACTTTATGTGTCGTTTT
47877790 AGGCACTTTATGTGTCGT
1 AGGCACTTTATGTGTCGT
47877808 ATTCTGATCA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.43
Consensus pattern (21 bp):
AGGCACTTTATGTGTCGTTTT
Found at i:47881803 original size:21 final size:21
Alignment explanation
Indices: 47881779--47882034 Score: 74
Period size: 21 Copynumber: 12.2 Consensus size: 21
47881769 CTTTCTTTTT
*
47881779 AGCTCTTTCAAGCTTCTGTTA
1 AGCTCTTACAAGCTTCTGTTA
*
47881800 AGCTCTTACGAGCTTCTGTTCA
1 AGCTCTTACAAGCTTCTGTT-A
* * ** * *
47881822 A-CCCCTATGAGTTTCTATTTA
1 AGCTCTTACAAGCTTCT-GTTA
*
47881843 A-CTCTTACAAGCATCTGTTCA
1 AGCTCTTACAAGCTTCTGTT-A
* ** *
47881864 A-CTTTTATGAGTTTCTGTTA
1 AGCTCTTACAAGCTTCTGTTA
* **
47881884 AGCTTTTATGAGCTTCTGTTCA
1 AGCTCTTACAAGCTTCTGTT-A
* **** * *
47881906 A-CTTTTTTGGGTTTTTGTTA
1 AGCTCTTACAAGCTTCTGTTA
* *
47881926 AGCTCTTACGAGCTTTTGTTTA
1 AGCTCTTACAAGCTTCTG-TTA
** * *
47881948 A-CTCTTATGAGTTTCTGTTC
1 AGCTCTTACAAGCTTCTGTTA
* *
47881968 AGCTCTTACGAGCTTTTGTTCA
1 AGCTCTTACAAGCTTCTGTT-A
** * * *
47881990 A-CTCTTATGAGTTTCTATTC
1 AGCTCTTACAAGCTTCTGTTA
* *
47882010 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACAAGCTTCTGTTA
47882031 AGCT
1 AGCT
47882035 TTCGAGTTTC
Statistics
Matches: 180, Mismatches: 45, Indels: 20
0.73 0.18 0.08
Matches are distributed among these distances:
20 10 0.06
21 159 0.88
22 11 0.06
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.45
Consensus pattern (21 bp):
AGCTCTTACAAGCTTCTGTTA
Found at i:47881861 original size:42 final size:42
Alignment explanation
Indices: 47881792--47882031 Score: 277
Period size: 42 Copynumber: 5.7 Consensus size: 42
47881782 TCTTTCAAGC
* * *
47881792 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACCCCTATGAGT
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* * *
47881834 TTCTATTTAA-CTCTTACAAGCATCTGTTCAACTTTTATGAGT
1 TTCT-TTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* * * * * *
47881876 TTCTGTTAAGCTTTTATGAGCTTCTGTTCAACTTTTTTGGGT
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* *
47881918 TT-TTGTTAAGCTCTTACGAGCTTTTGTTTAACTCTTATGAGT
1 TTCTT-TTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* * *
47881960 TTCTGTTCAGCTCTTACGAGCTTTTGTTCAACTCTTATGAGT
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* *
47882002 TTCTATTCAGCTCTTACGAGCTTCTGTTCA
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCA
47882032 GCTTTCGAGT
Statistics
Matches: 168, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
41 5 0.03
42 158 0.94
43 5 0.03
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (42 bp):
TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
Found at i:47886201 original size:46 final size:46
Alignment explanation
Indices: 47886154--47886381 Score: 296
Period size: 46 Copynumber: 5.0 Consensus size: 46
47886144 GCTCTCTGAT
* * * *
47886154 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
47886200 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
47886246 GGGAAATGAATAAGACCATGGTTGAAAGACACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
47886292 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
47886338 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
47886382 TCAAAGATAA
Statistics
Matches: 161, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 160 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:47886313 original size:92 final size:92
Alignment explanation
Indices: 47886164--47886376 Score: 327
Period size: 92 Copynumber: 2.3 Consensus size: 92
47886154 ATGAAATGTG
* * **
47886164 TAAGACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* *
47886229 TACCATGGCAACATGACGGGAAATGAA
66 TACCATGGCAACATGACAGAAAATGAA
* * *
47886256 TAAGACCATGGTTGAAAGACACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGACACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
*
47886321 TACCATGGCAACATGACAGAAAATGAG
66 TACCATGGCAACATGACAGAAAATGAA
*
47886348 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATAGTTGAAAGACACCATGGCA
47886377 TCATGTCAAA
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 109 1.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (92 bp):
TAAGACCATAGTTGAAAGACACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAA
Found at i:47886683 original size:16 final size:17
Alignment explanation
Indices: 47886662--47886694 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47886652 ATGATGGAGC
47886662 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
47886678 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
47886695 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:47909183 original size:18 final size:18
Alignment explanation
Indices: 47909156--47909202 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
47909146 TTACACCAAA
* *
47909156 AAAATTTAAAATATATAT-
1 AAAATATAAAAGA-ATATC
*
47909174 AAAATCTAAAAGAATATC
1 AAAATATAAAAGAATATC
47909192 AAAATATAAAA
1 AAAATATAAAA
47909203 AAAAAAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAATATAAAAGAATATC
Found at i:47918849 original size:24 final size:24
Alignment explanation
Indices: 47918795--47918840 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
47918785 GGCACCAGCT
47918795 GAACCATTTTCTTGACAGTCAAAA
1 GAACCATTTTCTTGACAGTCAAAA
47918819 GAACCATTTTCTTGACAGTCAA
1 GAACCATTTTCTTGACAGTCAA
47918841 CAAATCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (24 bp):
GAACCATTTTCTTGACAGTCAAAA
Found at i:47920356 original size:89 final size:89
Alignment explanation
Indices: 47920205--47920472 Score: 527
Period size: 89 Copynumber: 3.0 Consensus size: 89
47920195 GCAATGTGTT
47920205 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
1 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
47920270 CTTCCACGGAGTTCAAATCTGTAA
66 CTTCCACGGAGTTCAAATCTGTAA
47920294 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
1 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
47920359 CTTCCACGGAGTTCAAATCTGTAA
66 CTTCCACGGAGTTCAAATCTGTAA
47920383 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
1 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
*
47920448 CTTCCATGGAGTTCAAATCTGTAA
66 CTTCCACGGAGTTCAAATCTGTAA
47920472 A
1 A
47920473 TGCGACCCCC
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 178 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.38
Consensus pattern (89 bp):
AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
CTTCCACGGAGTTCAAATCTGTAA
Found at i:47926239 original size:9 final size:9
Alignment explanation
Indices: 47926223--47926283 Score: 104
Period size: 9 Copynumber: 6.8 Consensus size: 9
47926213 GGTATTTTTC
47926223 GGTAATTCG
1 GGTAATTCG
*
47926232 GTTAATTCG
1 GGTAATTCG
*
47926241 GTTAATTCG
1 GGTAATTCG
47926250 GGTAATTCG
1 GGTAATTCG
47926259 GGTAATTCG
1 GGTAATTCG
47926268 GGTAATTCG
1 GGTAATTCG
47926277 GGTAATT
1 GGTAATT
47926284 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:47926461 original size:12 final size:12
Alignment explanation
Indices: 47926444--47926468 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47926434 AGTAATTTCG
47926444 GGTCGGTTAACC
1 GGTCGGTTAACC
47926456 GGTCGGTTAACC
1 GGTCGGTTAACC
47926468 G
1 G
47926469 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:47929460 original size:61 final size:61
Alignment explanation
Indices: 47929301--47929461 Score: 164
Period size: 61 Copynumber: 2.6 Consensus size: 61
47929291 TCCTCTAATG
* * * * * *
47929301 TTTACACATTCTATCAATTT-GATCCTAAATATAAAAAATTCAACAAATTTAGCCTTCAATA
1 TTTACACAATCTTTCAATTTAG-TCCTAAATCTAAAAATTTCAACAAATTTAGCCCTCAACA
* * * * * * *
47929362 TTTACAAAAT-TTGACATTTTAGTTCTAATTCTAAAAATTTCAATAAATTTGGCCCTCAACA
1 TTTACACAATCTT-TCAATTTAGTCCTAAATCTAAAAATTTCAACAAATTTAGCCCTCAACA
*
47929423 TTTACACAATCTTTCAATTTAGTCCTAACTCTAAAAATT
1 TTTACACAATCTTTCAATTTAGTCCTAAATCTAAAAATT
47929462 AAAAAATATA
Statistics
Matches: 79, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
60 1 0.01
61 75 0.95
62 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (61 bp):
TTTACACAATCTTTCAATTTAGTCCTAAATCTAAAAATTTCAACAAATTTAGCCCTCAACA
Found at i:47940253 original size:17 final size:18
Alignment explanation
Indices: 47940231--47940265 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47940221 AAGTGGGACG
47940231 TGTGGG-CTACACGAGTA
1 TGTGGGCCTACACGAGTA
*
47940248 TGTGGGCCTATACGAGTA
1 TGTGGGCCTACACGAGTA
47940266 AACCATACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (18 bp):
TGTGGGCCTACACGAGTA
Found at i:47942981 original size:26 final size:27
Alignment explanation
Indices: 47942893--47942969 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
47942883 TGCATACATA
*
47942893 ACATAAGGGCAAAACAGTCATTTTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
*
47942920 ACATAAGGGCAAAATAGTTATTTTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
*
47942947 ACATGAGGGCAAAATAGTCATTT
1 ACATAAGGGCAAAATAGTCATTT
47942970 ATCAATCTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (27 bp):
ACATAAGGGCAAAATAGTCATTTTACC
Found at i:47952103 original size:48 final size:46
Alignment explanation
Indices: 47952004--47952172 Score: 130
Period size: 46 Copynumber: 3.6 Consensus size: 46
47951994 TATTGTGAGT
* ** * *
47952004 TAGTGTTAGACATGTCTGTGACATGCATCGGTCATATTATGGGAGC
1 TAGTGTTAGACATGTCTGGGACATGCATCGGTCATAAGACGAGAGC
* *
47952050 CAGTGTTAGACCATGTCTGGGGCATAGCATCGG-CATTAAGACGAGAGC
1 TAGTGTTAGA-CATGTCTGGGACAT-GCATCGGTCA-TAAGACGAGAGC
* * * *
47952098 TAGTGTAAGACATGT-TAGGGACATGTATCGG-CCTCGAGACGTA-AGC
1 TAGTGTTAGACATGTCT-GGGACATGCATCGGTCAT-AAGACG-AGAGC
* * *
47952144 CAGTGTAAGACATGTTTGGGACATGCATC
1 TAGTGTTAGACATGTCTGGGACATGCATC
47952173 AGCTATGAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 50 0.50
47 27 0.27
48 23 0.23
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (46 bp):
TAGTGTTAGACATGTCTGGGACATGCATCGGTCATAAGACGAGAGC
Found at i:47961849 original size:28 final size:28
Alignment explanation
Indices: 47961794--47961850 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
47961784 CGATTAAAGG
* *
47961794 GATTTAATTTTACTGCATGTGTCGTGTA
1 GATTTAATTTTACTACATGTGCCGTGTA
*
47961822 GATTTAATTTTACTACATGTGCCTTGTA
1 GATTTAATTTTACTACATGTGCCGTGTA
47961850 G
1 G
47961851 GTGTTTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (28 bp):
GATTTAATTTTACTACATGTGCCGTGTA
Found at i:47965564 original size:16 final size:16
Alignment explanation
Indices: 47965543--47965573 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47965533 ATCAAGTTAA
*
47965543 AAAAATTATTTAATTG
1 AAAAATTAATTAATTG
47965559 AAAAATTAATTAATT
1 AAAAATTAATTAATT
47965574 AATTTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAATTAATTAATTG
Found at i:47971354 original size:24 final size:24
Alignment explanation
Indices: 47971327--47971372 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
47971317 GGCACCAGCT
47971327 GAACCATTTTCTTGACAGTCAAAA
1 GAACCATTTTCTTGACAGTCAAAA
47971351 GAACCATTTTCTTGACAGTCAA
1 GAACCATTTTCTTGACAGTCAA
47971373 CAAATCCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (24 bp):
GAACCATTTTCTTGACAGTCAAAA
Found at i:47976259 original size:15 final size:16
Alignment explanation
Indices: 47976239--47976268 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47976229 AATTTATATT
47976239 TTAGAA-AATAAAAAA
1 TTAGAAGAATAAAAAA
47976254 TTAGAAGAATAAAAA
1 TTAGAAGAATAAAAA
47976269 GAAACTCTCT
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:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (16 bp):
TTAGAAGAATAAAAAA
Found at i:47985324 original size:15 final size:15
Alignment explanation
Indices: 47985304--47985334 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47985294 GGACGGACAA
47985304 CGCAAATTCCCACTT
1 CGCAAATTCCCACTT
47985319 CGCAAATTCCCACTT
1 CGCAAATTCCCACTT
47985334 C
1 C
47985335 ACTTTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.42, G:0.06, T:0.26
Consensus pattern (15 bp):
CGCAAATTCCCACTT
Found at i:47985663 original size:25 final size:24
Alignment explanation
Indices: 47985609--47985663 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
47985599 TTTTTAAAAC
*
47985609 TATTTTAAAATTATTAAAATATTA
1 TATTTTAAAATTATTAAAATATCA
*
47985633 TAATTTTCAATATTATTAAACATA-CA
1 T-ATTTT-AAAATTATTAAA-ATATCA
47985659 TATTT
1 TATTT
47985664 AATTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 9 0.35
26 13 0.50
27 3 0.12
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (24 bp):
TATTTTAAAATTATTAAAATATCA
Done.