Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 17 of 187
Found at i:4607494 original size:20 final size:20
Alignment explanation
Indices: 4607469--4607537 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 20
4607459 TTTTTTTTGT
4607469 TTATTTTATTTATTATTATA
1 TTATTTTATTTATTATTATA
*
4607489 TTATTTT-TCTTATTATGTTAGA
1 TTATTTTAT-TTATTA--TTATA
*
4607511 TTTATTTTA-TTGTTATTATTA
1 -TTATTTTATTTATTATTA-TA
4607532 TTATTT
1 TTATTT
4607538 CCATTTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
19 1 0.03
20 22 0.55
21 1 0.03
22 9 0.22
23 7 0.17
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.70
Consensus pattern (20 bp):
TTATTTTATTTATTATTATA
Found at i:4615188 original size:8 final size:8
Alignment explanation
Indices: 4615175--4615209 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
4615165 CTCCTTTTTA
4615175 TTAAATAT
1 TTAAATAT
4615183 TTAAATAT
1 TTAAATAT
*
4615191 CTAATATAT
1 TTAA-ATAT
4615200 TTAAATAT
1 TTAAATAT
4615208 TT
1 TT
4615210 GGCTAATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (8 bp):
TTAAATAT
Found at i:4616680 original size:114 final size:114
Alignment explanation
Indices: 4616388--4617064 Score: 905
Period size: 114 Copynumber: 5.9 Consensus size: 114
4616378 AACGCGTTGC
* * * * *
4616388 AAAATACCTAAGCCCAATGACGCCGTTTTCTAAGCTTTCGGGGATTTATCGGCGTTTTTAA-TAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGT-A
*
4616452 AGCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGATAAAGCGCCACAAA
65 AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATAAAGCGCCAC--A
* * *
4616504 AAAAAACCTAAGCCCAATGACGCCGTTTTCTGAGCTTTGGGGGATTTAGCGGCGTTTTTAAGTAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGTAA
** *
4616569 GCGCCGCTAATGCTCAGGGCTTTAGTAGCGTTTTTGATAAAGCGCCTCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATAAAGCGCCACA
* * **
4616618 AAAAAACCTAAGCCTAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAGCGGCATTTTTAAGTTC
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGTAA
* * * *
4616683 GTGCCGCTAATGCCCAAGGCTTTAGCGGCATTTTTGATAAAGCGCCACA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATAAAGCGCCACA
* * *
4616732 AAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGTGGATTTAGCGGCGTTTTTAAGTAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGTAA
*
4616797 GCGCCGCTAAAAATGCTCAGGGCTTTAGCGGTGTTTTTGATAAAGCGCCACA
66 GCGCCGCT---AATGCTCAGGGCTTTAGCGGCGTTTTTGATAAAGCGCCACA
* * * *
4616849 GAAAAACCTCAGCCCAACGACGCCGTTTTTTGAGCTTTTGGGGATTTAGCGGCATTTTTAAGTAC
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGTA-
**
4616914 A-CGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGA-AAAGCGCTGC-
65 AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT-GATAAAGCGCCACA
* **
4616962 AAAAAACCTAAGCCCAACGACGCCGTTTTCTTAGCTTTCGGGGATTTAGTAGCATTTTTTAA-TA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCA-TTTTTAAGT-
* * *
4617026 AAGCGCCGCTAATGCTCAGTGCTTTAGTGGCATTTTTGA
64 AAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGA
4617065 GGATGCGCCG
Statistics
Matches: 500, Mismatches: 52, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
113 51 0.10
114 239 0.48
115 2 0.00
116 105 0.21
117 102 0.20
118 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (114 bp):
AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGTAA
GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATAAAGCGCCACA
Found at i:4616898 original size:231 final size:228
Alignment explanation
Indices: 4616388--4617052 Score: 924
Period size: 231 Copynumber: 2.9 Consensus size: 228
4616378 AACGCGTTGC
* * * *
4616388 AAAATACCTAAGCCCAATGACGCCGTTTTCTAAGCTTTCGGGGATTTATCGGCGTTTTTAA-TAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAGCGGCATTTTTAAGT-A
* *
4616452 AGCGCCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGATAAAGCGCCACAAAAAAAAACCTAAGC
65 CGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATAAAGCGCCAC--AAAAAAACCTAAGC
* *
4616517 CCAATGACGCCGTTTTCTGAGCTTTGGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGC
128 CCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGC
* *
4616582 TCAGGGCTTTAGTAGCGTTTTTGATAAAGCGCCTCA
193 TCAGGGCTTTAGCAGCGTTTTTGATAAAGCGCCACA
* *
4616618 AAAAAACCTAAGCCTAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAGCGGCATTTTTAAGTTC
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAGCGGCATTTTTAAGTAC
* * * *
4616683 GTGCCGCTAATGCCCAAGGCTTTAGCGGCATTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCA
* *
4616748 ACGACGTCGTTTTCTGAGCTTTCGTGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAAAAATGC
131 ACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCT---AATGC
* *
4616813 TCAGGGCTTTAGCGGTGTTTTTGATAAAGCGCCACA
193 TCAGGGCTTTAGCAGCGTTTTTGATAAAGCGCCACA
* * * * *
4616849 GAAAAACCTCAGCCCAACGACGCCGTTTTTTGAGCTTTTGGGGATTTAGCGGCATTTTTAAGTAC
1 AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAGCGGCATTTTTAAGTAC
* **
4616914 ACGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGA-AAAGCGCTGC-AAAAAACCTAAGCCC
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTT-GATAAAGCGCCACAAAAAAACCTAAGCCC
* ** *
4616977 AACGACGCCGTTTTCTTAGCTTTCGGGGATTTAGTAGCATTTTTTAA-TAAAGCGCCGCTAATGC
130 AACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC-GTTTTTAAGT-AAGCGCCGCTAATGC
*
4617041 TCAGTGCTTTAG
193 TCAGGGCTTTAG
4617053 TGGCATTTTT
Statistics
Matches: 387, Mismatches: 41, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
228 86 0.22
230 148 0.38
231 151 0.39
232 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (228 bp):
AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGATTTAGCGGCATTTTTAAGTAC
GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCA
ACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCA
GGGCTTTAGCAGCGTTTTTGATAAAGCGCCACA
Found at i:4617647 original size:15 final size:14
Alignment explanation
Indices: 4617627--4617701 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
4617617 AAGTTTTATA
4617627 GATTATGGAATTAAG
1 GATTATGG-ATTAAG
*
4617642 GATTATGGATTAGG
1 GATTATGGATTAAG
* *
4617656 GATTCTGGTTTAAG
1 GATTATGGATTAAG
*
4617670 GGTTAATGTGATTTAAG
1 GATT-ATG-GA-TTAAG
* *
4617687 GTTTATGGGTTAAG
1 GATTATGGATTAAG
4617701 G
1 G
4617702 GTTAGGGGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
14 25 0.52
15 11 0.23
16 4 0.08
17 8 0.17
ACGTcount: A:0.28, C:0.01, G:0.32, T:0.39
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:4617701 original size:14 final size:14
Alignment explanation
Indices: 4617682--4617751 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
4617672 TTAATGTGAT
* *
4617682 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
4617696 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
* **
4617710 TTAGGGGTTAGATG
1 TTAAGGGTTAGGGG
* *
4617724 TTAAGAGTTAGGGA
1 TTAAGGGTTAGGGG
*
4617738 TTTAGGGTTTAGGG
1 TTAAGGG-TTAGGG
4617752 ATTCAGTGTT
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
14 37 0.86
15 6 0.14
ACGTcount: A:0.23, C:0.00, G:0.41, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:4617834 original size:7 final size:7
Alignment explanation
Indices: 4617824--4617860 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
4617814 TAAGGTTTAA
4617824 GGGTTAG
1 GGGTTAG
4617831 GGGTTAG
1 GGGTTAG
4617838 GGGTTAG
1 GGGTTAG
*
4617845 GGGTTAA
1 GGGTTAG
4617852 GGGTTAG
1 GGGTTAG
4617859 GG
1 GG
4617861 ATTTAGGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.16, C:0.00, G:0.57, T:0.27
Consensus pattern (7 bp):
GGGTTAG
Found at i:4617843 original size:14 final size:14
Alignment explanation
Indices: 4617820--4617860 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
4617810 TAAATAAGGT
4617820 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
4617834 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
4617848 TTAAGGGTTAGGG
1 TTAAGGGTTAGGG
4617861 ATTTAGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.51, T:0.29
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:4617968 original size:109 final size:108
Alignment explanation
Indices: 4617743--4617975 Score: 301
Period size: 109 Copynumber: 2.1 Consensus size: 108
4617733 AGGGATTTAG
* *
4617743 GGTTTAGGGATTCAGTGTTTGGTTAGAGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTATAT
1 GGTTTAGGGATTTAG-GTTGGGTTAGAGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTATAT
* * *
4617808 AATAAATAAGGTTTAAGGGTTAGGGGTTAGGGGTTAGGGGTTAA
65 AATAAATAAAGTTTAAGGGTTAGGGGTTAGGGATTAGAGGTTAA
* * *
4617852 GGGTTAGGGATTTAGGATTGGGTTATG-GTTTAGGGTTTAGTTTAATTAGTGTTTTTTAATTTAT
1 GGTTTAGGGATTTAGG-TTGGGTTA-GAGTTTAGGGTTTAGATTAATTAGTGTGTTTTAA-TTAT
* * * *
4617916 ATATTAAATAAAGTTTAGGGGTTAGGGGTTAGGGATTTGAGGTTGA
63 ATAATAAATAAAGTTTAAGGGTTAGGGGTTAGGGATTAGAGGTTAA
4617962 -GTTTAGGG-TTTAGG
1 GGTTTAGGGATTTAGG
4617976 GTTTAGATTA
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
108 7 0.06
109 57 0.53
110 44 0.41
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (108 bp):
GGTTTAGGGATTTAGGTTGGGTTAGAGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTATATA
ATAAATAAAGTTTAAGGGTTAGGGGTTAGGGATTAGAGGTTAA
Found at i:4617991 original size:90 final size:89
Alignment explanation
Indices: 4617841--4618104 Score: 395
Period size: 90 Copynumber: 3.0 Consensus size: 89
4617831 GGGTTAGGGG
* * *
4617841 TTAGGGGTTAAGGGTTAGGGATTTAGGATTG-GGTTATGGTTTAGGGTTTAGTTTAATTAGTGTT
1 TTAGGGGTTAGGGGTTAGGGATTTAGG-TTGAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTT
4617905 TTTTAATTTATATATTAAATAAAGT
65 TTTTAATTTATATATTAAATAAAGT
*
4617930 TTAGGGGTTAGGGGTTAGGGATTTGAGGTTGAGTTTAGGGTTTAGGGTTTAGATTAATTAGTGTT
1 TTAGGGGTTAGGGGTTAGGGATTT-AGGTTGAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTT
*
4617995 TGTTAATTTATATATTAAATAAAGT
65 TTTTAATTTATATATTAAATAAAGT
* * * * * **
4618020 TTAGGAGTTAGGGGTTAGGGATTTAGGGTCAGGTTAGGGTTTAAGATTTAGATTAATTAGTACTT
1 TTAGGGGTTAGGGGTTAGGGATTTAGGTTGAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTT
4618085 TTTAATTTATATATTAAATA
66 TTTAATTTATATATTAAATA
4618105 GGTTCTTTAT
Statistics
Matches: 159, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
89 79 0.50
90 80 0.50
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.44
Consensus pattern (89 bp):
TTAGGGGTTAGGGGTTAGGGATTTAGGTTGAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTT
TTTAATTTATATATTAAATAAAGT
Found at i:4618635 original size:84 final size:84
Alignment explanation
Indices: 4618529--4618694 Score: 226
Period size: 84 Copynumber: 2.0 Consensus size: 84
4618519 GTTTTTAATA
** * *
4618529 AAAACGCCGCAAGGATTTATTAAAATTTGCCAGA-GCGACGCCGTTTCTGTACTGGAATAAAATC
1 AAAACGCCGCAAGGATGAATTAAAATTTGCCA-ATACGACGCCGTTTCTCTACTGGAATAAAATC
*
4618593 TTATAGTGGCGTTTTTTAGG
65 TTATAGTGGCATTTTTTAGG
* ** **
4618613 AAAACGCCGCAAGGGTGAATTAATGTTTGCCAATACGGTGCCGTTTCTCTACTGGAATAAAATCT
1 AAAACGCCGCAAGGATGAATTAAAATTTGCCAATACGACGCCGTTTCTCTACTGGAATAAAATCT
4618678 TATAGTGGCATTTTTTA
66 TATAGTGGCATTTTTTA
4618695 AGCCGCAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 1 0.01
84 70 0.99
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (84 bp):
AAAACGCCGCAAGGATGAATTAAAATTTGCCAATACGACGCCGTTTCTCTACTGGAATAAAATCT
TATAGTGGCATTTTTTAGG
Found at i:4620231 original size:12 final size:12
Alignment explanation
Indices: 4620214--4620242 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4620204 ATACTTACAT
4620214 AACTTATATATA
1 AACTTATATATA
4620226 AACTTATATATA
1 AACTTATATATA
4620238 AACTT
1 AACTT
4620243 GCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
AACTTATATATA
Found at i:4620256 original size:9 final size:9
Alignment explanation
Indices: 4620238--4620537 Score: 149
Period size: 9 Copynumber: 34.8 Consensus size: 9
4620228 CTTATATATA
*
4620238 AACTTGCAT
1 AACTTACAT
4620247 AACTTACAT
1 AACTTACAT
*
4620256 AA-TAACATAAT
1 AACTTAC---AT
4620267 AACTTACAT
1 AACTTACAT
*
4620276 AA--TACAC
1 AACTTACAT
4620283 AACTTACAT
1 AACTTACAT
*
4620292 AACTTAAAT
1 AACTTACAT
4620301 AACTTACAT
1 AACTTACAT
*
4620310 -A-GTACAT
1 AACTTACAT
**
4620317 AACTTTGAT
1 AACTTACAT
*
4620326 AACTAACAT
1 AACTTACAT
* *
4620335 TA--TACAC
1 AACTTACAT
*
4620342 AAGTTACAT
1 AACTTACAT
4620351 AA--TACAT
1 AACTTACAT
**
4620358 TTCTTACAT
1 AACTTACAT
4620367 AACTTACAT
1 AACTTACAT
*
4620376 AA--TACAC
1 AACTTACAT
4620383 AACTTA-ATT
1 AACTTACA-T
*
4620392 AATATTATACAT
1 -A-ACT-TACAT
*
4620404 AACATACAT
1 AACTTACAT
*
4620413 AA-TACACAT
1 AACT-TACAT
4620422 AACTTACAT
1 AACTTACAT
*
4620431 -A-GTACAT
1 AACTTACAT
*
4620438 AACTAACAT
1 AACTTACAT
*
4620447 AA--TACAC
1 AACTTACAT
*
4620454 AACTTACGT
1 AACTTACAT
*
4620463 AACTTAAAT
1 AACTTACAT
4620472 AACTTACAT
1 AACTTACAT
*
4620481 AGCTTACAT
1 AACTTACAT
4620490 AA--TACAT
1 AACTTACAT
4620497 AACTTACAT
1 AACTTACAT
4620506 AACTT-CTAT
1 AACTTAC-AT
4620515 AA--TACAT
1 AACTTACAT
4620522 AACTTACAT
1 AACTTACAT
*
4620531 AATTTAC
1 AACTTAC
4620538 CTAATACATA
Statistics
Matches: 216, Mismatches: 44, Indels: 62
0.67 0.14 0.19
Matches are distributed among these distances:
7 48 0.22
8 10 0.05
9 141 0.65
10 3 0.01
11 7 0.03
12 6 0.03
13 1 0.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:4620295 original size:25 final size:25
Alignment explanation
Indices: 4620238--4620388 Score: 95
Period size: 25 Copynumber: 6.2 Consensus size: 25
4620228 CTTATATATA
*
4620238 AACTTGCATAACTTACATAATA-AC
1 AACTTACATAACTTACATAATACAC
4620262 -A--TA-ATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
*
4620283 AACTTACATAACTTAAATAACTTACA-
1 AACTTACATAACTTACATAA--TACAC
* * **
4620309 TA-GTACATAACTTTGATAACTA-AC
1 AACTTACATAACTTACATAA-TACAC
* * * *
4620333 -ATTATACACAAGTTACATAATACAT
1 AACT-TACATAACTTACATAATACAC
**
4620358 TTCTTACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
4620383 AACTTA
1 AACTTA
4620389 ATTAATATTA
Statistics
Matches: 95, Mismatches: 20, Indels: 23
0.69 0.14 0.17
Matches are distributed among these distances:
20 15 0.16
21 3 0.03
22 1 0.01
23 3 0.03
24 6 0.06
25 61 0.64
26 2 0.02
27 4 0.04
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:4620307 original size:34 final size:34
Alignment explanation
Indices: 4620264--4620532 Score: 173
Period size: 34 Copynumber: 7.9 Consensus size: 34
4620254 ATAATAACAT
4620264 AATAACTTACATAATACACAACTTACATAACTTA
1 AATAACTTACATAATACACAACTTACATAACTTA
* * **
4620298 AATAACTTACATAGTACATAACTTTGATAAC-TA
1 AATAACTTACATAATACACAACTTACATAACTTA
* * * **
4620331 ACATTA--TACACAAGTTACATAA--TACATTTCTTA
1 A-ATAACTTACATAA--TACACAACTTACATAACTTA
* *
4620364 CATAACTTACATAATACACAACTTA-ATTAATATTA
1 AATAACTTACATAATACACAACTTACA-TAA-CTTA
* *
4620399 TACATAACATACATAATACACATAACTTACAT-A-GTA
1 -A-ATAACTTACATAATACAC--AACTTACATAACTTA
* * *
4620435 CATAACTAACATAATACACAACTTACGTAACTTA
1 AATAACTTACATAATACACAACTTACATAACTTA
* *
4620469 AATAACTTACATAGCTTACATAA--TACATAACTTA
1 AATAACTTACATA--ATACACAACTTACATAACTTA
* *
4620503 CATAACTT-CTATAATACATAACTTACATAA
1 AATAACTTAC-ATAATACACAACTTACATAA
4620533 TTTACCTAAT
Statistics
Matches: 180, Mismatches: 33, Indels: 44
0.70 0.13 0.17
Matches are distributed among these distances:
32 33 0.18
33 8 0.04
34 102 0.57
35 3 0.02
36 8 0.04
37 17 0.09
38 1 0.01
39 7 0.04
40 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (34 bp):
AATAACTTACATAATACACAACTTACATAACTTA
Found at i:4620349 original size:41 final size:41
Alignment explanation
Indices: 4620304--4620533 Score: 121
Period size: 41 Copynumber: 5.8 Consensus size: 41
4620294 CTTAAATAAC
* ** *
4620304 TTACATAGTACATAACTTTGATAACTAACATTATACACAAG
1 TTACATAATACATAACTTACATAACTAACATAATACACAAG
** * *
4620345 TTACATAATACATTTCTTACATAACTTACATAATACACAAC
1 TTACATAATACATAACTTACATAACTAACATAATACACAAG
*
4620386 TTA-AT--TA-AT-ATTATACATAAC-ATACATAATACAC-A-
1 TTACATAATACATAACT-TACATAACTA-ACATAATACACAAG
* * *
4620421 TAAC-T--TACAT-A-GTACATAACTAACATAATACACAAC
1 TTACATAATACATAACTTACATAACTAACATAATACACAAG
* * * * * *
4620457 TTACGTAACTTAAATAACTTACATAGCTTACATAATACATAAC
1 TTACATAA--TACATAACTTACATAACTAACATAATACACAAG
* *
4620500 TTACATAACTTCTATAA--TACATAACTTACATAAT
1 TTACATAA-TAC-ATAACTTACATAACTAACATAAT
4620534 TTACCTAATA
Statistics
Matches: 150, Mismatches: 24, Indels: 30
0.74 0.12 0.15
Matches are distributed among these distances:
34 19 0.13
35 7 0.05
36 8 0.05
37 22 0.15
38 2 0.01
40 2 0.01
41 56 0.37
42 2 0.01
43 32 0.21
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.33
Consensus pattern (41 bp):
TTACATAATACATAACTTACATAACTAACATAATACACAAG
Found at i:4620381 original size:16 final size:16
Alignment explanation
Indices: 4620362--4620533 Score: 116
Period size: 16 Copynumber: 10.1 Consensus size: 16
4620352 ATACATTTCT
4620362 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
4620378 TACACAACTTAATTAATATTA
1 TACATAACTT-A--CATA--A
*
4620399 TACATAACATACATAA
1 TACATAACTTACATAA
*
4620415 TACACATAACTTACATAG
1 T--ACATAACTTACATAA
*
4620433 TACATAACTAACATAA
1 TACATAACTTACATAA
* *
4620449 TACACAACTTACGTAA
1 TACATAACTTACATAA
* *
4620465 CTTAAATAACTTACATAGCT
1 --TACATAACTTACATA--A
4620485 TACATAA--TACATAA
1 TACATAACTTACATAA
4620499 CTTACATAACTT-CTATAA
1 --TACATAACTTAC-ATAA
4620517 TACATAACTTACATAA
1 TACATAACTTACATAA
4620533 T
1 T
4620534 TTACCTAATA
Statistics
Matches: 121, Mismatches: 18, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
16 65 0.54
17 3 0.02
18 40 0.33
19 3 0.02
20 1 0.01
21 9 0.07
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:4620503 original size:25 final size:25
Alignment explanation
Indices: 4620399--4620548 Score: 130
Period size: 25 Copynumber: 5.9 Consensus size: 25
4620389 ATTAATATTA
*
4620399 TACATAACATACATAATACACATAACT
1 TACATAACTTACATAAT--ACATAACT
*
4620426 TACAT-A-GTACATAACTAACATAA--
1 TACATAACTTACATAA-T-ACATAACT
* * *
4620449 TACACAACTTACGTAACTTAAATAACT
1 TACATAACTTACATAA--TACATAACT
*
4620476 TACATAGCTTACATAATACATAACT
1 TACATAACTTACATAATACATAACT
4620501 TACATAACTT-CTATAATACATAACT
1 TACATAACTTAC-ATAATACATAACT
* *
4620526 TACATAATTTACCTAATACATAA
1 TACATAACTTACATAATACATAA
4620549 ATATATATCA
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
23 4 0.04
24 2 0.02
25 73 0.72
26 4 0.04
27 18 0.18
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAATACATAACT
Found at i:4620759 original size:25 final size:26
Alignment explanation
Indices: 4620729--4620792 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 26
4620719 CATAATAACT
4620729 TACATAACTTAATAACTCATA-TATA
1 TACATAACTTAATAACTCATATTATA
* *
4620754 TGCATAACTTAATAACTCATATTATT
1 TACATAACTTAATAACTCATATTATA
4620780 TACATAACTTAAT
1 TACATAACTTAAT
4620793 CATTGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.39
Consensus pattern (26 bp):
TACATAACTTAATAACTCATATTATA
Found at i:4622533 original size:43 final size:43
Alignment explanation
Indices: 4622477--4622702 Score: 276
Period size: 43 Copynumber: 5.3 Consensus size: 43
4622467 CATCAGACAA
* *
4622477 TAGCGGCGTTTGTGAGGGAAGCGCCGCTAAAGAATATGAACTT
1 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGAACTT
* **
4622520 TAGCGGCGTTTGTGAGAAAAGCGCCTTTAAAGAACATG-ACATT
1 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGAAC-TT
* * *
4622563 TAGCGGCGTTTGTGAAAGAGGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGAACTT
* * * *
4622606 TAGCAGCGTTTGTGAGAGAAGCGCCACTAAAAAACATGACCTT
1 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGAACTT
* * **
4622649 TAGCGGCATTTGTGAGA-AATGCGCCGCTAAAAAACATGTTCTT
1 TAGCGGCGTTTGTGAGAGAA-GCGCCGCTAAAGAACATGAACTT
4622692 TAGCGGCGTTT
1 TAGCGGCGTTT
4622703 ATTTCTATAA
Statistics
Matches: 158, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
42 4 0.03
43 153 0.97
44 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGAACATGAACTT
Found at i:4625716 original size:26 final size:26
Alignment explanation
Indices: 4625687--4625736 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
4625677 TGAGAATAGC
4625687 TTTTAAAAAATACTGTGAAAAAATAA
1 TTTTAAAAAATACTGTGAAAAAATAA
* * *
4625713 TTTTGAAAAATACTTTTAAAAAAT
1 TTTTAAAAAATACTGTGAAAAAAT
4625737 TTAGTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (26 bp):
TTTTAAAAAATACTGTGAAAAAATAA
Found at i:4625721 original size:13 final size:13
Alignment explanation
Indices: 4625687--4625736 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
4625677 TGAGAATAGC
*
4625687 TTTTAAAAAATAC
1 TTTTAAAAAATAA
* *
4625700 TGTGAAAAAATAA
1 TTTTAAAAAATAA
* *
4625713 TTTTGAAAAATAC
1 TTTTAAAAAATAA
4625726 TTTTAAAAAAT
1 TTTTAAAAAAT
4625737 TTAGTTTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (13 bp):
TTTTAAAAAATAA
Found at i:4634056 original size:17 final size:18
Alignment explanation
Indices: 4634030--4634063 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4634020 CTAATGAACA
*
4634030 AATAATCAAT-CAATACC
1 AATAAGCAATACAATACC
4634047 AATAAGCAATACAATAC
1 AATAAGCAATACAATAC
4634064 ACATGAGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAGCAATACAATACC
Found at i:4636194 original size:41 final size:42
Alignment explanation
Indices: 4636094--4636195 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 42
4636084 TCTTTAATCC
*
4636094 GCTCCACTGCAACTTCAGGGAGATAGAATTGTAGGATGTAATAT
1 GCTCCACTGCAACTTCAGGGAGATAGAATTGTA-CATG-AATAT
* * *
4636138 GCTCCATTGCAACTTCAGGGAGATAAGATTTGT-CATG-ATTT
1 GCTCCACTGCAACTTCAGGGAGAT-AGAATTGTACATGAATAT
*
4636179 GCTCTACTGCAACTTCA
1 GCTCCACTGCAACTTCA
4636196 TAGACATAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
41 18 0.35
43 3 0.06
44 23 0.45
45 7 0.14
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (42 bp):
GCTCCACTGCAACTTCAGGGAGATAGAATTGTACATGAATAT
Found at i:4636328 original size:42 final size:44
Alignment explanation
Indices: 4636240--4636346 Score: 130
Period size: 42 Copynumber: 2.5 Consensus size: 44
4636230 ATTCCACTAA
* * *
4636240 AACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTC-CTATCTTCAATCCGCTCCACTGC
*
4636285 AACTTCAGGGAGATAAGACTT-C-A-CTTCAATCCGCTCCATTGC
1 AACTTCAGGGAGATAAGA-TTCCTATCTTCAATCCGCTCCACTGC
*
4636327 AACTTCAGGGAGATAGGATT
1 AACTTCAGGGAGATAAGATT
4636347 ATTGGCTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
41 2 0.04
42 33 0.59
43 1 0.02
44 1 0.02
45 17 0.30
46 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTCCTATCTTCAATCCGCTCCACTGC
Found at i:4636387 original size:223 final size:225
Alignment explanation
Indices: 4635925--4636574 Score: 645
Period size: 223 Copynumber: 2.9 Consensus size: 225
4635915 TTTGTCCCGC
* * * * *
4635925 TGCAACTTCAGGGAGATAAGATTCACTATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
1 TGCAAATTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTGCAACTTCATAGACATAAGATCT
* *** * * ** ** * * * *
4635990 GTAACCCAT--CTTCAATCTGCTCCACTGCAATTTCAAGGAAGTGAGA-TCTGCTGTCTTCAGTC
66 GTGATTTATAACTTTAATTTATTCCACTAAAACTTCAAGGAAATAAGATTC-GCTATCTTCAGTC
* * * * ** ** *
4636052 TACTCCATTGCAACTTCAAGGG-G--AGA-CTGTTGTCTTTAATCCGCTCCACTGCAACTTCAGG
130 TAATCCACTACAACTTC-AGGGAGATAAATCACTTCACTTCAATCCGCTCCACTGCAACTTCAGG
* * *
4636113 GAGATAGAATTGTAGGATGTAATATGCTCCAT
194 GAGATAGGATTATAGGATGTAATATGCTCCAG
* * * *
4636145 TGCAACTTCAGGGAGATAAGATTTGTCATGATTTGCTCTACTGCAACTTCATAGACATAAGATCT
1 TGCAAATTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTGCAACTTCATAGACATAAGATCT
* *
4636210 GTGATTTGTAACTTTAATTTATTCCACTAAAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCT
66 GTGATTTATAACTTTAATTTATTCCACTAAAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCT
** * * *
4636275 GCTCCACTGCAACTTCAGGGAGAT-AA-GACTTCACTTCAATCCGCTCCATTGCAACTTCAGGGA
131 AATCCACTACAACTTCAGGGAGATAAATCACTTCACTTCAATCCGCTCCACTGCAACTTCAGGGA
* * * * *
4636338 GATAGGATTATTGGCTTTAATTTG-TTCAGG
196 GATAGGATTATAGGATGTAATATGCTCCA-G
* * * *
4636368 TGCAAATTCAGGGAGATAAGATTCGCCATGATCTGCTCTATTGCAATTTCATAGAGATAAGATTT
1 TGCAAATTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTGCAACTTCATAGACATAAGATCT
* * ** * * *
4636433 GTGATTTATAGCTTTAATTTGTTCCACTGCAATTTTAAGGAAATAAGATTCGCTATCTTTAGTCT
66 GTGATTTATAACTTTAATTTATTCCACTAAAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCT
*
4636498 AATCCACTACAACTTCAGGGAGATAAAACTTCACTTCACTTCAATCCACTCCACTGCAACTTCAG
131 AATCCACTACAACTTCAGGGAGAT-AAA--TCACTTCACTTCAATCCGCTCCACTGCAACTTCAG
4636563 GGAGATAGGATT
193 GGAGATAGGATT
4636575 CGCCATGATC
Statistics
Matches: 354, Mismatches: 64, Indels: 16
0.82 0.15 0.04
Matches are distributed among these distances:
220 62 0.18
221 4 0.01
222 58 0.16
223 185 0.52
225 2 0.01
228 43 0.12
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (225 bp):
TGCAAATTCAGGGAGATAAGATTCGCCATGATCTGCTCTACTGCAACTTCATAGACATAAGATCT
GTGATTTATAACTTTAATTTATTCCACTAAAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCT
AATCCACTACAACTTCAGGGAGATAAATCACTTCACTTCAATCCGCTCCACTGCAACTTCAGGGA
GATAGGATTATAGGATGTAATATGCTCCAG
Found at i:4636584 original size:184 final size:179
Alignment explanation
Indices: 4636368--4636753 Score: 540
Period size: 184 Copynumber: 2.1 Consensus size: 179
4636358 TTTGTTCAGG
* * * * *
4636368 TGCAAATTCAGGGAGATAAGATTCGCCATGATCTGCTCTATTGCAATTTCATAGAGATAAGATTT
1 TGCAACTTCAGGGAGATAGGATTCGCCATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCT
* * * * * *
4636433 GTGATTTATAGCTTTAATTTGTTCCACTGCAATTTTAAGGAAATAAGATTCGCTATCTTTAGTCT
66 GTGATTTATAGCATTAATCTATTCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTTCAATCT
4636498 AATCCACTACAACTTCAGGGAGATAAAACTTCACTTCACTTCAATC-CACTCCAC
131 AATCCACTACAACTTCAGGGAGATAAAACTTCAC-T---TT-AATCTCA-TCCAC
4636552 TGCAACTTCAGGGAGATAGGATTCGCCATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCT
1 TGCAACTTCAGGGAGATAGGATTCGCCATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCT
* *
4636617 GTGATTTATAGCATTAATCTATTTCACTGCAATTTCAGGGAAATAAGATTCGCTATCTTCAATCT
66 GTGATTTATAGCATTAATCTATTCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTTCAATCT
* * * * *
4636682 ACTCCACTGCAATTTCAGGGAGATAAGACTTCACTTTAATCTGATCCAC
131 AATCCACTACAACTTCAGGGAGATAAAACTTCACTTTAATCTCATCCAC
*
4636731 TGCAACTTTAGGGAGATAGGATT
1 TGCAACTTCAGGGAGATAGGATT
4636754 ATTGGCTTTA
Statistics
Matches: 182, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
179 31 0.17
180 3 0.02
183 1 0.01
184 147 0.81
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (179 bp):
TGCAACTTCAGGGAGATAGGATTCGCCATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCT
GTGATTTATAGCATTAATCTATTCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTTCAATCT
AATCCACTACAACTTCAGGGAGATAAAACTTCACTTTAATCTCATCCAC
Found at i:4636645 original size:92 final size:91
Alignment explanation
Indices: 4636368--4636669 Score: 270
Period size: 92 Copynumber: 3.3 Consensus size: 91
4636358 TTTGTTCAGG
* * * * *
4636368 TGCAAATTCAGGGAGATAAGATTCGCCATGATCTGCTCTATTGCAATTTCATAGAGATAAGATTT
1 TGCAATTTCAGGGAAATAAGATTCGCCATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCT
* *
4636433 GTGATTTATAGCTTTAATTTGTTCCAC
66 GTGATTTATAGC-TTAATCTATTCCAC
* * * * ** * * * *
4636460 TGCAATTTTAAGGAAATAAGATTCGCTATCTTTAGTCTAATCCACTACAACTTCAGGGAGATAA-
1 TGCAATTTCAGGGAAATAAGATTCGC---CATGA-TCTGCTCTATTGCAACTTCAGAGAGATAAG
* * * * * *
4636524 AACT-TCACTT-CA-CTTCAATCCACTCCAC
62 ATCTGTGATTTATAGCTT-AATCTATTCCAC
* * *
4636552 TGCAACTTCAGGGAGATAGGATTCGCCATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCT
1 TGCAATTTCAGGGAAATAAGATTCGCCATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCT
*
4636617 GTGATTTATAGCATTAATCTATTTCAC
66 GTGATTTATAGC-TTAATCTATTCCAC
4636644 TGCAATTTCAGGGAAATAAGATTCGC
1 TGCAATTTCAGGGAAATAAGATTCGC
4636670 TATCTTCAAT
Statistics
Matches: 154, Mismatches: 46, Indels: 20
0.70 0.21 0.09
Matches are distributed among these distances:
88 23 0.15
89 6 0.04
90 4 0.03
91 3 0.02
92 85 0.55
93 3 0.02
94 4 0.03
95 5 0.03
96 21 0.14
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (91 bp):
TGCAATTTCAGGGAAATAAGATTCGCCATGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCT
GTGATTTATAGCTTAATCTATTCCAC
Found at i:4636661 original size:407 final size:402
Alignment explanation
Indices: 4636139--4636976 Score: 1192
Period size: 407 Copynumber: 2.1 Consensus size: 402
4636129 ATGTAATATG
* * * * * *
4636139 CTCCATTGCAACTTCAGGGAGATAAGATTTGTCATGATTTGCTCTACTGCAACTTCATAGACATA
1 CTCCACTGCAACTTCAGGGAGATAGGATTCGCCATGATCTGCTCTACTGCAACTTCAGAGACATA
* * *
4636204 AGATCTGTGATTTGTAACTTTAATTTATTCCACTAAAACTTCAGGGAAATAAGATTCGCTATCTT
66 AGATCTGTGATTTATAACATTAATCTATTCCACTAAAACTTCAGGGAAATAAGATTCGCTATCTT
* * * *
4636269 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCCGCTCCATTGCAACTTCA
131 CAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCCGATCCACTGCAACTTCA
* * *
4636334 GGGAGATAGGATTATTGGCTTTAATTTG-TTCAGGTGCAAATTCAGGGAGATAAGATTCGCCATG
196 GGGAGATAGGATTATTGGCTTTAATCTGCTCCA-CTGCAAATTCAGGGAGATAAGATTCGCCATG
* * * * * *
4636398 ATCTGCTCTATTGCAATTTCATAGAGATAAGATTTGTGATTTATAGCTTTAATTTGTTCCACTGC
260 ATCTACTCTACTACAACTTCAGAGAGATAAGATTTGTGATTTATAGCTTTAATCTGTTCCACTGC
* * *
4636463 AATTTTAAGGAAATAAGATTCGCTATCTTTAGTCTAATCCACTACAACTTCAGGGAGATAAAACT
325 AATTTCAAAGAAATAAGATTCGCTATCTTCAGTCTAATCCACTACAACTTCAGGGAGAT--AA--
4636528 TCACTTCACTTCAATCCA
386 -CACTTCACTTCAATCCA
* *
4636546 CTCCACTGCAACTTCAGGGAGATAGGATTCGCCATGATCTGCTCTATTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAGGATTCGCCATGATCTGCTCTACTGCAACTTCAGAGACATA
* * ** *
4636611 AGATCTGTGATTTATAGCATTAATCTATTTCACTGCAATTTCAGGGAAATAAGATTCGCTATCTT
66 AGATCTGTGATTTATAACATTAATCTATTCCACTAAAACTTCAGGGAAATAAGATTCGCTATCTT
* * * *
4636676 CAATCTACTCCACTGCAATTTCAGGGAGATAAGACTTCACTTTAATCTGATCCACTGCAACTTTA
131 CAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCCGATCCACTGCAACTTCA
* * *
4636741 GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTCTCCATGA
196 GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAAATTCAGGGAGATAAGATTCGCCATGA
*
4636806 TCTACTCTACTACAACTTCAGAGAGATAATATTTGTGATTTATAGCTTTAATCTGTTCCACTGCA
261 TCTACTCTACTACAACTTCAGAGAGATAAGATTTGTGATTTATAGCTTTAATCTGTTCCACTGCA
* ** * *
4636871 ATTTCAAAGAAATAAGATTCGGTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
326 ATTTCAAAGAAATAAGATTCGCTATCTTCAGTCTAATCCACTACAACTTCAGGGAGATAACACTT
4636936 CACTTCAATCCA
391 CACTTCAATCCA
* *
4636948 CTCTACTGCAACTTCAGGGATATAGGATT
1 CTCCACTGCAACTTCAGGGAGATAGGATT
4636977 ATTGGCTCTA
Statistics
Matches: 383, Mismatches: 47, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
402 43 0.11
405 2 0.01
407 335 0.87
408 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (402 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTCGCCATGATCTGCTCTACTGCAACTTCAGAGACATA
AGATCTGTGATTTATAACATTAATCTATTCCACTAAAACTTCAGGGAAATAAGATTCGCTATCTT
CAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCCGATCCACTGCAACTTCA
GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAAATTCAGGGAGATAAGATTCGCCATGA
TCTACTCTACTACAACTTCAGAGAGATAAGATTTGTGATTTATAGCTTTAATCTGTTCCACTGCA
ATTTCAAAGAAATAAGATTCGCTATCTTCAGTCTAATCCACTACAACTTCAGGGAGATAACACTT
CACTTCAATCCA
Found at i:4636744 original size:42 final size:43
Alignment explanation
Indices: 4636684--4636796 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 43
4636674 TTCAATCTAC
*
4636684 TCCACTGCAA-TTTCAGGGAGATAAGA-CTTCACTTTAATCTGA
1 TCCACTGCAACTTT-AGGGAGATAAGATATTCACTTTAATCTGA
* ** *
4636726 TCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGC
1 TCCACTGCAACTTTAGGGAGATAAGA-TATTCACTTTAATCTGA
* *
4636770 TCCACTGTAACTTCAGGGAGATAAGAT
1 TCCACTGCAACTTTAGGGAGATAAGAT
4636797 TCTCCATGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 21 0.35
43 4 0.07
44 35 0.58
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (43 bp):
TCCACTGCAACTTTAGGGAGATAAGATATTCACTTTAATCTGA
Found at i:4637143 original size:224 final size:223
Alignment explanation
Indices: 4636546--4637250 Score: 1000
Period size: 223 Copynumber: 3.2 Consensus size: 223
4636536 CTTCAATCCA
* * * *
4636546 CTCCACTGCAACTTCAGGGAGATAGGATTCGCCATGATCTGCTCTATTGCAACTTCAGAGAGATA
1 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTAATGCAACTTCAGAGAGATA
* *
4636611 AGATCTGTGATTTATAGCATTAATCTATTTCACTGCAATTTCAGGGAAATAAGATTCGCTATCTT
66 AGATTTGTGATTTATAGCTTTAATCTATTTCACTGCAATTTCAGGGAAATAAGATTCGCTATCTT
* * * * *
4636676 CAATCTACTCCACTGCAATTTCAGGGAGATAAGACTTCACTTTAATCTGA-TCCACTGCAACTTT
131 CAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATC-CACTCCACTGCAACTTC
4636740 AGGGAGATAGGATTATTGGCTTTAATCTG
195 AGGGAGATAGGATTATTGGCTTTAATCTG
** * * *
4636769 CTCCACTGTAACTTCAGGGAGATAAGATTCT-CCATGATCTACTCTACTACAACTTCAGAGAGAT
1 CTCCACTACAACTTCAGGGAGATAAGATT-TGCCATGATCTGCTCTAATGCAACTTCAGAGAGAT
* * * ** *
4636833 AATATTTGTGATTTATAGCTTTAATCTGTTCCACTGCAATTTCAAAGAAATAAGATTCGGTATCT
65 AAGATTTGTGATTTATAGCTTTAATCTATTTCACTGCAATTTCAGGGAAATAAGATTCGCTATCT
* *
4636898 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCCACTCTACTGCAACTTC
130 TCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCCACTCCACTGCAACTTC
* *
4636963 AGGGATATAGGATTATTGGCTCTAATCTG
195 AGGGAGATAGGATTATTGGCTTTAATCTG
* * * * *
4636992 CTCCATTACAACTTTAGGGAGATAAGATTTGTCATGAAACTGTTCTAATGCAACTTCAGAGAGAT
1 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATG-ATCTGCTCTAATGCAACTTCAGAGAGAT
* * *
4637057 AAGATTTGTGATTTATAGCTTTAATCTATTTCATTGTAACTTCAGGGAAATAAGATTCGCTATCT
65 AAGATTTGTGATTTATAGCTTTAATCTATTTCACTGCAATTTCAGGGAAATAAGATTCGCTATCT
* * * **
4637122 TCAGTCTACTCCATTGCAACTTTAGGGAGATAAGACTTCACTTCAATCCGCTCCACTAAAACTTC
130 TCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCCACTCCACTGCAACTTC
*
4637187 AGGGAGATAGAATTATTGGCTTTAATCTG
195 AGGGAGATAGGATTATTGGCTTTAATCTG
*
4637216 CTCCACTACAACTTCAGGGAGATAAGATTCGCCAT
1 CTCCACTACAACTTCAGGGAGATAAGATTTGCCAT
4637251 CTTCTTCAAT
Statistics
Matches: 422, Mismatches: 56, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
222 2 0.00
223 226 0.54
224 194 0.46
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (223 bp):
CTCCACTACAACTTCAGGGAGATAAGATTTGCCATGATCTGCTCTAATGCAACTTCAGAGAGATA
AGATTTGTGATTTATAGCTTTAATCTATTTCACTGCAATTTCAGGGAAATAAGATTCGCTATCTT
CAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTCACTTCAATCCACTCCACTGCAACTTCA
GGGAGATAGGATTATTGGCTTTAATCTG
Found at i:4638537 original size:49 final size:45
Alignment explanation
Indices: 4638473--4638599 Score: 155
Period size: 45 Copynumber: 2.7 Consensus size: 45
4638463 CCCCTTTCTT
* *
4638473 CTCAAGGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTTTTTTTTTAGGA
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGG----TTTCTTTTTAGGA
* * *
4638522 CTCAAAGCGCTCTTTGTGAGTTTTCACCTTGGTTTCTTTTTAGGA
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTTTCTTTTTAGGA
* *
4638567 CTTAAAGCACCCTTTGCGGGTTTTCACCTTGGT
1 CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGT
4638600 CCCTTCTCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 40 0.59
49 28 0.41
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.41
Consensus pattern (45 bp):
CTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTTTCTTTTTAGGA
Found at i:4639613 original size:11 final size:11
Alignment explanation
Indices: 4639561--4639613 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
4639551 GGCCTCTCCT
*
4639561 TTTTCTTTTCC
1 TTTTCTTTTCA
*
4639572 TTTTCTTTTCT
1 TTTTCTTTTCA
**
4639583 TTTTC-CATCA
1 TTTTCTTTTCA
4639593 TTTTCATTTTCA
1 TTTTC-TTTTCA
4639605 TTTTCTTTT
1 TTTTCTTTT
4639614 TAAAATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.56
12 8 0.24
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTCTTTTCA
Found at i:4644407 original size:17 final size:18
Alignment explanation
Indices: 4644381--4644414 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4644371 CTAATGAACA
*
4644381 AATAATCAAT-CAATACC
1 AATAAGCAATACAATACC
4644398 AATAAGCAATACAATAC
1 AATAAGCAATACAATAC
4644415 ACATGAGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAGCAATACAATACC
Found at i:4644928 original size:21 final size:21
Alignment explanation
Indices: 4644890--4644929 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4644880 ATAAGAGTGA
* *
4644890 TAATTAATAATAATAATAAAT
1 TAATTAATAACAAAAATAAAT
*
4644911 TAATTAATAGCAAAAATAA
1 TAATTAATAACAAAAATAA
4644930 CAAACAGGAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
TAATTAATAACAAAAATAAAT
Found at i:4646787 original size:11 final size:12
Alignment explanation
Indices: 4646756--4646806 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 12
4646746 TAGCTTTTGG
4646756 TTTTTCTCTTTAC
1 TTTTTCT-TTTAC
4646769 TTTCTTCTTTTA-
1 TTT-TTCTTTTAC
4646781 TTTTTCTTTT--
1 TTTTTCTTTTAC
*
4646791 TGTTTCTTTTAC
1 TTTTTCTTTTAC
4646803 TTTT
1 TTTT
4646807 GCTACCGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 9 0.27
11 7 0.21
12 6 0.18
13 7 0.21
14 4 0.12
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTTAC
Found at i:4654619 original size:15 final size:16
Alignment explanation
Indices: 4654593--4654622 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4654583 ACGTGATGAA
4654593 AAATTGAAAAAAAATT
1 AAATTGAAAAAAAATT
4654609 AAATT-AAAAAAAAT
1 AAATTGAAAAAAAAT
4654623 AAGAAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATTGAAAAAAAATT
Found at i:4660695 original size:28 final size:28
Alignment explanation
Indices: 4660655--4660711 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
4660645 ATGCACAATC
4660655 TTGCTATGGCTTTGCCAAAAGAGTTCGA
1 TTGCTATGGCTTTGCCAAAAGAGTTCGA
4660683 TTGCTATGGCTTTGCCAAAAGAGTTCGA
1 TTGCTATGGCTTTGCCAAAAGAGTTCGA
4660711 T
1 T
4660712 CTCATGGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (28 bp):
TTGCTATGGCTTTGCCAAAAGAGTTCGA
Found at i:4666208 original size:26 final size:27
Alignment explanation
Indices: 4666120--4666207 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
4666110 GGGGTATATA
4666120 GTCATTTTACCATTC-GGAGGTATTTCG
1 GTCATTTTACCATTCAGGA-GTATTTCG
* * *
4666147 ATCATTTTACCCTTCGAGG-GTATTTCT
1 GTCATTTTACCATTC-AGGAGTATTTCG
*
4666174 GTCATTTTACCTTTCAGGAGTATTTCG
1 GTCATTTTACCATTCAGGAGTATTTCG
4666201 GTCATTT
1 GTCATTT
4666208 AACAACCTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
26 3 0.06
27 47 0.90
29 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCATTCAGGAGTATTTCG
Found at i:4672161 original size:22 final size:23
Alignment explanation
Indices: 4672130--4672173 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4672120 TAAAAGCTAT
4672130 TTATAAAATCAAATC-TCTAAGA
1 TTATAAAATCAAATCTTCTAAGA
* *
4672152 TTATAGAATCATATCTTCTAAG
1 TTATAAAATCAAATCTTCTAAG
4672174 GTTACAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (23 bp):
TTATAAAATCAAATCTTCTAAGA
Found at i:4675221 original size:72 final size:72
Alignment explanation
Indices: 4675104--4675264 Score: 218
Period size: 72 Copynumber: 2.2 Consensus size: 72
4675094 TTAGTGATGT
* *
4675104 TTTTTAA-AAAGCG-CTGCAAAAAACCTAAGCCCAACGATGCTGTTTTCTAAGCTTTCAGGGATT
1 TTTTTAAGAAAGCGTC-GCAAAAAACCTAAGCCCAACAATGCCGTTTTCTAAGCTTTCAGGGATT
4675167 TAGCGGCG
65 TAGCGGCG
* * * * *
4675175 TTTTTGAGAAAGCGTCGCAAAAAACTTAAGCCCAACAATGCCGTTTTGTGAGCTTTCGGGGATTT
1 TTTTTAAGAAAGCGTCGCAAAAAACCTAAGCCCAACAATGCCGTTTTCTAAGCTTTCAGGGATTT
* *
4675240 AGTGGCA
66 AGCGGCG
4675247 TTTTTAAGAAAGCGTCGC
1 TTTTTAAGAAAGCGTCGC
4675265 TAATGCTCAG
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
71 6 0.08
72 71 0.91
73 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (72 bp):
TTTTTAAGAAAGCGTCGCAAAAAACCTAAGCCCAACAATGCCGTTTTCTAAGCTTTCAGGGATTT
AGCGGCG
Found at i:4675308 original size:113 final size:114
Alignment explanation
Indices: 4675158--4675374 Score: 328
Period size: 114 Copynumber: 1.9 Consensus size: 114
4675148 TTCTAAGCTT
* * * * *
4675158 TCAGGGATTTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAACTTAAGCC-CAACAATGCCGTTTT
1 TCAGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAACAATGCCGTTTT
*
4675222 GTGAGCTTTCGGGGATTTAGTGGCATTTTTAAGAAAGCGTCGCTAATGC
66 GTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGC
* *
4675271 TCAGGGCTTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAATAATGCCGTTTT
1 TCAGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAACAATGCCGTTTT
* * *
4675336 GTGAGCTTTCGGGGATTTTGCGGCGTTTTTAAGGAAGCG
66 GTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCG
4675375 CCGCAAAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 44 0.48
114 48 0.52
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (114 bp):
TCAGGGATTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAACAATGCCGTTTT
GTGAGCTTTCGGGGATTTAGCGGCATTTTTAAGAAAGCGTCGCTAATGC
Found at i:4675405 original size:73 final size:73
Alignment explanation
Indices: 4675278--4675437 Score: 230
Period size: 73 Copynumber: 2.2 Consensus size: 73
4675268 TGCTCAGGGC
* * * *
4675278 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAATAATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAACCAAAACAACGCCGTTTTGTGAGCT
*
4675343 TTCGGGGA
66 TTCGGAGA
* * * * *
4675351 TTTTGCGGCGTTTTTAAGGAAGCGCCGCAAAAAACTTAAGCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAACCAAAACAACGCCGTTTTGTGAGCT
4675416 TTCGGAGA
66 TTCGGAGA
4675424 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
4675438 ATTAAAAACG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAACCAAAACAACGCCGTTTTGTGAGCT
TTCGGAGA
Found at i:4675468 original size:187 final size:187
Alignment explanation
Indices: 4675102--4675888 Score: 963
Period size: 187 Copynumber: 4.2 Consensus size: 187
4675092 CATTAGTGAT
* * * * * * * * *
4675102 GTTTTTTAAAAAGCGCTGCAAAAAACCTAAGCC-CAACGATGCTGTTTTCTAAGCTTTCAGGGAT
1 GTTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAACAATGCCGTTTTGTGAGCTTTCAGGGAT
* * * * * *
4675166 TTAGCGGCGTTTTTGAGAAAGCGTCGCAAAAAACTTAAGCC-CAACAATGCCGTTTTGTGAGCTT
66 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCTT
* * * *
4675230 TCGGGGATTTAGTGGCATTTTTAAGAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGC
131 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGC
* * *
4675287 ATTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAATAATGCCGTTTTGTGAGCTTTCGGGGAT
1 GTTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAACAATGCCGTTTTGTGAGCTTTCAGGGAT
* * *
4675352 TTTGCGGCGTTTTTAAGGAAGCGCCGCAAAAAACTTAAGCCAAAACGACGCCGTTTTGTGAGCTT
66 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCTT
*
4675417 TCGGAGATTTAGCGGCGTTTTATTAA-AAA-CGCCGCTAATGCTCAAGGCTTTAGCGGC
131 TCGGGGATTTAGCGGCG-TTT-TTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGC
* * * *
4675474 TTTTTTGAGAAAGCGCTGCAAAAAACCT-AAGCAAAAAAGATGCCGTTTTGTGAGCTTTCAGGGA
1 GTTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAACA-ATGCCGTTTTGTGAGCTTTCAGGGA
* * * * * *
4675538 TTTAGCGGCGTTGTTGAGAAAGCGCCACAAAAAACCTAAGCCAAAAAGACGCTGTTTTGTGAGCC
65 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
* *
4675603 TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAAGGATTTAGCGGC
130 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGC
* * * ** *
4675661 GTTTTTGAGAAAACGCCGCAAAAAACCTAAGCCAAAACAACGATGTTTTGTGAGCTTTCGGGGAT
1 GTTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAACAATGCCGTTTTGTGAGCTTTCAGGGAT
* * * *
4675726 TTAGCGGCGTTTTTATGGAAGCGCCGCTAATACGCTGCAAAAAACCTAAGCCAAAACGATGCCAT
66 TTAGCGGCGTTTTTA-AGAA-AG-CG------C-C-GCAAAAAACCTAAGCCAAAACGACGCCGT
* *
4675791 TTTGTGAGCTTTCGGGGTTTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGC
120 TTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGC
4675856 GGC
185 GGC
4675859 GTTTTTGAGAAAGCGCCGCAAAAAACCTAA
1 GTTTTTGAGAAAGCGCCGCAAAAAACCTAA
4675889 GCGCTTTCGG
Statistics
Matches: 517, Mismatches: 66, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
185 32 0.06
186 74 0.14
187 270 0.52
188 16 0.03
189 5 0.01
190 2 0.00
196 1 0.00
197 1 0.00
198 116 0.22
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (187 bp):
GTTTTTGAGAAAGCGCCGCAAAAAACCTAAACCAAAACAATGCCGTTTTGTGAGCTTTCAGGGAT
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGC
Found at i:4675584 original size:73 final size:73
Alignment explanation
Indices: 4675465--4675636 Score: 245
Period size: 73 Copynumber: 2.4 Consensus size: 73
4675455 TGCTCAAGGC
* ** * *
4675465 TTTAGCGGCTTTTTTGAGAAAGCGCTGCAAAAAACCTAAGCAAAAAAGATGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAACCTAAGCAAAAAAGACGCCGTTTTGTGAGCC
4675530 TTCAGGGA
66 TTCAGGGA
* * *
4675538 TTTAGCGGCGTTGTTGAGAAAGCGCCACAAAAAACCTAAGCCAAAAAGACGCTGTTTTGTGAGCC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAACCTAAGCAAAAAAGACGCCGTTTTGTGAGCC
*
4675603 TTCGGGGA
66 TTCAGGGA
* *
4675611 TTTAGCGGCGTTTTTAAGTAAGCGCC
1 TTTAGCGGCGTTTTTGAGAAAGCGCC
4675637 GCTAATGCTC
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAACCTAAGCAAAAAAGACGCCGTTTTGTGAGCC
TTCAGGGA
Found at i:4675735 original size:114 final size:114
Alignment explanation
Indices: 4675535--4675756 Score: 365
Period size: 114 Copynumber: 1.9 Consensus size: 114
4675525 GAGCTTTCAG
* *
4675535 GGATTTAGCGGCGTTGTTGAGAAAGCGCCACAAAAAACCTAAGCCAAAAAGACGCTGTTTTGTGA
1 GGATTTAGCGGCGTTGTTGAGAAAACGCCACAAAAAACCTAAGCCAAAAAGACGATGTTTTGTGA
*
4675600 GCCTTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAA
66 GCCTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAA
* *
4675649 GGATTTAGCGGCGTTTTTGAGAAAACGCCGCAAAAAACCTAAGCCAAAACA-ACGATGTTTTGTG
1 GGATTTAGCGGCGTTGTTGAGAAAACGCCACAAAAAACCTAAGCCAAAA-AGACGATGTTTTGTG
* *
4675713 AGCTTTCGGGGATTTAGCGGCGTTTTTATGGAAGCGCCGCTAAT
65 AGCCTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAAT
4675757 ACGCTGCAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
114 99 0.99
115 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (114 bp):
GGATTTAGCGGCGTTGTTGAGAAAACGCCACAAAAAACCTAAGCCAAAAAGACGATGTTTTGTGA
GCCTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAA
Found at i:4675777 original size:84 final size:84
Alignment explanation
Indices: 4675673--4675840 Score: 255
Period size: 84 Copynumber: 2.0 Consensus size: 84
4675663 TTTTGAGAAA
**
4675673 ACGCCGCAAAAAACCTAAGCCAAAACAACGATGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTT
1 ACGCCGCAAAAAACCTAAGCCAAAACAACGACATTTTGTGAGCTTTCGGGGATTTAGCGGCGTTT
* *
4675738 TTATGGAAGCGCCGCTAAT
66 TTAAGAAAGCGCCGCTAAT
* * * * *
4675757 ACGCTGCAAAAAACCTAAGCCAAAACGATGCCATTTTGTGAGCTTTCGGGGTTTTAGCGGCGTTT
1 ACGCCGCAAAAAACCTAAGCCAAAACAACGACATTTTGTGAGCTTTCGGGGATTTAGCGGCGTTT
4675822 TTAAGAAAGCGCCGCTAAT
66 TTAAGAAAGCGCCGCTAAT
4675841 GCTCAGGGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (84 bp):
ACGCCGCAAAAAACCTAAGCCAAAACAACGACATTTTGTGAGCTTTCGGGGATTTAGCGGCGTTT
TTAAGAAAGCGCCGCTAAT
Found at i:4676224 original size:21 final size:21
Alignment explanation
Indices: 4676193--4676254 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
4676183 TGTTTATAGA
*
4676193 TTATGGGTTTAGGGGTTATGGT
1 TTAT-GGTTTAGAGGTTATGGT
* **
4676215 TTATGGTTTAAAGGTTGGGGT
1 TTATGGTTTAGAGGTTATGGT
*
4676236 TTAAGGTTTAGAGGTTATG
1 TTATGGTTTAGAGGTTATG
4676255 TGCATGTCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (21 bp):
TTATGGTTTAGAGGTTATGGT
Found at i:4676291 original size:21 final size:20
Alignment explanation
Indices: 4676266--4676307 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
4676256 GCATGTCAAG
4676266 GGTTTATGGTTTTAGGGTTTA
1 GGTTTATGGTTTT-GGGTTTA
4676287 GGTTTATGGTTTTGGGTTTA
1 GGTTTATGGTTTTGGGTTTA
4676307 G
1 G
4676308 ATTAACTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (20 bp):
GGTTTATGGTTTTGGGTTTA
Found at i:4676596 original size:21 final size:20
Alignment explanation
Indices: 4676572--4676644 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 20
4676562 TAGGGTTTAT
* *
4676572 GGTTTAAGGGTTGAGATTTAA
1 GGTTTAGGGGTT-AGAGTTAA
4676593 GGTTTAGGGGTTAGTAGTTAA
1 GGTTTAGGGGTTAG-AGTTAA
*
4676614 GGGTTAGGGGTTAAGAGTTAA
1 GGTTTAGGGGTT-AGAGTTAA
4676635 GGATTTAGGG
1 GG-TTTAGGG
4676645 ATTTAAGGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
20 2 0.04
21 35 0.78
22 8 0.18
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.34
Consensus pattern (20 bp):
GGTTTAGGGGTTAGAGTTAA
Found at i:4678846 original size:18 final size:17
Alignment explanation
Indices: 4678823--4678855 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4678813 GTTTATTTTA
4678823 AATTTTTTGTACATATT
1 AATTTTTTGTACATATT
4678840 AATTTTTTGTACATAT
1 AATTTTTTGTACATAT
4678856 AAAGTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (17 bp):
AATTTTTTGTACATATT
Found at i:4678888 original size:64 final size:64
Alignment explanation
Indices: 4678814--4678970 Score: 314
Period size: 64 Copynumber: 2.5 Consensus size: 64
4678804 ATTGATGTGG
4678814 TTTATTTTAAATTTTTTGTACATATTAATTTTTTGTACATATAAAGTAGGTTGAATATCTAGAC
1 TTTATTTTAAATTTTTTGTACATATTAATTTTTTGTACATATAAAGTAGGTTGAATATCTAGAC
4678878 TTTATTTTAAATTTTTTGTACATATTAATTTTTTGTACATATAAAGTAGGTTGAATATCTAGAC
1 TTTATTTTAAATTTTTTGTACATATTAATTTTTTGTACATATAAAGTAGGTTGAATATCTAGAC
4678942 TTTATTTTAAATTTTTTGTACATATTAAT
1 TTTATTTTAAATTTTTTGTACATATTAAT
4678971 ATTATTAAAC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 93 1.00
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (64 bp):
TTTATTTTAAATTTTTTGTACATATTAATTTTTTGTACATATAAAGTAGGTTGAATATCTAGAC
Found at i:4678910 original size:18 final size:17
Alignment explanation
Indices: 4678887--4678919 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4678877 CTTTATTTTA
4678887 AATTTTTTGTACATATT
1 AATTTTTTGTACATATT
4678904 AATTTTTTGTACATAT
1 AATTTTTTGTACATAT
4678920 AAAGTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (17 bp):
AATTTTTTGTACATATT
Found at i:4679754 original size:43 final size:43
Alignment explanation
Indices: 4679690--4679936 Score: 119
Period size: 43 Copynumber: 5.8 Consensus size: 43
4679680 TCATTCTTTA
* * * *
4679690 TAGCGGCGTTT-TCGGTAGAAGCGTTGGTAAAGGTCATGACCTT
1 TAGCGGCGTTTGT-GGTAGAAGCGTCGCTAAAGGCCACGACCTT
*
4679733 TAGCGGCGTTTGTGG-ATGAAGCGTCGCTAAAGGCCACGATCTT
1 TAGCGGCGTTTGTGGTA-GAAGCGTCGCTAAAGGCCACGACCTT
* * * * * * **
4679776 TAGCTGCATTTGTGGGAGAGGCG-CTACTAAAGGCCATGATGTT
1 TAGCGGCGTTTGTGGTAGAAGCGTC-GCTAAAGGCCACGACCTT
* * * * * * *
4679819 TAGCGGTGTTTGT-GTAAAAGCGCCGCTAGAGGTCC-TGATCTA
1 TAGCGGCGTTTGTGGTAGAAGCGTCGCTAAAGG-CCACGACCTT
* * * * * * * *
4679861 TAGCGACGTTTATGGAAAAAGCGCCGCTAAAGG-TACTGATCTA
1 TAGCGGCGTTTGTGGTAGAAGCGTCGCTAAAGGCCAC-GACCTT
* * * *
4679904 TAGCGGTGTTTGTGGGAGATGCGCCGCTAAAGG
1 TAGCGGCGTTTGTGGTAGAAGCGTCGCTAAAGG
4679937 TCATGATCTA
Statistics
Matches: 161, Mismatches: 34, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
42 29 0.18
43 130 0.81
44 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGTAGAAGCGTCGCTAAAGGCCACGACCTT
Found at i:4679937 original size:43 final size:44
Alignment explanation
Indices: 4679717--4679949 Score: 176
Period size: 43 Copynumber: 5.5 Consensus size: 44
4679707 GAAGCGTTGG
* * * * *
4679717 TAAAGGT-CATGACCTTTAGCGGCGTTTGT-GGATGAAGCGTCGC
1 TAAAGGTCCATGATCTATAGCGGTGTTTGTGGGA-AAAGCGCCGC
* * * ** * * **
4679760 TAAAGG-CCACGATCTTTAGCTGCATTTGTGGGAGAGGCGCTAC
1 TAAAGGTCCATGATCTATAGCGGTGTTTGTGGGAAAAGCGCCGC
* * *
4679803 TAAAGG-CCATGATGTTTAGCGGTGTTTGT-GTAAAAGCGCCGC
1 TAAAGGTCCATGATCTATAGCGGTGTTTGTGGGAAAAGCGCCGC
* ** * *
4679845 TAGAGGTCC-TGATCTATAGCGACGTTTATGGAAAAAGCGCCGC
1 TAAAGGTCCATGATCTATAGCGGTGTTTGTGGGAAAAGCGCCGC
* * *
4679888 TAAAGGTAC-TGATCTATAGCGGTGTTTGTGGGAGATGCGCCGC
1 TAAAGGTCCATGATCTATAGCGGTGTTTGTGGGAAAAGCGCCGC
4679931 TAAAGGT-CATGATCTATAG
1 TAAAGGTCCATGATCTATAG
4679950 TGGCGTTTAT
Statistics
Matches: 152, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
42 29 0.19
43 120 0.79
44 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (44 bp):
TAAAGGTCCATGATCTATAGCGGTGTTTGTGGGAAAAGCGCCGC
Found at i:4687898 original size:16 final size:15
Alignment explanation
Indices: 4687868--4687915 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
4687858 ACCTGAAAAG
*
4687868 AAAATAAAGAAATAA
1 AAAATAAATAAATAA
4687883 AAAATAAATTAAATAA
1 AAAATAAA-TAAATAA
4687899 GAATAA-AAATAAATAA
1 -AA-AATAAATAAATAA
4687915 A
1 A
4687916 CCAAATTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 9 0.31
16 13 0.45
17 5 0.17
18 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (15 bp):
AAAATAAATAAATAA
Found at i:4690784 original size:41 final size:41
Alignment explanation
Indices: 4690739--4690835 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
4690729 CAGAACACTA
* *** *
4690739 GCATTAAGTCTGCTAGACATAAAGTTTGAAATATTTCGCCG
1 GCATTAAGCCTGCTAGACATAAAGTCCAAAATATTTCACCG
*
4690780 GCATTAAGCCTGCTAGACGTAAAGTCCAAAATATTTCACCG
1 GCATTAAGCCTGCTAGACATAAAGTCCAAAATATTTCACCG
4690821 GCATTAAGCCTGCTA
1 GCATTAAGCCTGCTA
4690836 AGCATAGAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (41 bp):
GCATTAAGCCTGCTAGACATAAAGTCCAAAATATTTCACCG
Found at i:4691031 original size:30 final size:30
Alignment explanation
Indices: 4690995--4691058 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
4690985 TGATTCATAA
4690995 TATTAAATTCAACTCAAGAAACTCAAATCC
1 TATTAAATTCAACTCAAGAAACTCAAATCC
*
4691025 TATTAAATTCAACTTAAGAAACTCAAATCC
1 TATTAAATTCAACTCAAGAAACTCAAATCC
4691055 TATT
1 TATT
4691059 TTTGATCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.31
Consensus pattern (30 bp):
TATTAAATTCAACTCAAGAAACTCAAATCC
Found at i:4691260 original size:65 final size:61
Alignment explanation
Indices: 4691077--4691263 Score: 148
Period size: 65 Copynumber: 3.0 Consensus size: 61
4691067 ACATGTATAA
* * * *
4691077 TTATATAT-AA-TTACTAACATTAAGTTCAGCTCAAAGAAACTTGTAGCT-TACATTCGAACCTC
1 TTATATATAAATTTA-TAACATTAAGTTAAACTCAAAG-AA-TTGTA-TTATACATTCGAACCAC
* * * * * **
4691139 TTATATATATATTTCATAACATTACA-TTGAATTCAAAGACATTGCATCATTTATTCGAACCAC
1 TTATATATAAATTT-ATAACATTA-AGTTAAACTCAAAGA-ATTGTATTATACATTCGAACCAC
4691202 ATATATATATACAATTTATAACATTAAGTTAAACTCAAAGAATTTGTATTATACATTCGAAC
1 -T-TATATATA-AATTTATAACATTAAGTTAAACTCAAAGAA-TTGTATTATACATTCGAAC
4691264 ATAATCATAT
Statistics
Matches: 97, Mismatches: 17, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
62 8 0.08
63 17 0.18
64 23 0.24
65 45 0.46
66 4 0.04
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.36
Consensus pattern (61 bp):
TTATATATAAATTTATAACATTAAGTTAAACTCAAAGAATTGTATTATACATTCGAACCAC
Found at i:4699263 original size:41 final size:41
Alignment explanation
Indices: 4699218--4699314 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
4699208 AGAACACTAG
* **
4699218 CATTAAGTCTGCTAGACATAAAGTCTGAAATATTTCACCGA
1 CATTAAGCCTGCTAGACATAAAGTCCAAAATATTTCACCGA
* * *
4699259 CATTAAGCCTGCTAGACGTAAAGTCCAAAATATTTTACCGG
1 CATTAAGCCTGCTAGACATAAAGTCCAAAATATTTCACCGA
4699300 CATTAAGCCTGCTAG
1 CATTAAGCCTGCTAG
4699315 GCACAGAGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (41 bp):
CATTAAGCCTGCTAGACATAAAGTCCAAAATATTTCACCGA
Found at i:4706500 original size:15 final size:15
Alignment explanation
Indices: 4706480--4706510 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4706470 GCTCTATAAA
*
4706480 TATTACAGAACTATT
1 TATTACAGAACAATT
4706495 TATTACAGAACAATT
1 TATTACAGAACAATT
4706510 T
1 T
4706511 CTCTCAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
TATTACAGAACAATT
Found at i:4706582 original size:27 final size:27
Alignment explanation
Indices: 4706519--4706582 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
4706509 TTCTCTCAAT
* * *
4706519 GTTCGTCATATGCACTATTTCTTTAGA
1 GTTCGTCATATGCACCATTCCTTCAGA
* *
4706546 GTTCGCCATATGTACCATTCCTTCAGA
1 GTTCGTCATATGCACCATTCCTTCAGA
*
4706573 GTTCATCATA
1 GTTCGTCATA
4706583 CCATTTAGTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (27 bp):
GTTCGTCATATGCACCATTCCTTCAGA
Found at i:4706815 original size:26 final size:26
Alignment explanation
Indices: 4706749--4706859 Score: 91
Period size: 26 Copynumber: 4.2 Consensus size: 26
4706739 TAGATCACCG
* *
4706749 CAAAGGCTTCCATTTCA-TTAATTGCCA
1 CAAAGGCTTTCATTTCAGAT-A-TGCCA
* *
4706776 CAAAGCCTTACATTTCAGATATGCCA
1 CAAAGGCTTTCATTTCAGATATGCCA
**
4706802 CAAAGGCTTTCATTTCAGATACACCA
1 CAAAGGCTTTCATTTCAGATATGCCA
* **
4706828 CAAAGGGTTTTGTTTCATAGAT-TGCCA
1 CAAAGGCTTTCATTTC--AGATATGCCA
4706855 CAAAG
1 CAAAG
4706860 ACTTCTATTT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 40 0.58
27 24 0.35
28 5 0.07
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (26 bp):
CAAAGGCTTTCATTTCAGATATGCCA
Found at i:4706854 original size:53 final size:53
Alignment explanation
Indices: 4706749--4706991 Score: 206
Period size: 53 Copynumber: 4.6 Consensus size: 53
4706739 TAGATCACCG
** * **
4706749 CAAAGGCTTCCATTTCATTAAT-TGCCACAAAGCCTTACATTTC--AGATATGCCA
1 CAAAGGCTTCCATTTCA--AATACACCACAAAGGCTTATGTTTCATAGAT-TGCCA
* * * *
4706802 CAAAGGCTTTCATTTCAGATACACCACAAAGGGTTTTGTTTCATAGATTGCCA
1 CAAAGGCTTCCATTTCAAATACACCACAAAGGCTTATGTTTCATAGATTGCCA
* * * * *
4706855 CAAAGACTTCTATTTCAAATACGCCATGAAA-GCTTATGTTTCATAGATTGTCA
1 CAAAGGCTTCCATTTCAAATACACCA-CAAAGGCTTATGTTTCATAGATTGCCA
* * * * ** * *
4706908 TAAAGGCTTCCATTTTAAATTCGCCACAAAGGCTTCCGTTTCATAGATTTCTA
1 CAAAGGCTTCCATTTCAAATACACCACAAAGGCTTATGTTTCATAGATTGCCA
* *
4706961 CAAAGGCTTCCATTTCTAATACACTACAAAG
1 CAAAGGCTTCCATTTCAAATACACCACAAAG
4706992 ACTTCCATCT
Statistics
Matches: 150, Mismatches: 35, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
51 2 0.01
52 17 0.11
53 124 0.83
54 7 0.05
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (53 bp):
CAAAGGCTTCCATTTCAAATACACCACAAAGGCTTATGTTTCATAGATTGCCA
Found at i:4712652 original size:27 final size:27
Alignment explanation
Indices: 4712619--4712673 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
4712609 TTCTCAAAGA
*
4712619 TAGATCTCAGATCCGGGCATTATCAAT
1 TAGATCTCAAATCCGGGCATTATCAAT
* *
4712646 TAGATCTCAAATCTGGGTATTATCAAT
1 TAGATCTCAAATCCGGGCATTATCAAT
4712673 T
1 T
4712674 GAAAGTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (27 bp):
TAGATCTCAAATCCGGGCATTATCAAT
Found at i:4722442 original size:21 final size:21
Alignment explanation
Indices: 4722416--4722456 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4722406 TAGTTGTTAT
4722416 ACATCTATAACAACATTTGAA
1 ACATCTATAACAACATTTGAA
4722437 ACATCTATAACAACATTTGA
1 ACATCTATAACAACATTTGA
4722457 TATTTAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (21 bp):
ACATCTATAACAACATTTGAA
Found at i:4726875 original size:24 final size:22
Alignment explanation
Indices: 4726815--4726876 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
4726805 TCCCCTTTAC
4726815 TAAAAAAA-ATTAAAAAAATTG
1 TAAAAAAATATTAAAAAAATTG
* * *
4726836 TAAAAAAATAGCTAAAGGAAATTT
1 TAAAAAAATA-TTAAA-AAAATTG
4726860 TAAAAAAATATATAAAA
1 TAAAAAAATAT-TAAAA
4726877 TGAGTGACCA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 8 0.25
22 1 0.03
23 4 0.12
24 19 0.59
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (22 bp):
TAAAAAAATATTAAAAAAATTG
Found at i:4729922 original size:42 final size:43
Alignment explanation
Indices: 4729789--4729930 Score: 187
Period size: 43 Copynumber: 3.3 Consensus size: 43
4729779 TCCCAGATGT
* *
4729789 GGTCTTACATGTAATCAAATAACGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATTAAATAACGATGCCACTGTCCCAGACAG
* * *
4729832 GGTCTTACACGTAATTAAATAATGATGCTACTGTCCTAGACAG
1 GGTCTTACACGTAATTAAATAACGATGCCACTGTCCCAGACAG
* * * **
4729875 GGTCTTACACGTAATTATAT-ACGACGCCAATGTCCCAGACTT
1 GGTCTTACACGTAATTAAATAACGATGCCACTGTCCCAGACAG
4729917 GGTCTTACACGTAA
1 GGTCTTACACGTAA
4729931 ATTTCAAATC
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 29 0.34
43 57 0.66
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATTAAATAACGATGCCACTGTCCCAGACAG
Found at i:4731521 original size:30 final size:30
Alignment explanation
Indices: 4731463--4731521 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
4731453 TGTTTTCTTT
**
4731463 TGATAAGAAAAAAAAACAGCTTTCTATAAA
1 TGATAAGAAAAAAAAACAGCTTGATATAAA
* *
4731493 TGATAAGAAAAAAAATCAGGTTGATATAA
1 TGATAAGAAAAAAAAACAGCTTGATATAA
4731522 CAATAAACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.24
Consensus pattern (30 bp):
TGATAAGAAAAAAAAACAGCTTGATATAAA
Found at i:4734861 original size:257 final size:257
Alignment explanation
Indices: 4734405--4734920 Score: 1014
Period size: 257 Copynumber: 2.0 Consensus size: 257
4734395 AAAGAGTTTC
4734405 TAACCTTTTCCACAAGGCGGATGAGGTCTTCTCCATCAATACCTCCTGCAATATTGTATTCGCGA
1 TAACCTTTTCCACAAGGCGGATGAGGTCTTCTCCATCAATACCTCCTGCAATATTGTATTCGCGA
4734470 GGCACAACTGGATTGCAGACAAGGCCTTTTCATCAAGCTCTTCCCATTTTATTTTATTTAGATTC
66 GGCACAACTGGATTGCAGACAAGGCCTTTTCATCAAGCTCTTCCCATTTTATTTTATTTAGATTC
4734535 TCAGGCTTTTTCCCGGTAACAACCTTTTTCAAACCGGATTGAACTATTTTTGCCATCATTCGAAC
131 TCAGGCTTTTTCCCGGTAACAACCTTTTTCAAACCGGATTGAACTATTTTTGCCATCATTCGAAC
*
4734600 TTGCCACAAATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACCTTGTTGCTGCCA
196 TTGCCACAAATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACATTGTTGCTGCCA
4734662 TAACCTTTTCCACAAGGCGGATGAGGTCTTCTCCATCAATACCTCCTGCAATATTGTATTCGCGA
1 TAACCTTTTCCACAAGGCGGATGAGGTCTTCTCCATCAATACCTCCTGCAATATTGTATTCGCGA
4734727 GGCACAACTGGATTGCAGACAAGGCCTTTTCATCAAGCTCTTCCCATTTTATTTTATTTAGATTC
66 GGCACAACTGGATTGCAGACAAGGCCTTTTCATCAAGCTCTTCCCATTTTATTTTATTTAGATTC
4734792 TCAGGCTTTTTCCCGGTAACAACCTTTTTCAAACCGGATTGAACTATTTTTGCCATCATTCGAAC
131 TCAGGCTTTTTCCCGGTAACAACCTTTTTCAAACCGGATTGAACTATTTTTGCCATCATTCGAAC
*
4734857 TTGCCACAAATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACATTGTTGTTGCCA
196 TTGCCACAAATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACATTGTTGCTGCCA
4734919 TA
1 TA
4734921 TCTGAATGGG
Statistics
Matches: 257, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
257 257 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (257 bp):
TAACCTTTTCCACAAGGCGGATGAGGTCTTCTCCATCAATACCTCCTGCAATATTGTATTCGCGA
GGCACAACTGGATTGCAGACAAGGCCTTTTCATCAAGCTCTTCCCATTTTATTTTATTTAGATTC
TCAGGCTTTTTCCCGGTAACAACCTTTTTCAAACCGGATTGAACTATTTTTGCCATCATTCGAAC
TTGCCACAAATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACATTGTTGCTGCCA
Found at i:4736182 original size:6 final size:6
Alignment explanation
Indices: 4736171--4736204 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
4736161 AAAAAATAAT
*
4736171 TTTAAA TTTAAA TTTAAT TTTAAA TTTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTT
4736205 TTTATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (6 bp):
TTTAAA
Found at i:4736190 original size:18 final size:19
Alignment explanation
Indices: 4736167--4736204 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
4736157 CCAAAAAAAA
4736167 TAATTTTAAA-TTTAAATT
1 TAATTTTAAATTTTAAATT
4736185 TAATTTTAAATTTTAAATT
1 TAATTTTAAATTTTAAATT
4736204 T
1 T
4736205 TTTATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TAATTTTAAATTTTAAATT
Found at i:4736218 original size:7 final size:7
Alignment explanation
Indices: 4736168--4736205 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
4736158 CAAAAAAAAT
4736168 AATTTTA
1 AATTTTA
4736175 AA-TTTA
1 AATTTTA
4736181 AA-TTT-
1 AATTTTA
4736186 AATTTTA
1 AATTTTA
4736193 AATTTTA
1 AATTTTA
4736200 AATTTT
1 AATTTT
4736206 TTATTTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 2 0.07
6 12 0.41
7 15 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:4739757 original size:29 final size:30
Alignment explanation
Indices: 4739684--4739758 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
4739674 AAACTACACC
* * * *
4739684 ATTGGTCACACAACTATGGATTTTCTTTTA
1 ATTGGTCACTCAACTATGAATTTTCATTAA
* *
4739714 TTTGGCCACTCAACTATGAATTTT-ATTAA
1 ATTGGTCACTCAACTATGAATTTTCATTAA
4739743 ATTGGTCACTCAACTA
1 ATTGGTCACTCAACTA
4739759 ATTGGATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (30 bp):
ATTGGTCACTCAACTATGAATTTTCATTAA
Found at i:4743157 original size:43 final size:43
Alignment explanation
Indices: 4743110--4743190 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
4743100 ATTCTAGAAA
* * *
4743110 AAAAAAGAATTTAAAAA-AGGAGAAGATAATCTTGGGTTGTTG
1 AAAAAAGAATTTAAAAAGAGGAAAAGATAAACATGGGTTGTTG
4743152 AAAAAAGAATTTAAAAAGAGGAAAAGATAAACATGGGTT
1 AAAAAAGAATTTAAAAAGAGGAAAAGATAAACATGGGTT
4743191 ATTGGATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 17 0.49
43 18 0.51
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.22
Consensus pattern (43 bp):
AAAAAAGAATTTAAAAAGAGGAAAAGATAAACATGGGTTGTTG
Found at i:4748007 original size:6 final size:6
Alignment explanation
Indices: 4747992--4748074 Score: 50
Period size: 6 Copynumber: 14.5 Consensus size: 6
4747982 TATAATTCTG
* * ** * *
4747992 AAAAAT -AAAAT -AAAA- ACAAAT AACAAT AAAAAT AAATGT ACAACT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
4748037 AAAAAT AAAAAG AAAAAT --AAAT AAAACAT AAAACT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAA
4748075 TAGACTCAGT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
4 4 0.07
5 12 0.21
6 36 0.62
7 6 0.10
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:4748021 original size:16 final size:15
Alignment explanation
Indices: 4747994--4748028 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
4747984 TAATTCTGAA
4747994 AAATAAAATAAAAAC
1 AAATAAAATAAAAAC
*
4748009 AAATAACAATAAAAAT
1 AAATAA-AATAAAAAC
4748025 AAAT
1 AAAT
4748029 GTACAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAAATAAAAAC
Found at i:4748043 original size:24 final size:22
Alignment explanation
Indices: 4747992--4748074 Score: 78
Period size: 24 Copynumber: 3.7 Consensus size: 22
4747982 TATAATTCTG
4747992 AAAAAT-AAAATAAAAACAAAT
1 AAAAATAAAAATAAAAACAAAT
* * *
4748013 AACAATAAAAATAAATGTACAACT
1 AAAAATAAAAATAAA--AACAAAT
* *
4748037 AAAAATAAAAAGAAAAATAAAT
1 AAAAATAAAAATAAAAACAAAT
*
4748059 AAAACATAAAACTAAA
1 AAAA-ATAAAAATAAA
4748075 TAGACTCAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
21 5 0.10
22 16 0.33
23 9 0.19
24 18 0.38
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAAATAAAAATAAAAACAAAT
Found at i:4748060 original size:16 final size:17
Alignment explanation
Indices: 4748039--4748076 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4748029 GTACAACTAA
4748039 AAATAAAA-AGAAAAAT
1 AAATAAAACAGAAAAAT
* *
4748055 AAATAAAACATAAAACT
1 AAATAAAACAGAAAAAT
4748072 AAATA
1 AAATA
4748077 GACTCAGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (17 bp):
AAATAAAACAGAAAAAT
Found at i:4756002 original size:72 final size:72
Alignment explanation
Indices: 4755920--4756063 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 72
4755910 AAGGAAATTT
* * *
4755920 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTATCAAATTGTTCATCCATGTGGTCTTTCTTCA
1 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATGCGATCTTTCTTCA
4755985 ACTTTGC
66 ACTTTGC
*
4755992 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCGTCCATGCGATCTTTCTTCA
1 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATGCGATCTTTCTTCA
4756057 ACTTTGC
66 ACTTTGC
4756064 CGGATATGAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.40
Consensus pattern (72 bp):
AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATGCGATCTTTCTTCA
ACTTTGC
Found at i:4756167 original size:27 final size:26
Alignment explanation
Indices: 4756110--4756172 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
4756100 TGTTGTTTGA
4756110 ATTTTCTCATTTTTTGCCACCTCATC
1 ATTTTCTCATTTTTTGCCACCTCATC
4756136 ATTTTCTCATTTTTTGCCACCTCATC
1 ATTTTCTCATTTTTTGCCACCTCATC
4756162 ATTTTTCTCAT
1 A-TTTTCTCAT
4756173 CAGTTTTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 27 0.75
27 9 0.25
ACGTcount: A:0.16, C:0.29, G:0.03, T:0.52
Consensus pattern (26 bp):
ATTTTCTCATTTTTTGCCACCTCATC
Found at i:4762316 original size:22 final size:24
Alignment explanation
Indices: 4762290--4762336 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
4762280 TAGACATAAA
*
4762290 TTTGAAA-AA-AATATTTTTGAGG
1 TTTGAAAGAAGAAAATTTTTGAGG
4762312 TTTGAAAGAAGTAAAATTTTTGAGG
1 TTTGAAAGAAG-AAAATTTTTGAGG
4762337 GAAAAGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 2 0.10
25 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (24 bp):
TTTGAAAGAAGAAAATTTTTGAGG
Found at i:4762345 original size:20 final size:20
Alignment explanation
Indices: 4762320--4762368 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4762310 GGTTTGAAAG
*
4762320 AAGTAAAA-TTTTTGAGGGAA
1 AAGTAAAAGTTTTAGA-GGAA
*
4762340 AAGTAAACGTTTTAGAGGAA
1 AAGTAAAAGTTTTAGAGGAA
4762360 AAGTAAAAG
1 AAGTAAAAG
4762369 AAAAAAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.49, C:0.02, G:0.24, T:0.24
Consensus pattern (20 bp):
AAGTAAAAGTTTTAGAGGAA
Found at i:4763137 original size:18 final size:20
Alignment explanation
Indices: 4763090--4763137 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
4763080 CTCTAACTTA
4763090 ATTTAAATT-TAATTAAATT
1 ATTTAAATTATAATTAAATT
*
4763109 ACTTAAA--ATAATT-AATT
1 ATTTAAATTATAATTAAATT
4763126 -TTTAAATTATAA
1 ATTTAAATTATAA
4763138 ACAAATCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
16 5 0.21
17 4 0.17
18 9 0.38
19 6 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTAAATTATAATTAAATT
Found at i:4763324 original size:21 final size:20
Alignment explanation
Indices: 4763298--4763337 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4763288 ATTTTATCAT
4763298 GAACCTCAAACCTAGAACCCC
1 GAACCTCAAA-CTAGAACCCC
* *
4763319 GAACCTTAAACTCGAACCC
1 GAACCTCAAACTAGAACCC
4763338 TGAATCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (20 bp):
GAACCTCAAACTAGAACCCC
Found at i:4763337 original size:20 final size:21
Alignment explanation
Indices: 4763298--4763348 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
4763288 ATTTTATCAT
*
4763298 GAACCTCAAACCTAGAACCCC
1 GAACCTTAAACCTAGAACCCC
* *
4763319 GAACCTTAAA-CTCGAACCCT
1 GAACCTTAAACCTAGAACCCC
*
4763339 GAATCTTAAA
1 GAACCTTAAA
4763349 TCTTAAATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (21 bp):
GAACCTTAAACCTAGAACCCC
Found at i:4763494 original size:35 final size:35
Alignment explanation
Indices: 4763391--4763495 Score: 110
Period size: 35 Copynumber: 3.1 Consensus size: 35
4763381 GAGTTCGGAA
* *
4763391 TTTAAGGTTTAAGGTTCAA--GTTTGGGTTTTGGG
1 TTTAGGGTTTAAGGTTCAAGGGTTTGGGTTTTGAG
* * *
4763424 TTTAGGGTTCAA-GTTCAAGGGTTCGGGATTATGAG
1 TTTAGGGTTTAAGGTTCAAGGGTTTGGG-TTTTGAG
*
4763459 TTT-GGGTTTAAGGTTTAAGGGTTTGGAGTTTTGAG
1 TTTAGGGTTTAAGGTTCAAGGGTTTGG-GTTTTGAG
4763494 TT
1 TT
4763496 ATGAGTTTGG
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
32 6 0.10
33 10 0.17
34 13 0.22
35 28 0.48
36 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.34, T:0.43
Consensus pattern (35 bp):
TTTAGGGTTTAAGGTTCAAGGGTTTGGGTTTTGAG
Found at i:4771821 original size:15 final size:15
Alignment explanation
Indices: 4771797--4771829 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4771787 AACTTAATCT
4771797 ATATAAGTTATAATA
1 ATATAAGTTATAATA
*
4771812 ATATATGTTATAATA
1 ATATAAGTTATAATA
4771827 ATA
1 ATA
4771830 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATAAGTTATAATA
Found at i:4772659 original size:16 final size:16
Alignment explanation
Indices: 4772596--4772661 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
4772586 GATTGATATT
*
4772596 GAAATGGAAAAGATGA
1 GAAATGGAAAATATGA
4772612 GAAAT-G--AATATGA
1 GAAATGGAAAATATGA
*
4772625 G--ATGAGAAAAATAT-T
1 GAAATG-G-AAAATATGA
4772640 GAAATGGAAAATATGA
1 GAAATGGAAAATATGA
4772656 GAAATG
1 GAAATG
4772662 ATATATGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
11 2 0.05
13 8 0.21
15 9 0.23
16 17 0.44
17 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.20
Consensus pattern (16 bp):
GAAATGGAAAATATGA
Found at i:4773919 original size:49 final size:48
Alignment explanation
Indices: 4773838--4773933 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 48
4773828 TCTAAAAGGG
* *
4773838 ATAAATAGTGATAAGATGTAGACAATGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGATGTAGACAATGGAAGACGAAGTTTAGAAATGT
*
4773886 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACGAAGTTTAGAAATG
1 ATAAATAGTGATAAGA-TGTAGACAATGGAAGACGAAGTTTAGAAATG
4773934 CATAGCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 16 0.36
49 28 0.64
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.25
Consensus pattern (48 bp):
ATAAATAGTGATAAGATGTAGACAATGGAAGACGAAGTTTAGAAATGT
Found at i:4779264 original size:15 final size:16
Alignment explanation
Indices: 4779198--4779261 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 16
4779188 ATGATATGTG
4779198 TATATG-TATAATATA
1 TATATGTTATAATATA
4779213 TATTATGTTAGCTTAATATA
1 TA-TATGTTA---TAATATA
*
4779233 TATAAGTTATAATA-A
1 TATATGTTATAATATA
4779248 TATATGTTATAATA
1 TATATGTTATAATA
4779262 ATAAAATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
15 16 0.38
16 9 0.21
17 2 0.05
19 6 0.14
20 9 0.21
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (16 bp):
TATATGTTATAATATA
Found at i:4780074 original size:43 final size:43
Alignment explanation
Indices: 4780024--4780109 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
4780014 TATGTGATTG
*
4780024 ATATTGAAATGGCAAAGATGAGAAATGAATATGTGATGAGAAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
* *
4780067 ATATTGAAATGGCAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
4780110 TGAGATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.49, C:0.02, G:0.24, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:4782216 original size:20 final size:20
Alignment explanation
Indices: 4782191--4782229 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4782181 TGGAGCAGGA
*
4782191 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
4782211 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
4782230 AATTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:4784228 original size:23 final size:23
Alignment explanation
Indices: 4784202--4784256 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
4784192 GACTAAGCGC
4784202 GCAAGTGATAATGGCACTATAGT
1 GCAAGTGATAATGGCACTATAGT
* * *
4784225 GCAAGTGTTAGTGGCACTTTAGT
1 GCAAGTGATAATGGCACTATAGT
4784248 GCAAAGTGA
1 GC-AAGTGA
4784257 CATCCACATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (23 bp):
GCAAGTGATAATGGCACTATAGT
Found at i:4784293 original size:24 final size:24
Alignment explanation
Indices: 4784246--4784297 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4784236 TGGCACTTTA
*
4784246 GTGCAAAGTGACATCCACATGTCT
1 GTGCAAAGTGACATCCACAAGTCT
***
4784270 GTGCAAAGTGACATTTGCAAGTCT
1 GTGCAAAGTGACATCCACAAGTCT
4784294 GTGC
1 GTGC
4784298 GAAGAATAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (24 bp):
GTGCAAAGTGACATCCACAAGTCT
Found at i:4787275 original size:16 final size:16
Alignment explanation
Indices: 4787239--4787271 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
4787229 GTCAGATCCC
4787239 TATTTATTCAATTTTA
1 TATTTATTCAATTTTA
4787255 TATTTATT--ATTTTA
1 TATTTATTCAATTTTA
4787269 TAT
1 TAT
4787272 ATTTGAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTATTCAATTTTA
Found at i:4789651 original size:21 final size:21
Alignment explanation
Indices: 4789609--4789652 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4789599 CTCCTGTTGG
* *
4789609 TTAGGGTTTTGGGATTTTGTT
1 TTAGGGTTTAGGGATTTGGTT
4789630 TTAGGGTTTAGGG-TTATGGTT
1 TTAGGGTTTAGGGATT-TGGTT
4789651 TT
1 TT
4789653 GTGGTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.55
Consensus pattern (21 bp):
TTAGGGTTTAGGGATTTGGTT
Found at i:4790101 original size:125 final size:126
Alignment explanation
Indices: 4789871--4790287 Score: 622
Period size: 126 Copynumber: 3.3 Consensus size: 126
4789861 TAATTTAAAA
* * * * *
4789871 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTTGAGAAGACATTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
* *
4789936 TTGAGCAAATAGTGTAAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAG
* * *
4789997 AAGCTTCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAA-AATTTCAAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
*
4790061 CTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTTAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAG
* * * * * *
4790122 AAGCTCCCACGTGTATGCACTTTTGCTATAATAGCTCCTGAAAAAATAATTTCGAGCAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
* * *
4790187 CTGAGAAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGAT-AGCAAAAGTACTGAAAG
66 CTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTG-TCAGCAAAAGTACTGAAAG
*
4790248 AAGCTCCCACGAGGACGCGCTTTTGCTACAGTAGCTCCTG
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
4790288 TTTGGTCTGA
Statistics
Matches: 262, Mismatches: 27, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
125 112 0.43
126 149 0.57
127 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
CTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTACTGAAAG
Found at i:4793499 original size:116 final size:116
Alignment explanation
Indices: 4793289--4793499 Score: 287
Period size: 116 Copynumber: 1.8 Consensus size: 116
4793279 GTATTATTTA
* * * *
4793289 TATTTTTTTAAATCAAATAATATGGAAATATTTAGAATATTGACTTATTTAAAAGAAAATCTATT
1 TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATCTATT
* * *
4793354 TTATTAAAAATATTAAAGTGAATTACAATTACTTTATTCAAAACAATGTTT
66 ATATTAAAAATATAAAAGTAAATTACAATTACTTTATTCAAAACAATGTTT
* ** ** *
4793405 TATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTGTTATTTAAAAGAATTTTTATT
1 TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATCTATT
* *
4793470 ATATTAAAAATGTAAAAGTAAATTTCAATT
66 ATATTAAAAATATAAAAGTAAATTACAATT
4793500 TTATTACATG
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
116 80 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (116 bp):
TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATCTATT
ATATTAAAAATATAAAAGTAAATTACAATTACTTTATTCAAAACAATGTTT
Found at i:4793702 original size:21 final size:21
Alignment explanation
Indices: 4793678--4793718 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4793668 CCAACTTTCG
* *
4793678 GCGGGGGTTGTGGTTGCTCCA
1 GCGGGGATTGTGGTTCCTCCA
*
4793699 GCGGGGATTTTGGTTCCTCC
1 GCGGGGATTGTGGTTCCTCC
4793719 GGTAGGGGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.22, G:0.41, T:0.32
Consensus pattern (21 bp):
GCGGGGATTGTGGTTCCTCCA
Found at i:4794001 original size:18 final size:18
Alignment explanation
Indices: 4793975--4794017 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4793965 GATTAGAAAA
* * *
4793975 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
4793993 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
4794011 AGGATAC
1 AGGATAC
4794018 GTGCTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:4794641 original size:7 final size:7
Alignment explanation
Indices: 4794629--4794653 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4794619 TATTAGTTAT
4794629 ATACATA
1 ATACATA
4794636 ATACATA
1 ATACATA
4794643 ATACATA
1 ATACATA
4794650 ATAC
1 ATAC
4794654 TAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:4794659 original size:7 final size:7
Alignment explanation
Indices: 4794649--4794674 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4794639 CATAATACAT
4794649 AATACTA
1 AATACTA
4794656 AATACTA
1 AATACTA
4794663 AATACTA
1 AATACTA
4794670 AATAC
1 AATAC
4794675 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:4794659 original size:14 final size:14
Alignment explanation
Indices: 4794629--4794674 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
4794619 TATTAGTTAT
4794629 ATACATAATAC-ATA
1 ATACATAATACTA-A
4794643 ATACATAATACTAA
1 ATACATAATACTAA
4794657 ATAC-TAAATACTAA
1 ATACAT-AATACTAA
4794671 ATAC
1 ATAC
4794675 CAATCGACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (14 bp):
ATACATAATACTAA
Found at i:4795894 original size:11 final size:11
Alignment explanation
Indices: 4795880--4795916 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
4795870 AGCTTTTTTA
4795880 AGAGGAATTTG
1 AGAGGAATTTG
*
4795891 AGAGGAAATTG
1 AGAGGAATTTG
*
4795902 AAAGGAATTTG
1 AGAGGAATTTG
4795913 AGAG
1 AGAG
4795917 AATATTGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:4795907 original size:22 final size:24
Alignment explanation
Indices: 4795882--4795938 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
4795872 CTTTTTTAAG
4795882 AGGAATTTGAGAGGAA-ATT-GAA
1 AGGAATTTGAGAGGAATATTGGAA
4795904 AGGAATTTGAGA-GAATATTGGAA
1 AGGAATTTGAGAGGAATATTGGAA
*
4795927 A-GAAATTGAGAG
1 AGGAATTTGAGAG
4795939 AAAGGATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 3 0.10
22 24 0.77
23 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.23
Consensus pattern (24 bp):
AGGAATTTGAGAGGAATATTGGAA
Found at i:4796990 original size:30 final size:30
Alignment explanation
Indices: 4796949--4797025 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
4796939 CTTATTATTC
* *
4796949 ATTTTGCTATTATTTTAAAGAAATTTGTTA
1 ATTTTGTTATTATTTTAAAGAAAGTTGTTA
4796979 ATTTTGTTATTATTTTAAAGAAAGTTGTTA
1 ATTTTGTTATTATTTTAAAGAAAGTTGTTA
* *
4797009 GTTTTGTTAGTATTTTA
1 ATTTTGTTATTATTTTA
4797026 GAGGCATTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (30 bp):
ATTTTGTTATTATTTTAAAGAAAGTTGTTA
Found at i:4797180 original size:12 final size:12
Alignment explanation
Indices: 4797159--4797192 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4797149 TATATATTTT
*
4797159 AAAATTATATAA
1 AAAATAATATAA
4797171 AAAATAATATAA
1 AAAATAATATAA
*
4797183 AAATTAATAT
1 AAAATAATAT
4797193 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:4801347 original size:30 final size:29
Alignment explanation
Indices: 4801312--4801369 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4801302 CCAAATTCTC
4801312 CCCCAAACGTTTT-TTCCCCCTCTGCTGGTT
1 CCCCAAA--TTTTCTTCCCCCTCTGCTGGTT
*
4801342 CCCCAAATTTTCTTTCCCCTCTGCTGGT
1 CCCCAAATTTTCTTCCCCCTCTGCTGGT
4801370 GAAATTGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 15 0.58
30 7 0.27
ACGTcount: A:0.10, C:0.40, G:0.12, T:0.38
Consensus pattern (29 bp):
CCCCAAATTTTCTTCCCCCTCTGCTGGTT
Found at i:4802788 original size:50 final size:50
Alignment explanation
Indices: 4802713--4803008 Score: 332
Period size: 50 Copynumber: 5.9 Consensus size: 50
4802703 TTTATACACG
* *
4802713 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGA
* * *
4802763 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAT-G-A
* * *
4802814 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGA
* * * *
4802864 TAGGTCACATGTGTAGTACTATGTGTAGGCTACTATGCGTACTGG-ATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAT-G-A
* * * * *
4802915 TCGATCAC--GTGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATG-A
* *
4802963 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG
4803009 GTATCATTTA
Statistics
Matches: 203, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.00
49 42 0.21
50 80 0.39
51 76 0.37
52 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGA
Found at i:4802894 original size:101 final size:101
Alignment explanation
Indices: 4802717--4803000 Score: 457
Period size: 101 Copynumber: 2.8 Consensus size: 101
4802707 TACACGTAGG
*
4802717 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTAC
4802782 TATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
*
4802818 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTAC
* * *
4802883 TATGTGTAGGCTACTATGCGTACTGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
* * *
4802919 TCAC--GTGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGAAAATGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG-ATA-GGTCACATGTGTAGT
4802981 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
4803001 TGAACCGGGT
Statistics
Matches: 171, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
98 3 0.02
99 34 0.20
100 34 0.20
101 100 0.58
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
Found at i:4810430 original size:23 final size:20
Alignment explanation
Indices: 4810404--4810442 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4810394 GAAAGACCAA
4810404 AAAAACAATTTATTAAAAACC
1 AAAAA-AATTTATTAAAAACC
*
4810425 ATAAAAATTTATTAAAAA
1 AAAAAAATTTATTAAAAA
4810443 TAAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAATTTATTAAAAACC
Found at i:4810451 original size:22 final size:21
Alignment explanation
Indices: 4810410--4810466 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
4810400 CCAAAAAAAC
**
4810410 AATTTATTAAAAA-CCATAAA
1 AATTTATTAAAAATAAATAAA
4810430 AATTTATTAAAAATAAATTAAA
1 AATTTATTAAAAATAAA-TAAA
*
4810452 TATTT-TATAAAAATA
1 AATTTAT-TAAAAATA
4810467 TTTTTCTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 13 0.42
21 2 0.06
22 16 0.52
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTTATTAAAAATAAATAAA
Found at i:4810690 original size:13 final size:13
Alignment explanation
Indices: 4810672--4810696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4810662 AAATATTTAA
4810672 TTTTTTTATAAAT
1 TTTTTTTATAAAT
4810685 TTTTTTTATAAA
1 TTTTTTTATAAA
4810697 AATGAACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTTTATAAAT
Found at i:4811366 original size:20 final size:20
Alignment explanation
Indices: 4811333--4811370 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4811323 AATGTGAATA
4811333 ATTTTTTTCAAAATATTTATG
1 ATTTTTTTCAAAAT-TTTATG
*
4811354 ATTTTTTT-GAAATTTTA
1 ATTTTTTTCAAAATTTTA
4811371 GTAAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 4 0.25
21 8 0.50
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (20 bp):
ATTTTTTTCAAAATTTTATG
Found at i:4811399 original size:29 final size:30
Alignment explanation
Indices: 4811343--4811397 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
4811333 ATTTTTTTCA
4811343 AAATATTTATGATTTTTTTGAAATTTTAGT
1 AAATATTTATGATTTTTTTGAAATTTTAGT
4811373 AAAT-TTTATG-TATTTTTT-AAATTTT
1 AAATATTTATGAT-TTTTTTGAAATTTT
4811398 TATGAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 8 0.33
29 12 0.50
30 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (30 bp):
AAATATTTATGATTTTTTTGAAATTTTAGT
Found at i:4814448 original size:95 final size:95
Alignment explanation
Indices: 4814280--4814468 Score: 360
Period size: 95 Copynumber: 2.0 Consensus size: 95
4814270 ATGAATGTTG
4814280 CAATAGCACCTTCTTCGACCATAAACCTCTTAATCTCTTCAACACCAACAAGGTTTCTCAACACC
1 CAATAGCACCTTCTTCGACCATAAACCTCTTAATCTCTTCAACACCAACAAGGTTTCTCAACACC
4814345 CCACAAGCAAGACCAATTAGTTCCCCTCCT
66 CCACAAGCAAGACCAATTAGTTCCCCTCCT
* *
4814375 CAATGGCACCTTCTTCGACCATAAACCTTTTAATCTCTTCAACACCAACAAGGTTTCTCAACACC
1 CAATAGCACCTTCTTCGACCATAAACCTCTTAATCTCTTCAACACCAACAAGGTTTCTCAACACC
4814440 CCACAAGCAAGACCAATTAGTTCCCCTCC
66 CCACAAGCAAGACCAATTAGTTCCCCTCC
4814469 AAAATCACCG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.31, C:0.37, G:0.08, T:0.24
Consensus pattern (95 bp):
CAATAGCACCTTCTTCGACCATAAACCTCTTAATCTCTTCAACACCAACAAGGTTTCTCAACACC
CCACAAGCAAGACCAATTAGTTCCCCTCCT
Found at i:4816499 original size:11 final size:11
Alignment explanation
Indices: 4816468--4816499 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
4816458 CGGGTATTTG
4816468 ACTAAAATAAT
1 ACTAAAATAAT
4816479 AC-AAAA-AAT
1 ACTAAAATAAT
4816488 ACTAAAATAAT
1 ACTAAAATAAT
4816499 A
1 A
4816500 TACAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.26
10 8 0.42
11 6 0.32
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (11 bp):
ACTAAAATAAT
Found at i:4818011 original size:16 final size:18
Alignment explanation
Indices: 4817980--4818020 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4817970 TATTATTATT
4817980 ATTTTATAACATACATAC
1 ATTTTATAACATACATAC
* * *
4817998 ATTTTATAATACATATAC
1 ATTTTATAACATACATAC
4818016 ATTTT
1 ATTTT
4818021 TTTTCATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTATAACATACATAC
Found at i:4819489 original size:158 final size:152
Alignment explanation
Indices: 4819175--4819856 Score: 930
Period size: 158 Copynumber: 4.4 Consensus size: 152
4819165 GGTTTCGACA
* * *
4819175 AATAAAATTAGAAAATAGTATATTTTTTT-AAAGTAATAAAATCCGGGAAAAAAATACGAACAAA
1 AATAAAA-TAAAAAATAATATATTTTTTTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAAA
* ** * * *
4819239 TGACCGAAATAATG-GTTTTTTTAAATTTATTTAAAAAACACAGTAAATTAAAACATTTCAAACA
65 TGGCCGAAATAA-GAGTTTTTTTAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACA
*
4819303 TAATTTACTAAAATAATGTAAAAT
129 TAATGTACTAAAATAATGTAAAAT
*
4819327 AATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGAAAAAAAATACGAACAA
1 AATAAAATA-AAAAATAATATATTTTT-TTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAA
4819392 ATGGCCGAAATAAGAGTTTTTTTAAAAAAATTTAAATAAAAAACACACTAAATGAATACATTTCA
64 ATGGCCGAAATAAGAGTTTTTTT----AAATTTAAATAAAAAACACACTAAATGAATACATTTCA
4819457 AACATAATGTACTAAAATAATGTAAAAT
125 AACATAATGTACTAAAATAATGTAAAAT
*
4819485 AATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGAAAAAAAATACGAACAA
1 AATAAAATA-AAAAATAATATATTTTT-TTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAA
4819550 ATGGCCGAAATAAGAGTTTTTTTAAAAAAATTTAAATAAAAAACACACTAAATGAATACATTTCA
64 ATGGCCGAAATAAGAGTTTTTTT----AAATTTAAATAAAAAACACACTAAATGAATACATTTCA
4819615 AACATAATGTACTAAAATAATGTAAAAT
125 AACATAATGTACTAAAATAATGTAAAAT
* * *
4819643 AATAAAATTAGAAAATAGTATA-TTTTTTAAAAGTAATAAAATCC-GAGGAAAAAATACGAACAA
1 AATAAAA-TAAAAAATAATATATTTTTTTAAAAGTAATAAAATCCGGA-AAAAAAATACGAACAA
* * * ** *
4819706 AGGGCTGAAATAA-AGATTTTTTTTAATTTATTTAAAAAACACACTAAATTAATACATTTCAAAC
64 ATGGCCGAAATAAGAG-TTTTTTTAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAAC
*
4819770 ACAATGTACTAAAATAATGTAAAAT
128 ATAATGTACTAAAATAATGTAAAAT
* * *
4819795 AATAAATTAGAAAAT-A-GTATTTTTTTAAAAGTAATAAAATCC-GAAAAAAAATACGAACAAAT
1 AATAAAATAAAAAATAATATATTTTTTTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAT
4819857 AGTTGAAATA
Statistics
Matches: 492, Mismatches: 26, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
149 18 0.04
150 24 0.05
151 10 0.02
152 89 0.18
153 3 0.01
154 53 0.11
155 4 0.01
156 50 0.10
157 4 0.01
158 235 0.48
159 2 0.00
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (152 bp):
AATAAAATAAAAAATAATATATTTTTTTAAAAGTAATAAAATCCGGAAAAAAAATACGAACAAAT
GGCCGAAATAAGAGTTTTTTTAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATA
ATGTACTAAAATAATGTAAAAT
Done.