Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 146 of 207
Found at i:44899271 original size:25 final size:22
Alignment explanation
Indices: 44899212--44899271 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
44899202 CTTTTCCAGC
* *
44899212 CACCACAGA-CGGCGGTGCCGT
1 CACCAGAGATCGGCGGCGCCGT
44899233 CACCAGAGATCGGCGGCGCCGT
1 CACCAGAGATCGGCGGCGCCGT
*
44899255 CGCCAGAGATCGGCGGC
1 CACCAGAGATCGGCGGC
44899272 CGACGCGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 8 0.23
22 27 0.77
ACGTcount: A:0.18, C:0.37, G:0.37, T:0.08
Consensus pattern (22 bp):
CACCAGAGATCGGCGGCGCCGT
Found at i:44899843 original size:22 final size:21
Alignment explanation
Indices: 44899802--44899847 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
44899792 TTAATTGATA
44899802 ATGTAATTATTTTATATATAT
1 ATGTAATTATTTTATATATAT
* *
44899823 ATGTAATTTTTCTTATCTATAT
1 ATGTAATTATT-TTATATATAT
44899845 ATG
1 ATG
44899848 CATATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (21 bp):
ATGTAATTATTTTATATATAT
Found at i:44899916 original size:28 final size:30
Alignment explanation
Indices: 44899852--44899910 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44899842 TATATGCATA
44899852 TATATTTCTATTTTTTAATAAATATTTTTC
1 TATATTTCTATTTTTTAATAAATATTTTTC
* *
44899882 TATATTTGT-TTTTTTAAATGAATATTTTT
1 TATATTTCTATTTTTT-AATAAATATTTTT
44899911 ATATTTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (30 bp):
TATATTTCTATTTTTTAATAAATATTTTTC
Found at i:44900281 original size:27 final size:27
Alignment explanation
Indices: 44900233--44900285 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
44900223 CATGTCATCG
* * *
44900233 TTTATTTTTTTTATGTATATTAGTTTCA
1 TTTATTTTATTTATATACATTA-TTTCA
44900261 TTTA-TTTATTTATATACATTATTTC
1 TTTATTTTATTTATATACATTATTTC
44900286 TATGACATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 14 0.64
28 4 0.18
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTATTTTATTTATATACATTATTTCA
Found at i:44900316 original size:12 final size:12
Alignment explanation
Indices: 44900299--44900323 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44900289 GACATTGTTA
44900299 TATTTATTATTG
1 TATTTATTATTG
44900311 TATTTATTATTG
1 TATTTATTATTG
44900323 T
1 T
44900324 GGCATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TATTTATTATTG
Found at i:44901922 original size:58 final size:54
Alignment explanation
Indices: 44901828--44901938 Score: 132
Period size: 58 Copynumber: 2.0 Consensus size: 54
44901818 ATAAAATATA
* * *
44901828 AAAAATATATATAAGTATGTATATATTCGTGAAAATAGAAAGATGCATATAGAC
1 AAAAATATATATAAGTATGTATATATTCATGAAAATAAAAAAATGCATATAGAC
* * *
44901882 AAAAATATATGAGTACGTATGTATATATATATATGAAAATAAAAAAATGTATATAGA
1 AAAAATATAT-A-TAAGTATGTATATAT-T-CATGAAAATAAAAAAATGCATATAGA
44901939 TTATAGAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 10 0.21
55 1 0.02
56 14 0.30
57 1 0.02
58 21 0.45
ACGTcount: A:0.52, C:0.04, G:0.14, T:0.31
Consensus pattern (54 bp):
AAAAATATATATAAGTATGTATATATTCATGAAAATAAAAAAATGCATATAGAC
Found at i:44903394 original size:40 final size:40
Alignment explanation
Indices: 44903339--44903946 Score: 383
Period size: 40 Copynumber: 14.6 Consensus size: 40
44903329 TTTAACCTGG
44903339 TCCACTACTGCTTAGGGAGATAAGACTTGAG-GCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGACTTG-GTGCGATCTGC
44903379 TCCACTACTGCTTAGGGAGATAAGACTTGAG-GCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGACTTG-GTGCGATCTGC
* *
44903419 TCCACTACTGCTTAAGGAGATAAGATCTGTGGTTCTG-TCTGC
1 TCCACTACTGCTTAGGGAGATAAGA-CT-TGGTGC-GATCTGC
*
44903461 TCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-TCTGC
1 TCCACTACTGCTTAGGGAGATAAGA-CT-TGGTGC-GATCTGC
* *
44903503 TCCACTACTGCTTAGGGAGATAAGATTTGATGCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGACTTGGTGCGATCTGC
*** *
44903543 TCCACTACTGCTTAGGGAGATAAGATCTATGGTTTTAATCCGC
1 TCCACTACTGCTTAGGGAGATAAGA-CT-TGG-TGCGATCTGC
* ** * * *
44903586 TCCACTGCAACTTTAGGGATATAGGA-TTGGTTTTTTTCG-TCTGC
1 TCCACTACTGC-TTAGGGAGATAAGACTTGG-----TGCGATCTGC
* *
44903630 TCCACTACTGCTTACGGAGATAAGACTTGATGCGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGACTTGGTGCGATCTGC
** *** *
44903670 TCCACTTTTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGC
1 TCCACTACTGCTTAGGGAGATAAGA-CT-TGG-TGCGATCTGC
* * * ** **
44903713 TCAACTA-TAACTTCAGGGAGATAGGATGATTTTTTTTTG-TCTGC
1 TCCACTACT-GCTT-AGGGAGATA--A-GA-CTTGGTGCGATCTGC
* *
44903757 TCCACTACTACTTAGGGAGATAAGAC-TGGATGTGATCTGC
1 TCCACTACTGCTTAGGGAGATAAGACTTGG-TGCGATCTGC
* * *** *
44903797 TTCACTACTACTTAGGGAGATAAGATCTTGGTTTTAAT-TCAC
1 TCCACTACTGCTTAGGGAGATAAGA-CTTGG-TGCGATCT-GC
* ** * * **** *
44903839 TCCACTGCAACTTTAAGGAGATAGGA-TTGGTTTTTTTTGTC
1 TCCACTACTGC-TTAGGGAGATAAGACTTGGTGCGATCTG-C
**
44903880 TGCTCACTACTGCTTAGGGAGATAAGACTTCATGCGATCTGC
1 T-C-CACTACTGCTTAGGGAGATAAGACTTGGTGCGATCTGC
44903922 TCCACTACTGCTTAGGGAGATAAGA
1 TCCACTACTGCTTAGGGAGATAAGA
44903947 TCTGTGGTTT
Statistics
Matches: 459, Mismatches: 74, Indels: 70
0.76 0.12 0.12
Matches are distributed among these distances:
38 1 0.00
39 7 0.02
40 183 0.40
41 21 0.05
42 111 0.24
43 73 0.16
44 50 0.11
45 7 0.02
46 2 0.00
47 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (40 bp):
TCCACTACTGCTTAGGGAGATAAGACTTGGTGCGATCTGC
Found at i:44903479 original size:82 final size:82
Alignment explanation
Indices: 44903339--44903955 Score: 410
Period size: 82 Copynumber: 7.4 Consensus size: 82
44903329 TTTAACCTGG
*
44903339 TCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GATCTGCTCCACTACTGCTTAGGGAGAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG-TCTGCTCCACTACTGCTTAGGGAGAT
*
44903400 AAGA-CTTGAGGCGATCTGC
64 AAGATCTTG-GTCGATCTGC
*
44903419 TCCACTACTGCTTAAGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
1 TCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
44903484 GATCTGTGGTTCTG-TCTGC
66 GATCT-TGG-TC-GATCTGC
* *
44903503 TCCACTACTGCTTAGGGAGATAAGAT-T-TGATGC-GATCTGCTCCACTACTGCTTAGGGAGATA
1 TCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-TCTGCTCCACTACTGCTTAGGGAGATA
** *
44903565 AGATCTATGGTTTTAATCCGC
65 AGATCT-TGG--TCGATCTGC
* ** * * ** * *
44903586 TCCACTGCAACTTTAGGGATATAGGAT-TGGTTTTTTTCGTCTGCTCCACTACTGCTTACGGAGA
1 TCCACTACTGC-TTAGGGAGATAAGATCT-GTGGTTCT-GTCTGCTCCACTACTGCTTAGGGAGA
*
44903650 TAAGA-CTTGATGCGATCTGC
63 TAAGATCTTGGT-CGATCTGC
** * * * * *
44903670 TCCACTTTTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCGCTCAACTA-TAACTTCAGGGAGA
1 TCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCT-GTCTGCTCCACTACT-GCTT-AGGGAGA
* ** *
44903734 TAGGATGATTTTTTTTTG-TCTGC
63 TA--A-GA-TCTTGGTCGATCTGC
* * * * *
44903757 TCCACTACTACTTAGGGAGATAAGA-C--TGGATGTGATCTGCTTCACTACTACTTAGGGAGATA
1 TCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTG-TCTGCTCCACTACTGCTTAGGGAGATA
** *
44903819 AGATCTTGGTTTTAAT-TCAC
65 AGATCTTGG--TCGATCT-GC
* ** * * ** *
44903839 TCCACTGCAACTTTAAGGAGATAGGAT-TGGTTTTTTTTGTCTGCT-CACTACTGCTTAGGGAGA
1 TCCACTACTGC-TTAGGGAGATAAGATCT-G-TGGTTCTGTCTGCTCCACTACTGCTTAGGGAGA
**
44903902 TAAGA-CTTCATGCGATCTGC
63 TAAGATCTTGGT-CGATCTGC
44903922 TCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTGGTT
44903956 TTAATCCGCT
Statistics
Matches: 420, Mismatches: 77, Indels: 79
0.73 0.13 0.14
Matches are distributed among these distances:
79 3 0.01
80 26 0.06
81 11 0.03
82 100 0.24
83 85 0.20
84 90 0.21
85 26 0.06
86 12 0.03
87 62 0.15
88 2 0.00
89 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (82 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGTGGTTCTGTCTGCTCCACTACTGCTTAGGGAGATAA
GATCTTGGTCGATCTGC
Found at i:44903666 original size:127 final size:127
Alignment explanation
Indices: 44903374--44903974 Score: 820
Period size: 127 Copynumber: 4.8 Consensus size: 127
44903364 CTTGAGGCGA
* *
44903374 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAAGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * * * ** * ** *
44903439 TAAGATCTGTGGTTCT-GTCTGCTCCACTACTGC-TTAGGGAGATAAGATCT-G-TGGTTCTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTTTTTTG
*
44903498 TCTGCTCCACTACTGCTTAGGGAGATAAGATTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * *
44903563 TAAGATCTATGGTTTTAATCCGCTCCACTGCAACTTTAGGGATATAGGATTGGTTTTTTTCG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
* **
44903625 TCTGCTCCACTACTGCTTACGGAGATAAGACTTGATGCGATCTGCTCCACTTTTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* ** * *
44903690 TAAGATCTGTGGTTTTAATCCGCTCAACTATAACTTCAGGGAGATAGGA-TGATTTTTTTTTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTG-GTTTTTTTTG
* * * * *
44903752 TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGATCTGCTTCACTACTACTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * *
44903817 TAAGATCT-TGGTTTTAATTCACTCCACTGCAACTTTAAGGAGATAGGATTGGTTTTTTTTG
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
*
44903878 TCTGCT-CACTACTGCTTAGGGAGATAAGACTTCATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
**
44903942 TAAGATCTGTGGTTTTAATCCGCTTAACTGCAA
66 TAAGATCTGTGGTTTTAATCCGCTCCACTGCAA
44903975 TGTCGGGGAA
Statistics
Matches: 416, Mismatches: 54, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
124 76 0.18
125 73 0.18
126 84 0.20
127 183 0.44
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (127 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTG
Found at i:44904082 original size:50 final size:50
Alignment explanation
Indices: 44904028--44904510 Score: 206
Period size: 50 Copynumber: 9.7 Consensus size: 50
44904018 ACTGTATCGC
* * *
44904028 CAGGGAAATAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTTAATTGCAATGT
* **** * *
44904078 CAGGG-AACAAGATTCGCCGTTGTAGCTTCAAT-TTGACCCACTGC-ATCGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTT-TTTAATTGCAAT-GT
** * * *
44904127 CAGGGAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTAAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTTAATTGCAATGT
* * * * * * * * * *
44904177 CGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCTCT-ATTGCATTGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCT-TTTTAATTGCAATGT
** * * *
44904227 CAGGGAAGTAAGATTCACCGTTGCGGCTTTAATCTTTTTAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTTAATTGCAATGT
* * * * ** * * *
44904277 C-GGGGAACAAGATTCGCTGTTGTAGCTTCAAT-TTGATCCACTGCATTGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTT-TTTAATTGCAATGT
* * ** ** * * * *
44904326 CTGAGAAGTAAGATTCATCGTTGCGGCCTCAATCTTTTAAATTGCAATAT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTTAATTGCAATGT
* * * * * * ***** * *
44904376 CAGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCCCCACTGC-ATCGC
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTTAATTGCAAT-GT
** * * * *
44904426 CATAGAAATAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTTAATTGCAATGT
* ** ** *
44904476 CGGGGAAGTAAGATTTACCGTTGTAGCTTCAATCT
1 CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCT
44904511 GTTCCACTGC
Statistics
Matches: 303, Mismatches: 118, Indels: 24
0.68 0.27 0.05
Matches are distributed among these distances:
48 6 0.02
49 70 0.23
50 218 0.72
51 9 0.03
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (50 bp):
CAGGGAAACAAGATTCGCCGTTGCAGCTTCAATCTTTTTAATTGCAATGT
Found at i:44904241 original size:100 final size:100
Alignment explanation
Indices: 44903970--44904525 Score: 704
Period size: 100 Copynumber: 5.6 Consensus size: 100
44903960 TCCGCTTAAC
** * *
44903970 TGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTTAATCTGCTCCACTGTATCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGGGAA
* * * *
44904035 ATAAGATTCGCCGTTGCGGCTTCAATATTTTTAAT
66 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* *
44904070 TGCAATGTCAGGGAA-CAAGATTCGCCGTTGTAGCTTCAATTTGAC-CCACTGCATCGCCAGGGA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTG-CTCCACTGCATCGCCAGGGA
* *
44904133 AGTAAGATTCGCCATTGCGGCTTCAATCTTTTAAAT
65 AGTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* * * * * *
44904169 TGCAATGTCGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCTCTATTGCATTGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGGGAA
* *
44904234 GTAAGATTCACCGTTGCGGCTTTAATCTTTTTAAT
66 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* * * * * *
44904269 TGCAATGTCGGGGAA-CAAGATTCGCTGTTGTAGCTTCAATTTGATCCACTGCATTGCCTGAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGGGAA
* *
44904333 GTAAGATTCATCGTTGCGGCCTCAATCTTTTAAAT
66 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* * * * * * * **
44904368 TGCAATATCAGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCCCCACTGCATCGCCATAGAA
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGGGAA
*
44904433 ATAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
66 GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
* ** *
44904468 TGCAATGTCGGGGAAGTAAGATTTACCGTTGTAGCTTCAATCTGTTCCACTGCATCGC
1 TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCCACTGCATCGC
44904526 TAGTTTGATA
Statistics
Matches: 391, Mismatches: 61, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
99 171 0.44
100 220 0.56
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (100 bp):
TGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGGGAA
GTAAGATTCACCGTTGCGGCTTCAATCTTTTAAAT
Found at i:44904310 original size:199 final size:199
Alignment explanation
Indices: 44903970--44904525 Score: 806
Period size: 199 Copynumber: 2.8 Consensus size: 199
44903960 TCCGCTTAAC
* * * *
44903970 TGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTTAATCTGCTCCACTGTATCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* * *
44904035 ATAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGCAATGTCAGGGAACAAGATTCGCCGTTG
66 ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
* * * *
44904100 TAGCTTCAATTTGACCCACTGCATCGCCAGGGAAGTAAGATTCGCCATTGCGGCTTCAATCTTTT
131 TAGCTTCAATTTGATCCACTGCATCGCCAGAGAAGTAAGATTCACCATTGCGGCCTCAATCTTTT
44904165 AAAT
196 AAAT
* * * *
44904169 TGCAATGTCGGGGAAGCAAGATTTGCCGTCGTAGCTTTAATCTGCTCTATTGCATTGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* * *
44904234 GTAAGATTCACCGTTGCGGCTTTAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCTGTTG
66 ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
* * * *
44904299 TAGCTTCAATTTGATCCACTGCATTGCCTGAGAAGTAAGATTCATCGTTGCGGCCTCAATCTTTT
131 TAGCTTCAATTTGATCCACTGCATCGCCAGAGAAGTAAGATTCACCATTGCGGCCTCAATCTTTT
44904364 AAAT
196 AAAT
* * * **
44904368 TGCAATATCAGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCCCCACTGCATCGCCATAGAA
1 TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
* * **
44904433 ATAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTAAGATTTACCGTT
66 ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCGTT
* *
44904498 GTAGCTTCAATCTGTTCCACTGCATCGC
130 GTAGCTTCAATTTGATCCACTGCATCGC
44904526 TAGTTTGATA
Statistics
Matches: 315, Mismatches: 41, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
199 280 0.89
200 35 0.11
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (199 bp):
TGCAATGTCGGGGAAGCAAGATTTGTCGTCGTAGCTTTAATCTGCTCCACTGCATCGCCAGGGAA
ATAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCGTTG
TAGCTTCAATTTGATCCACTGCATCGCCAGAGAAGTAAGATTCACCATTGCGGCCTCAATCTTTT
AAAT
Found at i:44904668 original size:44 final size:44
Alignment explanation
Indices: 44904579--44904839 Score: 267
Period size: 44 Copynumber: 5.9 Consensus size: 44
44904569 ATCTGTTTTT
* * *
44904579 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATC
1 TTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTATC
* * * *
44904623 TTTGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATC
1 TTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATC
* * * * *
44904667 TTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTC
1 TTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATC
* * * *
44904711 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGC-ATC
1 TTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCTATC
* * * *
44904755 TTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATC
1 TTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATC
* * *
44904799 TTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCT
1 TTCGATCTACTTC-CTACCAATATAGGAAGACAAGATCTGCT
44904840 TTAATGACTT
Statistics
Matches: 173, Mismatches: 40, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
43 42 0.24
44 111 0.64
45 20 0.12
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
TTCGATCTACTTCCTACCAATATAGGAAGACAAGATCTGCTATC
Found at i:44904805 original size:132 final size:132
Alignment explanation
Indices: 44904568--44904841 Score: 494
Period size: 132 Copynumber: 2.1 Consensus size: 132
44904558 AGAGAGATAG
* * *
44904568 GATCTGTTTTTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTTGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
44904633 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
44904698 AA
131 AA
*
44904700 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATTTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
44904765 TTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
44904830 AA
131 AA
44904832 GATCTGCTTT
1 GATCTGCTTT
44904842 AATGACTTCA
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 136 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (132 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:44905219 original size:24 final size:25
Alignment explanation
Indices: 44905167--44905220 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
44905157 ATTGCCCCTA
44905167 CTGTAATCTTCAAAGTTCAATCCGT
1 CTGTAATCTTCAAAGTTCAATCCGT
*
44905192 -TGTAATCTTCAAGGTT-AAGTCC-T
1 CTGTAATCTTCAAAGTTCAA-TCCGT
44905215 CTGTAA
1 CTGTAA
44905221 ATTTGGGACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (25 bp):
CTGTAATCTTCAAAGTTCAATCCGT
Found at i:44906567 original size:17 final size:16
Alignment explanation
Indices: 44906544--44906590 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
44906534 CAGTAAAGGT
44906544 TTTTTGTTTTTTTTTC
1 TTTTTGTTTTTTTTTC
*
44906560 TCTTTTGTTCTTTTTTTG
1 T-TTTTGTT-TTTTTTTC
44906578 TTTTTGTGTTTTT
1 TTTTTGT-TTTTT
44906591 GGTTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 1 0.04
17 17 0.63
18 9 0.33
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (16 bp):
TTTTTGTTTTTTTTTC
Found at i:44910331 original size:31 final size:29
Alignment explanation
Indices: 44910266--44910332 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
44910256 TATGAGTACG
* *
44910266 TATGTATATATATATGAAAATAAATAAAA
1 TATGTATATAGATATGAAAATAAAGAAAA
* * *
44910295 AATGTATATAGATTATAGAATATAAAGAATA
1 TATGTATATAGA-TAT-GAAAATAAAGAAAA
44910326 TATGTAT
1 TATGTAT
44910333 GAGTATGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 10 0.33
30 3 0.10
31 17 0.57
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (29 bp):
TATGTATATAGATATGAAAATAAAGAAAA
Found at i:44914812 original size:25 final size:25
Alignment explanation
Indices: 44914784--44914839 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
44914774 ATAATTCTAC
*
44914784 AATTAAATAAAATACTTAATAATAA
1 AATTAAATAAAATAATTAATAATAA
* *
44914809 AATTAAATATACTAATTAATAATAA
1 AATTAAATAAAATAATTAATAATAA
44914834 AATTAA
1 AATTAA
44914840 TTATGTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (25 bp):
AATTAAATAAAATAATTAATAATAA
Found at i:44914814 original size:12 final size:12
Alignment explanation
Indices: 44914799--44914840 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
44914789 AATAAAATAC
44914799 TTAATAATAAAA
1 TTAATAATAAAA
*
44914811 TTAA-ATATACTAA
1 TTAATA-ATA-AAA
44914824 TTAATAATAAAA
1 TTAATAATAAAA
44914836 TTAAT
1 TTAAT
44914841 TATGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 1 0.04
12 14 0.56
13 9 0.36
14 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAATAATAAAA
Found at i:44918615 original size:57 final size:57
Alignment explanation
Indices: 44918554--44918668 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
44918544 CAGAGAAGAC
44918554 TACTCGGTCGAAGCACCCATCCTATAAGAATCGAAAAGGTACAATTTTGATTAAGTG
1 TACTCGGTCGAAGCACCCATCCTATAAGAATCGAAAAGGTACAATTTTGATTAAGTG
*
44918611 TACTCGGTCGAAGCACCCATCCTATACGAATCGAAAAGGTACAATTTTGATTAAGTG
1 TACTCGGTCGAAGCACCCATCCTATAAGAATCGAAAAGGTACAATTTTGATTAAGTG
44918668 T
1 T
44918669 TTATTACTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (57 bp):
TACTCGGTCGAAGCACCCATCCTATAAGAATCGAAAAGGTACAATTTTGATTAAGTG
Found at i:44922324 original size:21 final size:21
Alignment explanation
Indices: 44922266--44922352 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
44922256 CCTGATCAGT
44922266 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* * ** *
44922286 AAATGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
44922307 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
44922330 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
44922351 AT
1 AT
44922353 TGGCAAAGCC
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 8 0.15
21 26 0.47
23 21 0.38
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:44922336 original size:23 final size:23
Alignment explanation
Indices: 44922266--44922351 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
44922256 CCTGATCAGT
44922266 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
* ** *
44922287 A-ATGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
44922307 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
44922330 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
44922352 TTGGCAAAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
20 8 0.15
21 22 0.42
23 23 0.43
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:44922350 original size:44 final size:41
Alignment explanation
Indices: 44922266--44922352 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
44922256 CCTGATCAGT
* * *
44922266 ATACGACACATAAGTGCCTGAAATGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
44922307 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
44922351 AT
1 AT
44922353 TGGCAAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 11 0.28
42 10 0.26
43 1 0.03
44 17 0.44
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:44924574 original size:16 final size:15
Alignment explanation
Indices: 44924526--44924577 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
44924516 TTATTAGAAT
*
44924526 TTTTCCTTCCTTTCTC
1 TTTTCTTTCCTTT-TC
*
44924542 TATTTCTTCCCTCTTTC
1 T-TTTCTTTCCT-TTTC
44924559 TTTTCTTTTCCTTTTC
1 TTTTC-TTTCCTTTTC
44924575 TTT
1 TTT
44924578 GTATCATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.40
17 16 0.53
18 2 0.07
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCTTTCCTTTTC
Found at i:44925544 original size:34 final size:34
Alignment explanation
Indices: 44925506--44925589 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
44925496 GATTTACTAA
* *
44925506 AAGCATGTCTATTGCTATCGTATTGATCCGTTAT
1 AAGCATGTCTATTGCTACCATATTGATCCGTTAT
* * **
44925540 AAGCATATTTATTGCTACCATATTGATTTGTTAT
1 AAGCATGTCTATTGCTACCATATTGATCCGTTAT
*
44925574 AAACATGTCATATTGC
1 AAGCATGTC-TATTGC
44925590 ATTGCATAGG
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
34 34 0.85
35 6 0.15
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (34 bp):
AAGCATGTCTATTGCTACCATATTGATCCGTTAT
Found at i:44925805 original size:45 final size:45
Alignment explanation
Indices: 44925634--44925807 Score: 199
Period size: 45 Copynumber: 3.9 Consensus size: 45
44925624 TATAAGCAAC
* * * *
44925634 TTATCTGCACCAATTAGTGGTTTATCCACACCGTACTAGCAACTT
1 TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAGCAACTT
* * **
44925679 TTATC--TACATCGATTAGTGGTTTATCCACACTGTACTAGCAACTT
1 TTATCTGTAC-T-AATGAGTGGTTTATCCACACCATACTAGCAACTT
* * *
44925724 TAATTTGTACTAATGAGTGGTTTATCCATACCATACTAGCAACTT
1 TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAGCAACTT
* *
44925769 TTATCTGTACTAATGAGTGGTTTATTCACACTATACTAG
1 TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAG
44925808 TAGTTTATCT
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.02
45 103 0.94
46 1 0.01
47 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (45 bp):
TTATCTGTACTAATGAGTGGTTTATCCACACCATACTAGCAACTT
Found at i:44926389 original size:24 final size:24
Alignment explanation
Indices: 44926362--44926407 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
44926352 ATTTGTAAGT
44926362 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATGC
* *
44926386 CAAATATATTATACTAATAAAT
1 CAAATAAACTATACTAATAAAT
44926408 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATGC
Found at i:44928352 original size:24 final size:24
Alignment explanation
Indices: 44928325--44928370 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
44928315 ATTTGTAAGT
44928325 CAAATAAACTATACTAATAAATGC
1 CAAATAAACTATACTAATAAATGC
* *
44928349 CAAATATATTATACTAATAAAT
1 CAAATAAACTATACTAATAAAT
44928371 ACTAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
CAAATAAACTATACTAATAAATGC
Found at i:44929642 original size:15 final size:15
Alignment explanation
Indices: 44929622--44929672 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 15
44929612 TTTTTTAAAC
*
44929622 ATATTTAAATTTATT
1 ATATTTAATTTTATT
44929637 ATATTTATTATTGATTATT
1 ATATTTA--ATT--TTATT
44929656 ATATTTAATTTTATT
1 ATATTTAATTTTATT
44929671 AT
1 AT
44929673 TAATTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 14 0.45
17 5 0.16
19 12 0.39
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
ATATTTAATTTTATT
Found at i:44929654 original size:19 final size:18
Alignment explanation
Indices: 44929632--44929674 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
44929622 ATATTTAAAT
44929632 TTATTATATTT-ATTATTGA
1 TTATTATATTTAATT-TT-A
44929651 TTATTATATTTAATTTTA
1 TTATTATATTTAATTTTA
44929669 TTATTA
1 TTATTA
44929675 ATTAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 13 0.57
20 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATTATATTTAATTTTA
Found at i:44929673 original size:25 final size:25
Alignment explanation
Indices: 44929640--44929691 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
44929630 ATTTATTATA
* **
44929640 TTTATTATTGATTATTATATTTAAT
1 TTTATTATTAATTAAAATATTTAAT
44929665 TTTATTATTAATTAAAATATTTAAT
1 TTTATTATTAATTAAAATATTTAAT
44929690 TT
1 TT
44929692 AAAAAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTATTATTAATTAAAATATTTAAT
Found at i:44931297 original size:21 final size:21
Alignment explanation
Indices: 44931280--44931322 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
44931270 TCGGGTTTGG
*
44931280 AGTTTAATGATTTAGGTTTAA
1 AGTTTAAGGATTTAGGTTTAA
44931301 AGTTTAAGGATTTAGGGTTTAA
1 AGTTTAAGGATTTA-GGTTTAA
44931323 GATTACGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (21 bp):
AGTTTAAGGATTTAGGTTTAA
Found at i:44932904 original size:113 final size:114
Alignment explanation
Indices: 44932672--44933130 Score: 521
Period size: 114 Copynumber: 4.0 Consensus size: 114
44932662 CGGCGCTTTC
*** * * **
44932672 TTAGCGGCGTTTTTACGAAAACGCCACAAAAAAACCTAAGACCAACGACGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTCGGGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTT
*
44932737 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGAC-GCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCG-CTGCTAATGCTCAGGGCT
* * *
44932786 TTAGCGGCGTTTTCGGTAAAGCGCAACAAAAGAACCTAAGCCCAACGACGCCGTTTACTGAGC-T
1 TTAGCGGCGTTTTCGGGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTT
* * * *
44932850 TCGGGGCTTTAGCGGCATTTTTAAGTAAGCGCTTCTAATGCTCCGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCTGCTAATGCTCAGGGCT
** * * *
44932899 TTAGCGATG-ATTCTGGGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTACTGAGCT
1 TTAGCGGCGTTTTC-GGGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCT
* * * * *
44932963 TTCGGGGTTTTAGCGGGGTTTTTAAGTTAGCGCTGCTAATGCTTAAGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCTGCTAATGCTCAGGGCT
* * *** * *
44933013 TTAGCGGCGTTTTTGGGAAATGCGCCGCAAAGGGACCTAAGCCCAACGACGCCGTTTTCTTAGCT
1 TTAGCGGCGTTTTCGGGAAA-GCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCT
* * * * *
44933078 TTTGGGGATTTAGTGGCGTTTTT-AGTAAAACGCCGCTAATGCTCAGGGAT
65 TTCGGGGATTTAGCGGCGTTTTTAAGT-AAGCGCTGCTAATGCTCAGGGCT
44933128 TTA
1 TTA
44933131 AAATAATTTA
Statistics
Matches: 288, Mismatches: 51, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
112 4 0.01
113 94 0.33
114 111 0.39
115 79 0.27
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTCGGGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTACTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCTGCTAATGCTCAGGGCT
Found at i:44933870 original size:14 final size:14
Alignment explanation
Indices: 44933846--44933889 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
44933836 TATTAAATAA
44933846 GGTTCAGGGG-TTATG
1 GGTT-AGGGGTTTA-G
44933861 GGTTAGGGGTTTAG
1 GGTTAGGGGTTTAG
*
44933875 GGTTAGGGATTTAG
1 GGTTAGGGGTTTAG
44933889 G
1 G
44933890 ATTGGGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.16, C:0.02, G:0.48, T:0.34
Consensus pattern (14 bp):
GGTTAGGGGTTTAG
Found at i:44933877 original size:103 final size:102
Alignment explanation
Indices: 44933759--44933980 Score: 283
Period size: 103 Copynumber: 2.2 Consensus size: 102
44933749 GATGTTAAGA
44933759 GTTAGGGATTTAGGGTTTAGGGATTT-GATGCTAGGTTA-GAGTTTAGGGTTTAAATTAATTAGT
1 GTTAGGGATTTAGGG-TTAGGGATTTAGAT--TAGGTTATG-GTTTAGGGTTTAAATTAATTAGT
* *
44933822 GTGTTTT-AA-TTATATATTAAATAAGGTTCAGGGGTTATGG
62 GT-TTTTAAATTTATATATTAAATAAAGTTCAGGGGTTAGGG
* * *
44933862 GTTAGGGGTTTAGGGTTAGGGATTTAGGATTGGGTTATGGTTTAGGGTTTAGATTAATTAGTGTT
1 GTTAGGGATTTAGGGTTAGGGATTTA-GATTAGGTTATGGTTTAGGGTTTAAATTAATTAGTGTT
*
44933927 TTTAAATTTATATATTAAATAAAGTTTAGGGGTTAGGG
65 TTTAAATTTATATATTAAATAAAGTTCAGGGGTTAGGG
*
44933965 GTTTA-GGATTTGGGGT
1 G-TTAGGGATTTAGGGT
44933981 CAAGTTTAGG
Statistics
Matches: 105, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
101 4 0.04
102 42 0.40
103 53 0.50
104 6 0.06
ACGTcount: A:0.26, C:0.01, G:0.31, T:0.42
Consensus pattern (102 bp):
GTTAGGGATTTAGGGTTAGGGATTTAGATTAGGTTATGGTTTAGGGTTTAAATTAATTAGTGTTT
TTAAATTTATATATTAAATAAAGTTCAGGGGTTAGGG
Found at i:44933960 original size:89 final size:86
Alignment explanation
Indices: 44933863--44934124 Score: 319
Period size: 90 Copynumber: 2.9 Consensus size: 86
44933853 GGGTTATGGG
* * *
44933863 TTAGGGGTTTA-GGGTTAGGGATTTAGGATTGGGTTATGGTTTAGGGTTTAGATTAATTAGTGTT
1 TTAGGGG-TTAGGGGTTA-GGATTT-GGATAGGGTTAGGGTTTAAGGTTTAGATTAATTAGTGTT
*
44933927 TTTAAATTTATATATTAAATAAAGT
63 TTT-AATTTATATATTAAATAAAAT
* * *
44933952 TTAGGGGTTAGGGGTTTAGGATTTGGGGTCAAGTTTAGGGTTTAAGGTTTAGATTAATTAGTGTT
1 TTAGGGGTTAGGGG-TTAGGATTT-GGAT-AGGGTTAGGGTTTAAGGTTTAGATTAATTAGTGTT
44934017 TGTTAATTTATATATTAAATAAAAT
63 T-TTAATTTATATATTAAATAAAAT
* * * *
44934042 TTAGCGGTTAGGGGTTAAGGATTTGGAGTCGGGTTAGGGTTTAAGATTTAGATTAATTAGTACTT
1 TTAGGGGTTAGGGGTT-AGGATTTGGA-TAGGGTTAGGGTTTAAGGTTTAGATTAATTAGT-GTT
44934107 TTTAATTTATATATTAAA
63 TTTAATTTATATATTAAA
44934125 CAAGTTCTTT
Statistics
Matches: 151, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
88 3 0.02
89 68 0.45
90 78 0.52
91 2 0.01
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.44
Consensus pattern (86 bp):
TTAGGGGTTAGGGGTTAGGATTTGGATAGGGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTT
AATTTATATATTAAATAAAAT
Found at i:44934001 original size:90 final size:88
Alignment explanation
Indices: 44933894--44934124 Score: 336
Period size: 90 Copynumber: 2.6 Consensus size: 88
44933884 TTTAGGATTG
* * * *
44933894 GGTTATGGTTTAGGGTTTAGATTAATTAGTGTTTTTAAATTTATATATTAAATAAAGTTTAGGGG
1 GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTT-AATTTATATATTAAATAAAATTTAGCGG
* *
44933959 TTAGGGGTTTAGGATTTGGGGTCAA
65 TTAGGGGTTAAGGATTTGGAGTC-A
*
44933984 GTTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTGTTAATTTATATATTAAATAAAATTTAGCGG
1 GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTT-TTAATTTATATATTAAATAAAATTTAGCGG
*
44934049 TTAGGGGTTAAGGATTTGGAGTCG
65 TTAGGGGTTAAGGATTTGGAGTCA
* *
44934073 GGTTAGGGTTTAAGATTTAGATTAATTAGTACTTTTTAATTTATATATTAAA
1 GGTTAGGGTTTAAGGTTTAGATTAATTAGT-GTTTTTAATTTATATATTAAA
44934125 CAAGTTCTTT
Statistics
Matches: 128, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
89 45 0.35
90 81 0.63
91 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (88 bp):
GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTAATTTATATATTAAATAAAATTTAGCGGT
TAGGGGTTAAGGATTTGGAGTCA
Found at i:44934407 original size:84 final size:84
Alignment explanation
Indices: 44934319--44934482 Score: 204
Period size: 84 Copynumber: 2.0 Consensus size: 84
44934309 GCCAAAGCGG
* * * * **
44934319 CGCCGTTTCTTTACTGGAATAAAATCATT-TAGTGGCGTTTTGTAGGAAAATGCCGCAAAAGTGA
1 CGCCGTTTCTCTACTCGAATAAAATC-TTATAGTGGCATTTTGTAAGAAAACACCGCAAAAGTGA
*
44934383 ATTACTGTTGGCCAATACGA
65 ATTAATGTTGGCCAATACGA
* * * *
44934403 CGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCATTTTTTAAGAAAACACTGCAAGAGTGAA
1 CGCCGTTTCTCTACTCGAATAAAATCTTATAGTGGCATTTTGTAAGAAAACACCGCAAAAGTGAA
*
44934468 TTAATGTTTGCCAAT
66 TTAATGTTGGCCAAT
44934483 GTGACACTGT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
83 2 0.03
84 65 0.97
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (84 bp):
CGCCGTTTCTCTACTCGAATAAAATCTTATAGTGGCATTTTGTAAGAAAACACCGCAAAAGTGAA
TTAATGTTGGCCAATACGA
Found at i:44934882 original size:84 final size:84
Alignment explanation
Indices: 44934760--44935015 Score: 252
Period size: 84 Copynumber: 3.0 Consensus size: 84
44934750 TTCTTATGTT
* * *** * * * *
44934760 TTAAAATTTGTCAA-AATGGCGCCATTTATCTTGAGGAATGAAATATTTTTGTGGCGTTTTTGAT
1 TTAAAATTTGCCAATAA-GGCGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTA-
*
44934824 AAAAACGCCGCAAGGA-TGTA
64 AAAAACGCCGCAAGGAGTGAA
* ** * *
44934844 TTAAAATTTGCCAA-AGCGGCGCTGTTTCTCTACTGGAATAAAATCTTATAGTGGTGTTTTTTAG
1 TTAAAATTTGCCAATA-AGGCGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTA-
*
44934908 GAAAACGCCGCAA-GAGTGAA
64 AAAAACGCCGCAAGGAGTGAA
* * *
44934928 TTAATATTTGCCAATAAGGTGCCATTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAG
1 TTAAAATTTGCCAATAAGGCGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAA-
*
44934993 AAAACGCCGCAA-GTGTGAA
65 AAAACGCCGCAAGGAGTGAA
44935012 TTAA
1 TTAA
44935016 TGTCTGTCAA
Statistics
Matches: 141, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
83 2 0.01
84 138 0.98
85 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (84 bp):
TTAAAATTTGCCAATAAGGCGCCATTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAAA
AAACGCCGCAAGGAGTGAA
Found at i:44935016 original size:84 final size:83
Alignment explanation
Indices: 44934795--44935016 Score: 259
Period size: 84 Copynumber: 2.6 Consensus size: 83
44934785 TTATCTTGAG
* * * * * *
44934795 GAATGAAATATTTTTGTGGCGTTTTTGATA-AAAACGCCGCAAGGATGTATTAAAATTTGCCAAA
1 GAATGAAATCTTATAGTGGCGTTTTTTA-AGAAAACGCCGCAAGG-TGAATTAATATTTGCCAAA
* ** *
44934859 GCGGCGCTGTTTCTCTACTG
64 GAGGCGCCATTTCTCTACTC
* * *
44934879 GAATAAAATCTTATAGTGGTGTTTTTTAGGAAAACGCCGCAAGAGTGAATTAATATTTGCCAATA
1 GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAG-GTGAATTAATATTTGCCAA-A
*
44934944 -AGGTGCCATTTCTCTACTC
64 GAGGCGCCATTTCTCTACTC
44934963 GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAGTGTGAATTAAT
1 GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAG-GTGAATTAAT
44935017 GTCTGTCAAT
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
84 115 0.98
85 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (83 bp):
GAATGAAATCTTATAGTGGCGTTTTTTAAGAAAACGCCGCAAGGTGAATTAATATTTGCCAAAGA
GGCGCCATTTCTCTACTC
Found at i:44935529 original size:545 final size:544
Alignment explanation
Indices: 44934256--44935771 Score: 2354
Period size: 545 Copynumber: 2.8 Consensus size: 544
44934246 TAAAATTGTA
* * *
44934256 AAATAATTTTGTGGAGTTTTTAATAAAAACGCCGCAAGGAT-TCATTAAAATTTGCCAAAGCGGC
1 AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGT-ATTAAAATTTGCCAAAGCGGC
* * * *
44934320 GCCGTTTCTTTACTGGAATAAAATCATT-TAGTGGCGTTTTGTAGGAAAATGCCGCAAAAGTGAA
65 GCCGTTTCTCTACTGGAATAAAATC-TTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAA
* * ** *
44934384 TTACTGTTGGCCAATACGACGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCATTTTTTAAG
129 TTAATGTTTGCCAATACGGTGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAG
* * * * * * * *
44934449 AAAACACTGCAAGAGTGAATTAATGTTTGCCAATGTGACACTGTTTGGCTTCATGAAATGAATTT
194 AAAACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACCGTTTCGCTTCATGAAATGAATTT
* *
44934514 ATACTGGCGTTTTTGCTAGAAACGCCAGAAATATGCATTAAAGTTTAGCAAAACGGCACCGTCTT
259 ATACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTT
* * * *
44934579 TTGTTTAGTACTTTATTTTGGTGGTGTTTTTTATTAAAACGTTGCAAATATCGGAAGCAATAGCG
324 TTGTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTACAAATATCGGAAGCAATAGCG
* * *
44934644 GGGTTTTGGCCTAAAATGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCGTTTCAGTTGA
389 GCGTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGA
*
44934709 GGAATTTAATTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAA
454 GAAATTTAATTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAA
* *
44934774 AATGGCGCCATTTATCTTGAGGAATG
519 AACGGCACCATTTATCTTGAGGAATG
44934800 AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
1 AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
* *
44934865 CTGTTTCTCTACTGGAATAAAATCTTATAGTGGTGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
66 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
* * *
44934930 AATATTTGCCAATAAGGTGCCATTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
131 AATGTTTGCCAATACGGTGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
*
44934995 AACGCCGCAAGTGTGAATTAATGTCTGTCAATGCGGCACCGTTTCGCTTCATGAAATGAATTTAT
196 AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACCGTTTCGCTTCATGAAATGAATTTAT
*
44935060 ACTGGCGTTTTTACTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
261 ACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
**
44935125 GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTACAAATATTAGAAGCAATAGCGGC
326 GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTACAAATATCGGAAGCAATAGCGGC
44935190 GTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGAGA
391 GTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGAGA
* *
44935255 AATTTAATTTTTTTTAGTGGCATTTTTTGGGAAAACGTCGTTCTTATGTTTTAAAATTTGTCAAA
456 AATTTAA-TTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAAA
*
44935320 ACGGCACCGTTTATCTTGAGGAATG
520 ACGGCACCATTTATCTTGAGGAATG
* *
44935345 AAATATTTTTGTGGCGATTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTTCCAAAGCGGCG
1 AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
* *
44935410 CCATTTCTCTACTGGAATAAAATCTTATAGTGGCATTTTTTAGGAAAACGCCGCAAGAGTGAATT
66 CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
* *
44935475 AATGTTTGCCAATACGGTGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAGGAA
131 AATGTTTGCCAATACGGTGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
44935540 AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACCGTTTCGCTTCATGAAATGAATTTAT
196 AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACCGTTTCGCTTCATGAAATGAATTTAT
* * * *
44935605 ACTGTCGTTTTTGCTAGAAACGCTGAAAATATGCATTAAAGTTTAGTAAAACGGCACCAT-TTTC
261 ACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTT-
* * * * * * * *
44935669 TATTCAGTACTCTATTTCGGTGGCGTTTTCTATTAAAATGCCACAAATGTCGGAAGCAATAGCGA
325 TGTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTACAAATATCGGAAGCAATAGCGG
*** * * * *
44935734 CGTTTTTAACAAAAACGCTGCAAATATATCTTAAAATT
390 CGTTTTGGCCTAAAACGCCGCAAATATATATTCAAATT
44935772 TCTCTAAACG
Statistics
Matches: 890, Mismatches: 78, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
543 2 0.00
544 421 0.47
545 467 0.52
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (544 bp):
AAATATTTTTGTGGCGTTTTTGATAAAAACGCCGCAAGGATGTATTAAAATTTGCCAAAGCGGCG
CCGTTTCTCTACTGGAATAAAATCTTATAGTGGCGTTTTTTAGGAAAACGCCGCAAGAGTGAATT
AATGTTTGCCAATACGGTGCCGTTTCTCTACTCGAATGAAATCTTATAGTGGCGTTTTTTAAGAA
AACGCCGCAAGTGTGAATTAATGTTTGTCAATGCGGCACCGTTTCGCTTCATGAAATGAATTTAT
ACTGGCGTTTTTGCTAGAAACGCCGGAAATATGCATTAAAGTTTAGTAAAACGGCACCGTCTTTT
GTTCAGTACTTTATTTTGGTGGCGTTTTTTATTAAAACGCTACAAATATCGGAAGCAATAGCGGC
GTTTTGGCCTAAAACGCCGCAAATATATATTCAAATTCTTTTATACGCCGTCATTTCAGTTGAGA
AATTTAATTTTTTTAGTGGCATTTTTCGGGAAAACGCCGTTCTTATGTTTTAAAATTTGTCAAAA
CGGCACCATTTATCTTGAGGAATG
Found at i:44935561 original size:84 final size:84
Alignment explanation
Indices: 44935370--44935576 Score: 285
Period size: 84 Copynumber: 2.5 Consensus size: 84
44935360 GATTTTGATA
* ** *
44935370 AAAACGCCGCAAGGATGTATTAAAATTTTCCAA-AGCGGCGCCATTTCTCTACTGGAATAAAATC
1 AAAACGCCGCAAGG-TGAATTAATGTTTGCCAATAGCGGCGCCATTTCTCTACTGGAATAAAATC
44935434 TTATAGTGGCATTTTTTAGG
65 TTATAGTGGCATTTTTTAGG
* * *
44935454 AAAACGCCGCAAGAGTGAATTAATGTTTGCCAATA-CGGTGCCGTTTCTCTACTGGAATGAAATC
1 AAAACGCCGCAAG-GTGAATTAATGTTTGCCAATAGCGGCGCCATTTCTCTACTGGAATAAAATC
*
44935518 TTATAGTGGCGTTTTTTAGG
65 TTATAGTGGCATTTTTTAGG
*
44935538 AAAACGCCGCAAGTGTGAATTAATGTTTGTCAAT-GCGGC
1 AAAACGCCGCAAG-GTGAATTAATGTTTGCCAATAGCGGC
44935577 ACCGTTTCGC
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
84 107 0.98
85 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (84 bp):
AAAACGCCGCAAGGTGAATTAATGTTTGCCAATAGCGGCGCCATTTCTCTACTGGAATAAAATCT
TATAGTGGCATTTTTTAGG
Found at i:44935582 original size:84 final size:83
Alignment explanation
Indices: 44935311--44935584 Score: 280
Period size: 84 Copynumber: 3.3 Consensus size: 83
44935301 TGTTTTAAAA
* *** * * * * * **
44935311 TTTGTCAAAACGGCACCGTTTATCTTGAGGAATGAAATATTTTTGTGGCGATTTTGATAAAAACG
1 TTTGTCAAAACGGCACCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAGGAAAACG
* **
44935376 CCGCAAGGATGTATTAAAA
66 CCGCAAGG-TGAATTAATG
* * * * *
44935395 TTT-TCCAAAGCGGCGCCATTTCTCTACTGGAATAAAATCTTATAGTGGCATTTTTTAGGAAAAC
1 TTTGT-CAAAACGGCACCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAGGAAAAC
44935459 GCCGCAAGAGTGAATTAATG
65 GCCGCAAG-GTGAATTAATG
* * **
44935479 TTTGCCAATACGGTGCCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAGGAAAACG
1 TTTGTCAAAACGGCACCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAGGAAAACG
44935544 CCGCAAGTGTGAATTAATG
66 CCGCAAG-GTGAATTAATG
**
44935563 TTTGTCAATGCGGCACCGTTTC
1 TTTGTCAAAACGGCACCGTTTC
44935585 GCTTCATGAA
Statistics
Matches: 156, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
83 1 0.01
84 154 0.99
85 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (83 bp):
TTTGTCAAAACGGCACCGTTTCTCTACTGGAATGAAATCTTATAGTGGCGTTTTTTAGGAAAACG
CCGCAAGGTGAATTAATG
Found at i:44936694 original size:6 final size:6
Alignment explanation
Indices: 44936661--44936685 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44936651 AATAAATATA
44936661 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
44936686 TAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:44937288 original size:18 final size:18
Alignment explanation
Indices: 44937273--44937342 Score: 88
Period size: 18 Copynumber: 3.7 Consensus size: 18
44937263 TAAAATATGC
44937273 TACATTACTTAAATATAT
1 TACATTACTTAAATATAT
*
44937291 TAC-TTACTAAAATTTATAATT
1 TACATTACTTAAA--TAT-A-T
44937312 TACATTACTTAAATATAT
1 TACATTACTTAAATATAT
44937330 TACATTACTTAAA
1 TACATTACTTAAA
44937343 ATTTATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
17 8 0.18
18 17 0.38
19 4 0.09
20 4 0.09
21 4 0.09
22 8 0.18
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
TACATTACTTAAATATAT
Found at i:44937319 original size:39 final size:41
Alignment explanation
Indices: 44937273--44937349 Score: 140
Period size: 39 Copynumber: 1.9 Consensus size: 41
44937263 TAAAATATGC
44937273 TACATTACTTAAATATATTAC-TTAC-TAAAATTTATAATT
1 TACATTACTTAAATATATTACATTACTTAAAATTTATAATT
44937312 TACATTACTTAAATATATTACATTACTTAAAATTTATA
1 TACATTACTTAAATATATTACATTACTTAAAATTTATA
44937350 TATATTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 21 0.58
40 4 0.11
41 11 0.31
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.45
Consensus pattern (41 bp):
TACATTACTTAAATATATTACATTACTTAAAATTTATAATT
Found at i:44937360 original size:17 final size:17
Alignment explanation
Indices: 44937338--44937371 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44937328 ATTACATTAC
44937338 TTAAAATTTATATATAT
1 TTAAAATTTATATATAT
*
44937355 TTAAAATTTTTATATAT
1 TTAAAATTTATATATAT
44937372 GGTATGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATTTATATATAT
Found at i:44937606 original size:30 final size:30
Alignment explanation
Indices: 44937567--44937624 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
44937557 TTATAAATAA
44937567 TATACATAAAAGTG-ATATACTTACATAACT
1 TATACATAAAAGTGCATA-ACTTACATAACT
* **
44937597 TATATATAAACTTGCATAACTTACATAA
1 TATACATAAAAGTGCATAACTTACATAA
44937625 TAACATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (30 bp):
TATACATAAAAGTGCATAACTTACATAACT
Found at i:44937617 original size:9 final size:9
Alignment explanation
Indices: 44937585--44937968 Score: 142
Period size: 9 Copynumber: 44.3 Consensus size: 9
44937575 AAAGTGATAT
44937585 ACTTACATA
1 ACTTACATA
*
44937594 ACTTATATATAA
1 AC-T-TACAT-A
*
44937606 ACTTGCATA
1 ACTTACATA
44937615 ACTTACATA
1 ACTTACATA
*
44937624 A-TAACATAATA
1 ACTTAC---ATA
44937635 ACTTACATA
1 ACTTACATA
*
44937644 A--TACACA
1 ACTTACATA
44937651 ACTTACATA
1 ACTTACATA
*
44937660 ACTTAAATA
1 ACTTACATA
44937669 ACTTACAT-
1 ACTTACATA
*
44937677 A-GTACATA
1 ACTTACATA
**
44937685 ACTTTGATA
1 ACTTACATA
* *
44937694 ACTAACATT
1 ACTTACATA
*
44937703 A--TACACA
1 ACTTACATA
44937710 ACTTACATA
1 ACTTACATA
*
44937719 ACATACACTTA
1 ACTTACA--TA
*
44937730 A-ATACATA
1 ACTTACATA
*
44937738 ACATACATA
1 ACTTACATA
44937747 A--TACATA
1 ACTTACATA
*
44937754 A--TACACA
1 ACTTACATA
44937761 ACTTA-ATTAA
1 ACTTACA-T-A
*
44937771 TATTATACATA
1 -ACT-TACATA
*
44937782 ACATACATA
1 ACTTACATA
44937791 A--TACATA
1 ACTTACATA
44937798 A--TACATA
1 ACTTACATA
*
44937805 A-TACACATA
1 ACT-TACATA
44937814 ACTTACAT-
1 ACTTACATA
*
44937822 A-GTACATA
1 ACTTACATA
*
44937830 ACTAACATA
1 ACTTACATA
*
44937839 A--TACACA
1 ACTTACATA
*
44937846 ACTTACGTA
1 ACTTACATA
* *
44937855 ACTGAAATA
1 ACTTACATA
44937864 ACTTACATA
1 ACTTACATA
*
44937873 GCTTACATA
1 ACTTACATA
44937882 A--TACATA
1 ACTTACATA
44937889 ACTTACATA
1 ACTTACATA
*
44937898 ACTTATATA
1 ACTTACATA
*
44937907 A-AT-CATA
1 ACTTACATA
44937914 ACTTACATA
1 ACTTACATA
* *
44937923 ATTTACCTA
1 ACTTACATA
44937932 A--TACATA
1 ACTTACATA
* *
44937939 A-ATATATA
1 ACTTACATA
* *
44937947 TCATATCATA
1 ACTTA-CATA
44937957 ACTTACATA
1 ACTTACATA
44937966 ACT
1 ACT
44937969 CATTTATAGT
Statistics
Matches: 282, Mismatches: 56, Indels: 74
0.68 0.14 0.18
Matches are distributed among these distances:
7 69 0.24
8 18 0.06
9 152 0.54
10 18 0.06
11 15 0.05
12 9 0.03
13 1 0.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:44937752 original size:7 final size:7
Alignment explanation
Indices: 44937730--44937843 Score: 63
Period size: 7 Copynumber: 14.9 Consensus size: 7
44937720 CATACACTTA
44937730 AATACAT
1 AATACAT
44937737 AACATACAT
1 -A-ATACAT
44937746 AATACAT
1 AATACAT
*
44937753 AATACAC
1 AATACAT
44937760 AACTTA-ATT
1 AA--TACA-T
44937769 AAT--AT
1 AATACAT
*
44937774 TATACAT
1 AATACAT
44937781 AACATACAT
1 -A-ATACAT
44937790 AATACAT
1 AATACAT
44937797 AATACAT
1 AATACAT
44937804 AATACACAT
1 AAT--ACAT
44937813 AACTTACAT
1 AA--TACAT
*
44937822 AGTACAT
1 AATACAT
44937829 AACTAACAT
1 AA-T-ACAT
44937838 AATACA
1 AATACA
44937844 CAACTTACGT
Statistics
Matches: 86, Mismatches: 6, Indels: 29
0.71 0.05 0.24
Matches are distributed among these distances:
5 3 0.03
6 1 0.01
7 42 0.49
8 6 0.07
9 33 0.38
11 1 0.01
ACGTcount: A:0.54, C:0.18, G:0.01, T:0.28
Consensus pattern (7 bp):
AATACAT
Found at i:44937764 original size:51 final size:51
Alignment explanation
Indices: 44937698--44937822 Score: 148
Period size: 51 Copynumber: 2.4 Consensus size: 51
44937688 TTGATAACTA
* *
44937698 ACATTATACACAACTTACATAACA-TACACTTAA-ATACATAACATACATAAT
1 ACATAATACACAACTTACATAACATTACACATAACATACAT-A-ATACATAAT
* *
44937749 ACATAATACACAACTTA-ATTAATATTATACATAACATACATAATACATAAT
1 ACATAATACACAACTTACA-TAACATTACACATAACATACATAATACATAAT
44937800 ACATAATACACATAACTTACATA
1 ACATAATACAC--AACTTACATA
44937823 GTACATAACT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
50 1 0.02
51 40 0.62
52 8 0.12
53 14 0.22
54 1 0.02
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (51 bp):
ACATAATACACAACTTACATAACATTACACATAACATACATAATACATAAT
Found at i:44937888 original size:16 final size:16
Alignment explanation
Indices: 44937611--44937924 Score: 150
Period size: 16 Copynumber: 18.9 Consensus size: 16
44937601 TATAAACTTG
44937611 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
44937628 CATAATAACTTACATAATA
1 C---ATAACTTACATAATA
*
44937647 CACAACTTACATAACTTA
1 CATAACTTACATAA--TA
* *
44937665 AATAACTTACATAGTA
1 CATAACTTACATAATA
**
44937681 CATAACTTTGATAACTAA
1 CATAACTTACATAA-T-A
* *
44937699 CATTA--TACACAACTTA
1 CATAACTTACATAA--TA
*
44937715 CATAACATACACTTAAATA
1 CATAACTTACA--T-AATA
*
44937734 CATAACATACATAATA
1 CATAACTTACATAATA
*
44937750 CATAA--TACA-CA-A
1 CATAACTTACATAATA
*
44937762 CTTAA-TTA-ATATTATA
1 CATAACTTACATA--ATA
*
44937778 CATAACATACATAATA
1 CATAACTTACATAATA
44937794 CATAA--TACATAATACA
1 CATAACTTACATAAT--A
*
44937810 CATAACTTACATAGTA
1 CATAACTTACATAATA
*
44937826 CATAACTAACATAATA
1 CATAACTTACATAATA
* *
44937842 CACAACTTACGTAACTGA
1 CATAACTTACATAA-T-A
* *
44937860 AATAACTTACATAGCTTA
1 CATAACTTACATA--ATA
44937878 CATAA--TACATAACTTA
1 CATAACTTACATAA--TA
*
44937894 CATAACTTATATAA-A
1 CATAACTTACATAATA
44937909 TCATAACTTACATAAT
1 -CATAACTTACATAAT
44937925 TTACCTAATA
Statistics
Matches: 229, Mismatches: 34, Indels: 68
0.69 0.10 0.21
Matches are distributed among these distances:
12 6 0.03
13 3 0.01
14 12 0.05
15 2 0.01
16 113 0.49
17 7 0.03
18 54 0.24
19 16 0.07
20 14 0.06
21 2 0.01
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:44937902 original size:25 final size:25
Alignment explanation
Indices: 44937585--44937968 Score: 150
Period size: 25 Copynumber: 15.5 Consensus size: 25
44937575 AAAGTGATAT
*
44937585 ACTTACATAACTT--AT-ATATA-A
1 ACTTACATAACTTACATAATACATA
*
44937606 ACTTGCATAACTTACATAATAACATAATA
1 ACTTACATAACTTACATAAT-AC---ATA
*
44937635 ACTTACATAA--TACACAACTTACATA
1 ACTTACATAACTTACATAA--TACATA
* *
44937660 ACTTAAATAACTTACATAGTACATA
1 ACTTACATAACTTACATAATACATA
** * * *
44937685 ACTTTGATAACTAACATTATACACA
1 ACTTACATAACTTACATAATACATA
*
44937710 ACTTACATAACATACACTTAAATACATA
1 ACTTACATAACTTACA--T-AATACATA
* *
44937738 ACATACATAA--TACATAATACACA
1 ACTTACATAACTTACATAATACATA
*
44937761 ACTTA-ATTAA--T--ATTATACATA
1 ACTTACA-TAACTTACATAATACATA
*
44937782 ACATACATAA--TACATAATACATA
1 ACTTACATAACTTACATAATACATA
* *
44937805 A-TACACATAACTTACATAGTACATA
1 ACT-TACATAACTTACATAATACATA
* * *
44937830 ACTAACATAA--TACACAACTTACGTA
1 ACTTACATAACTTACATAA--TACATA
* * *
44937855 ACTGAAATAACTTACATAGCTTACATA
1 ACTTACATAACTTACATA--ATACATA
*
44937882 A--TACATAACTTACATAACTTATATA
1 ACTTACATAACTTACATAA--TACATA
* *
44937907 A-AT-CATAACTTACATAATTTACCTA
1 ACTTACATAACTTACATAA--TACATA
* * *
44937932 A--TACATAAATATATATCATATCATA
1 ACTTACATAACT-TACATAATA-CATA
44937957 ACTTACATAACT
1 ACTTACATAACT
44937969 CATTTATAGT
Statistics
Matches: 276, Mismatches: 50, Indels: 68
0.70 0.13 0.17
Matches are distributed among these distances:
21 28 0.10
22 2 0.01
23 38 0.14
24 6 0.02
25 131 0.47
26 11 0.04
27 31 0.11
28 18 0.07
29 11 0.04
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.31
Consensus pattern (25 bp):
ACTTACATAACTTACATAATACATA
Found at i:44937921 original size:34 final size:35
Alignment explanation
Indices: 44937882--44937968 Score: 92
Period size: 34 Copynumber: 2.5 Consensus size: 35
44937872 AGCTTACATA
*
44937882 ATACATAACTTACATAACTTATATAAATCATA-A-C
1 ATACATAACTTACATAACTTACATAAAT-ATATATC
* * *
44937916 TTACATAATTTACCTAA--TACATAAATATATATC
1 ATACATAACTTACATAACTTACATAAATATATATC
44937949 ATATCATAACTTACATAACT
1 ATA-CATAACTTACATAACT
44937969 CATTTATAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
31 3 0.07
32 9 0.22
33 3 0.07
34 26 0.63
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (35 bp):
ATACATAACTTACATAACTTACATAAATATATATC
Found at i:44939780 original size:21 final size:21
Alignment explanation
Indices: 44939750--44939796 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
44939740 CTACAACTTA
*
44939750 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAAAGGCGGCAGCGAGGG
44939771 AAGCAAAGGCGGCAGCGAGGG
1 AAGCAAAGGCGGCAGCGAGGG
44939792 AAGCA
1 AAGCA
44939797 GAGCAGAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.47, T:0.00
Consensus pattern (21 bp):
AAGCAAAGGCGGCAGCGAGGG
Found at i:44940376 original size:43 final size:43
Alignment explanation
Indices: 44940166--44940375 Score: 294
Period size: 43 Copynumber: 4.9 Consensus size: 43
44940156 TTTGTGAGGA
* * *
44940166 AAGCACCGCTAAAGAACATGACCTTTAACGGTGTTTGTTATAG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATAG
**
44940209 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTCATTATAG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATAG
*
44940252 AAGCGCCGCTAAAGAACATGACCTTTAGCGACGTTTGTTATAG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATAG
* * * * *
44940295 AGGCGCCGCTAAAGAACATGACCTTTACCGGGGTTTGTGACAG
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATAG
* * *
44940338 AGGCGCCGCTAAAGAACATGATCATTAGCGGCGTTTGT
1 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGT
44940376 GCGAAATGCG
Statistics
Matches: 149, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 149 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTTATAG
Found at i:44940772 original size:10 final size:10
Alignment explanation
Indices: 44940749--44940802 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
44940739 TATTAAAAAA
44940749 TATAAAA-AT
1 TATAAAATAT
*
44940758 CATAAAATAT
1 TATAAAATAT
44940768 TATAAAATAT
1 TATAAAATAT
44940778 T-TAGAAATA-
1 TATA-AAATAT
* *
44940787 TAGAAAAAAT
1 TATAAAATAT
44940797 TATAAA
1 TATAAA
44940803 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
9 13 0.36
10 23 0.64
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (10 bp):
TATAAAATAT
Found at i:44941056 original size:18 final size:19
Alignment explanation
Indices: 44941024--44941066 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
44941014 GTTAAAGGAC
44941024 ATTTTTTATACATTTTATA
1 ATTTTTTATACATTTTATA
* *
44941043 ATTTTTTCTA-ATTTTTTA
1 ATTTTTTATACATTTTATA
44941061 ATTTTT
1 ATTTTT
44941067 ATTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTTATACATTTTATA
Found at i:44941083 original size:19 final size:20
Alignment explanation
Indices: 44941061--44941107 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
44941051 TAATTTTTTA
44941061 ATTTTTATTAAAATTTAAT-
1 ATTTTTATTAAAATTTAATG
* *
44941080 ATTTTTA-TAACATTTATTG
1 ATTTTTATTAAAATTTAATG
44941099 ATTTTTATT
1 ATTTTTATT
44941108 TTTATCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 14 0.58
20 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTTATTAAAATTTAATG
Found at i:44941390 original size:92 final size:91
Alignment explanation
Indices: 44941223--44941434 Score: 248
Period size: 92 Copynumber: 2.3 Consensus size: 91
44941213 GTCAAAATGC
* * *
44941223 TTTTTTATGCATTTTGATAGTTCAAGTATCCAATTGAGCGCAAAAAAAAAAAGCAGGGGCTTAAT
1 TTTTTTATGCATTTTGAAAGTTCAAGTATCCAATTGAGCG-AAAAAAAAAAAGCACGGGCTCAAT
*
44941288 TACTTATTTTGAAAAATTTTGAGGGCA
65 TACTTATTTTGAAAAAGTTTGAGGGCA
* * * *
44941315 TTTTTTATTCAATTTGAAAGTTCAAGTATCCAATTGAGTG-TAAAAAAAAAGCAACGGG-TCAAT
1 TTTTTTATGCATTTTGAAAGTTCAAGTATCCAATTGAGCGAAAAAAAAAAAGC-ACGGGCTCAAT
** * *
44941378 GGTTTTTTTTTTGAAAAAGTTTGAGGGCC
65 --TACTTATTTTGAAAAAGTTTGAGGGCA
* *
44941407 TTTCTGATGCATTTTGAAAGTTCAAGTA
1 TTTTTTATGCATTTTGAAAGTTCAAGTA
44941435 CCTAATTAAG
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
90 15 0.15
91 4 0.04
92 82 0.81
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (91 bp):
TTTTTTATGCATTTTGAAAGTTCAAGTATCCAATTGAGCGAAAAAAAAAAAGCACGGGCTCAATT
ACTTATTTTGAAAAAGTTTGAGGGCA
Found at i:44943640 original size:27 final size:27
Alignment explanation
Indices: 44943602--44943654 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
44943592 AAAATGATTA
*
44943602 AAATATGTAAAAAGCTGGGGTTATATG
1 AAATATGTAAAAAGATGGGGTTATATG
44943629 AAATATGTAAAAAGATGGGGTTATAT
1 AAATATGTAAAAAGATGGGGTTATAT
44943655 TTAACTTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (27 bp):
AAATATGTAAAAAGATGGGGTTATATG
Found at i:44946998 original size:14 final size:16
Alignment explanation
Indices: 44946968--44946999 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
44946958 CTACTCTTGG
44946968 TTTAACATTCATTTGT
1 TTTAACATTCATTTGT
44946984 TTTAA-ATTC-TTTGT
1 TTTAACATTCATTTGT
44946998 TT
1 TT
44947000 CAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.22, C:0.09, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTAACATTCATTTGT
Found at i:44947522 original size:25 final size:27
Alignment explanation
Indices: 44947488--44947538 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
44947478 ATATTATTAA
44947488 TATAATATA-TAA-ATGTTATAATAAG
1 TATAATATATTAATATGTTATAATAAG
44947513 TATAATATATTAATATGTTATAATAA
1 TATAATATATTAATATGTTATAATAA
44947539 ACATTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.38
26 3 0.12
27 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (27 bp):
TATAATATATTAATATGTTATAATAAG
Found at i:44948517 original size:43 final size:43
Alignment explanation
Indices: 44948403--44948529 Score: 175
Period size: 43 Copynumber: 3.0 Consensus size: 43
44948393 ATTTTCGATA
*
44948403 TGTGTTTTCGTGTAAGACCACATCTGGGACGTTGGCATCGACT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
* *
44948446 TGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATTGACT
1 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
* * **
44948489 TGTGTTTACGTGTAAGACC-CTGTTTGGGACAATGGCATCGA
1 TGTGTTTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGA
44948530 TCTGTAAATA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 73 0.99
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
Found at i:44949522 original size:30 final size:30
Alignment explanation
Indices: 44949488--44949546 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
44949478 CTTTTCCAAA
*
44949488 TTTATATTTTAACCCCTAACATTTTTTAAC
1 TTTATATCTTAACCCCTAACATTTTTTAAC
* *
44949518 TTTATATCTTGACCCCTAATATTTTTTAA
1 TTTATATCTTAACCCCTAACATTTTTTAA
44949547 ATTACATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.51
Consensus pattern (30 bp):
TTTATATCTTAACCCCTAACATTTTTTAAC
Found at i:44949806 original size:23 final size:24
Alignment explanation
Indices: 44949762--44949806 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
44949752 GAAGACAAGG
*
44949762 AAAAGAAGACAAATTTGAAAGATT
1 AAAAGAAGACAAAATTGAAAGATT
44949786 AAAAGAAGA-AAAATTGAAAGA
1 AAAAGAAGACAAAATTGAAAGA
44949807 AAATAGGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (24 bp):
AAAAGAAGACAAAATTGAAAGATT
Found at i:44950238 original size:31 final size:30
Alignment explanation
Indices: 44950180--44950239 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
44950170 AAAGGGGAGA
*
44950180 AAAGAAAAGAAAAGAGGAAGAAGAGAAGGG
1 AAAGAAAAGAAAAGAAGAAGAAGAGAAGGG
*
44950210 AAAGAAAAAGAAAA-AAGAAGAGGAAGAAGG
1 AAAG-AAAAGAAAAGAAGAAGAAG-AGAAGG
44950240 AAGGAGTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (30 bp):
AAAGAAAAGAAAAGAAGAAGAAGAGAAGGG
Found at i:44951074 original size:17 final size:18
Alignment explanation
Indices: 44951054--44951099 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
44951044 AAAATAATCG
44951054 TGTTTCAAAAATTT-TCA
1 TGTTTCAAAAATTTCTCA
**
44951071 TGTTCTC-AAAATTTCTTG
1 TGTT-TCAAAAATTTCTCA
44951089 TGTTTCAAAAA
1 TGTTTCAAAAA
44951100 AATAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (18 bp):
TGTTTCAAAAATTTCTCA
Found at i:44951099 original size:18 final size:19
Alignment explanation
Indices: 44951053--44951099 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 19
44951043 AAAAATAATC
44951053 GTGTTTCAAAAATTTTCAT
1 GTGTTTCAAAAATTTTCAT
* *
44951072 GT-TCTC-AAAA-TTTCTT
1 GTGTTTCAAAAATTTTCAT
44951088 GTGTTTCAAAAA
1 GTGTTTCAAAAA
44951100 AATAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
16 7 0.30
17 7 0.30
18 7 0.30
19 2 0.09
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (19 bp):
GTGTTTCAAAAATTTTCAT
Found at i:44951176 original size:17 final size:17
Alignment explanation
Indices: 44951154--44951570 Score: 117
Period size: 17 Copynumber: 23.8 Consensus size: 17
44951144 AAGGAAACTT
44951154 CGTGTTTCAAAAATTTC
1 CGTGTTTCAAAAATTTC
*
44951171 CGTGTTTTTAAAAAAATTTC
1 CGTG--TTT-CAAAAATTTC
*
44951191 CGTGTTTCAAAAA-ATC
1 CGTGTTTCAAAAATTTC
*
44951207 CTGTGTTTTCAAAAATTTT
1 C-GTG-TTTCAAAAATTTC
* *
44951226 CGTGTTTTAGAAATTTTC
1 CGTGTTTCA-AAAATTTC
** * *
44951244 ATTTTTTTTTAAAAA-TT-
1 --CGTGTTTCAAAAATTTC
44951261 CGTGTTTTC-AAAATTTC
1 CGTG-TTTCAAAAATTTC
* * **
44951278 TGGTGATAAAAAAATTT-
1 -CGTGTTTCAAAAATTTC
*
44951295 CGTGTTTCAAAAA-TCC
1 CGTGTTTCAAAAATTTC
* * *
44951311 TCATGTTTTCAAAAAATGC
1 -CGTG-TTTCAAAAATTTC
* *
44951330 CGGTGTTTTAAAAATTTT
1 C-GTGTTTCAAAAATTTC
44951348 CGTGTTTTCCAAAAATTT-
1 CGTG-TTT-CAAAAATTTC
*
44951366 TGTGTTTCAAAAAAATTT-
1 CGTGTTTC--AAAAATTTC
* *
44951384 CATGTTTTCAAAAAATTC
1 CGTG-TTTCAAAAATTTC
44951402 TCGTGTTTTCAAAAAATTT-
1 -CGTG-TTTC-AAAAATTTC
*
44951421 CGTGTTTTCAACAA-TTC
1 CGTG-TTTCAAAAATTTC
** * *
44951438 TCGCATTTCACAAATTTT
1 -CGTGTTTCAAAAATTTC
* *
44951456 CGTG-TT--ATAATTTT
1 CGTGTTTCAAAAATTTC
* * * **
44951470 TGTCTTTTTAAAAAAAATC
1 CG--TGTTTCAAAAATTTC
44951489 TCGTGTTTCAAAAATTGT-
1 -CGTGTTTCAAAAATT-TC
* * *
44951507 CTTGTTTTAAAAATTTT
1 CGTGTTTCAAAAATTTC
*
44951524 CGTGTTTCTAAAATTTC
1 CGTGTTTCAAAAATTTC
*
44951541 CGTGTTTTAAAAA-TTC
1 CGTGTTTCAAAAATTTC
*
44951557 TCGTGTTTTAAAAA
1 -CGTGTTTCAAAAA
44951571 AAATTCTCGT
Statistics
Matches: 293, Mismatches: 68, Indels: 78
0.67 0.15 0.18
Matches are distributed among these distances:
14 7 0.02
15 6 0.02
16 27 0.09
17 98 0.33
18 91 0.31
19 37 0.13
20 27 0.09
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (17 bp):
CGTGTTTCAAAAATTTC
Found at i:44951202 original size:19 final size:19
Alignment explanation
Indices: 44951154--44951204 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
44951144 AAGGAAACTT
44951154 CGTGTTTC--AAAAATTTC
1 CGTGTTTCAAAAAAATTTC
*
44951171 CGTGTTTTTAAAAAAATTTC
1 CGTG-TTTCAAAAAAATTTC
44951191 CGTGTTTCAAAAAA
1 CGTGTTTCAAAAAA
44951205 TCCTGTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 4 0.14
18 3 0.10
19 9 0.31
20 13 0.45
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (19 bp):
CGTGTTTCAAAAAAATTTC
Found at i:44951428 original size:18 final size:18
Alignment explanation
Indices: 44951152--44951584 Score: 207
Period size: 18 Copynumber: 24.5 Consensus size: 18
44951142 AAAAGGAAAC
44951152 TTCGTG-TTTC-AAAAAT
1 TTCGTGTTTTCAAAAAAT
*
44951168 TTCCGTGTTTTTAAAAAAAT
1 TT-CGTG-TTTTCAAAAAAT
44951188 TTCCGTG-TTTCAAAAAA-
1 TT-CGTGTTTTCAAAAAAT
* *
44951205 TCCTGTGTTTTCAAAAATT
1 TTC-GTGTTTTCAAAAAAT
* *
44951224 TTCGTGTTTT-AGAAATT
1 TTCGTGTTTTCAAAAAAT
* * **
44951241 TTCATTTTTTTTTAAAAA-
1 TTC-GTGTTTTCAAAAAAT
44951259 TTCGTGTTTTC--AAAAT
1 TTCGTGTTTTCAAAAAAT
** *
44951275 TTC-TGGTGATAAAAAAAT
1 TTCGT-GTTTTCAAAAAAT
44951293 TTCGTG-TTTC-AAAAAT
1 TTCGTGTTTTCAAAAAAT
* *
44951309 CCTCATGTTTTCAAAAAAT
1 -TTCGTGTTTTCAAAAAAT
** *
44951328 GCCGGTGTTTT-AAAAATT
1 TTC-GTGTTTTCAAAAAAT
*
44951346 TTCGTGTTTTCCAAAAAT
1 TTCGTGTTTTCAAAAAAT
*
44951364 TTTGTG-TTTCAAAAAAAT
1 TTCGTGTTTTC-AAAAAAT
*
44951382 TTCATGTTTTCAAAAAAT
1 TTCGTGTTTTCAAAAAAT
44951400 TCTCGTGTTTTCAAAAAAT
1 T-TCGTGTTTTCAAAAAAT
*
44951419 TTCGTGTTTTC-AACAAT
1 TTCGTGTTTTCAAAAAAT
** * *
44951436 TCTCG-CATTTCACAAATT
1 T-TCGTGTTTTCAAAAAAT
* *
44951454 TTCGTG--TT--ATAATT
1 TTCGTGTTTTCAAAAAAT
* * *
44951468 TTTGTCTTTTTAAAAAAAAT
1 TTCGT-GTTTT-CAAAAAAT
*
44951488 CTCGTG-TTTC-AAAAAT
1 TTCGTGTTTTCAAAAAAT
* *
44951504 TGTCTTGTTTT-AAAAATT
1 T-TCGTGTTTTCAAAAAAT
*
44951522 TTCGTG-TTTC-TAAAAT
1 TTCGTGTTTTCAAAAAAT
44951538 TTCCGTGTTTT--AAAAAT
1 TT-CGTGTTTTCAAAAAAT
*
44951555 TCTCGTGTTTTAAAAAAAAT
1 T-TCGTGTTTT-CAAAAAAT
44951575 TCTCGTGTTT
1 T-TCGTGTTT
44951585 AAAAAAAACT
Statistics
Matches: 317, Mismatches: 59, Indels: 78
0.70 0.13 0.17
Matches are distributed among these distances:
14 8 0.03
15 5 0.02
16 32 0.10
17 79 0.25
18 115 0.36
19 42 0.13
20 36 0.11
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (18 bp):
TTCGTGTTTTCAAAAAAT
Found at i:44951591 original size:18 final size:17
Alignment explanation
Indices: 44951286--44951590 Score: 122
Period size: 17 Copynumber: 17.4 Consensus size: 17
44951276 TCTGGTGATA
44951286 AAAAAATT-TCGTGTTT
1 AAAAAATTCTCGTGTTT
* * *
44951302 CAAAAATCCTCATGTTTT
1 AAAAAATTCTCGTG-TTT
*
44951320 CAAAAAATGC-CGGTGTTT
1 -AAAAAATTCTC-GTGTTT
* *
44951338 TAAAAATTTTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
* *
44951356 CCAAAAATT-TTGTGTTT
1 -AAAAAATTCTCGTGTTT
*
44951373 CAAAAAAATT-TCATGTTTT
1 --AAAAAATTCTCGTG-TTT
44951392 CAAAAAATTCTCGTGTTTT
1 -AAAAAATTCTCGTG-TTT
44951411 CAAAAAATT-TCGTGTTTT
1 -AAAAAATTCTCGTG-TTT
* * **
44951429 CAACAATTCTCGCATTT
1 AAAAAATTCTCGTGTTT
* * *
44951446 CACAAATTTTCGTG-TT
1 AAAAAATTCTCGTGTTT
*** * *
44951462 ATAATTTTTGTC-TTTTT
1 A-AAAAATTCTCGTGTTT
*
44951479 AAAAAAAATCTCGTGTTT
1 -AAAAAATTCTCGTGTTT
* * *
44951497 CAAAAATTGTCTTGTTT
1 AAAAAATTCTCGTGTTT
* *
44951514 TAAAAATTTTCGTGTTT
1 AAAAAATTCTCGTGTTT
**
44951531 CTAAAATT-TCCGTGTTT
1 AAAAAATTCT-CGTGTTT
*
44951548 TAAAAATTCTCGTGTTTT
1 AAAAAATTCTCGTG-TTT
44951566 AAAAAAAATTCTCGTGTTT
1 --AAAAAATTCTCGTGTTT
44951585 AAAAAA
1 AAAAAA
44951591 AACTTTTTTA
Statistics
Matches: 218, Mismatches: 51, Indels: 39
0.71 0.17 0.13
Matches are distributed among these distances:
16 10 0.05
17 102 0.47
18 54 0.25
19 39 0.18
20 13 0.06
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (17 bp):
AAAAAATTCTCGTGTTT
Found at i:44962645 original size:13 final size:13
Alignment explanation
Indices: 44962629--44962671 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
44962619 AAAAACAAAA
44962629 AAAAAAGAAACAG
1 AAAAAAGAAACAG
* *
44962642 AAAAAAAAAACAA
1 AAAAAAGAAACAG
*
44962655 AAAAAAGTAAAAAG
1 AAAAAAG-AAACAG
44962669 AAA
1 AAA
44962672 TAAAAATCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 17 0.71
14 7 0.29
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (13 bp):
AAAAAAGAAACAG
Found at i:44962647 original size:27 final size:27
Alignment explanation
Indices: 44962617--44962677 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
44962607 TATTATGCCT
* *
44962617 AAAAAAACAAAAAAAAAAG-AAACAGA
1 AAAAAAAAAAAAAAAAAAGTAAAAAGA
*
44962643 AAAAAAAAACAAAAAAAAGTAAAAAGA
1 AAAAAAAAAAAAAAAAAAGTAAAAAGA
*
44962670 AATAAAAA
1 AAAAAAAA
44962678 TCAAGATGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.85, C:0.05, G:0.07, T:0.03
Consensus pattern (27 bp):
AAAAAAAAAAAAAAAAAAGTAAAAAGA
Found at i:44962666 original size:20 final size:19
Alignment explanation
Indices: 44962620--44962677 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 19
44962610 TATGCCTAAA
44962620 AAAACAAAAAAAAAAGAAACAG
1 AAAA-AAAAAAAAAA-AAA-AG
44962642 AAAAAAAAAACAAAAAAAAG
1 AAAAAAAAAA-AAAAAAAAG
44962662 TAAAAAGAAATAAAAA
1 -AAAAA-AAA-AAAAA
44962678 TCAAGATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 2 0.06
21 14 0.44
22 14 0.44
23 2 0.06
ACGTcount: A:0.84, C:0.05, G:0.07, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAAAG
Found at i:44962676 original size:28 final size:28
Alignment explanation
Indices: 44962616--44962677 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
44962606 ATATTATGCC
*
44962616 TAAAAAAACAAAAAAAAAAGAAACAGAAA
1 TAAAAAAAC-AAAAAAAAAGAAAAAGAAA
44962645 -AAAAAAAC-AAAAAAAAGTAAAAAGAAA
1 TAAAAAAACAAAAAAAAAG-AAAAAGAAA
44962672 TAAAAA
1 TAAAAA
44962678 TCAAGATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.30
27 8 0.27
28 13 0.43
ACGTcount: A:0.84, C:0.05, G:0.06, T:0.05
Consensus pattern (28 bp):
TAAAAAAACAAAAAAAAAGAAAAAGAAA
Found at i:44963821 original size:77 final size:79
Alignment explanation
Indices: 44963529--44963870 Score: 407
Period size: 77 Copynumber: 4.4 Consensus size: 79
44963519 TCAAGAATTA
44963529 TATTTTTCAATTTCTATTTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TATTTTTCAATTTCTA-TTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* ** *
44963590 AGGTCGCATTCTGAGG
65 GGGTC-CACGCCGAGG
* *
44963606 TATTTTTCAATTTCTATTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTG
1 TATTTTTCAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
44963671 GGTCACACGCCGATG
66 GGTC-CACGCCGAGG
* * *
44963686 TA-TTTTAAATTTCTGTTTTTC-AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
1 TATTTTTCAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
44963749 GGT-CACGCTGAGG
66 GGTCCACGCCGAGG
* * * *
44963762 TA-TTTTCAATTTCTATTTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTTAGTTGAGCTTTG
1 TATTTTTCAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
44963826 GGT-TATC-CCGAGG
66 GGTCCA-CGCCGAGG
* *
44963839 TATTTTTCAATTTTTTGTTTTTCAAAAAAAAA
1 TATTTTTCAA-TTTCTATTTTTCAAAAAAAAA
44963871 GGGAAGCTCA
Statistics
Matches: 231, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
76 33 0.14
77 64 0.28
78 50 0.22
79 36 0.16
80 48 0.21
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (79 bp):
TATTTTTCAATTTCTATTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
GGTCCACGCCGAGG
Found at i:44963935 original size:96 final size:94
Alignment explanation
Indices: 44963784--44963962 Score: 234
Period size: 96 Copynumber: 1.9 Consensus size: 94
44963774 CTATTTTTCA
* * * * * *
44963784 AAAAAAAATCAACTCATAATGCGAGAGGTTAGTTGAGCTTTGGGTTATCCCGAGGTATTTTTCAA
1 AAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAACCTCGGGTCATCCCGAGGTA-TTTT-AA
* *
44963849 TTTTTTGTTTTTCAAAAAAAAAGGGAAGCTC
64 ATTTCTGTTTTTCAAAAAAAAAGGGAAGCTC
* *
44963880 AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCA-CGCTGAGGTATTTTAAA
1 AAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAACCTCGGGTCATC-CCGAGGTATTTTAAA
44963944 TTTCTGTTTTTCAAAAAAA
65 TTTCTGTTTTTCAAAAAAA
44963963 TCAACTCATA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
94 20 0.28
95 5 0.07
96 47 0.65
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (94 bp):
AAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAACCTCGGGTCATCCCGAGGTATTTTAAAT
TTCTGTTTTTCAAAAAAAAAGGGAAGCTC
Found at i:44964014 original size:173 final size:170
Alignment explanation
Indices: 44963705--44964037 Score: 499
Period size: 173 Copynumber: 1.9 Consensus size: 170
44963695 TTTCTGTTTT
* *
44963705 TCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCA
1 TCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACGCTGAGGTATTTTAA
* * * *
44963770 ATTTCTATTTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTTAGTTGAGCTTTGGGTTATCCC
66 ATTTCTATTTTTC-AAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATCCC
* *
44963835 GAGGTATTTTTCAATTTTTTGTTTTTCAAAAAAAAAGGGAAGC
130 GAGGTA-TTTT-AAATTTCTGTTTTTCAAAAAAAAAGGGAAGC
44963878 TCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACGCTGAGGTATTTTAA
1 TCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACGCTGAGGTATTTTAA
* *
44963943 ATTTCTGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA-CG
66 ATTTCTATTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT--CATC-
*
44964006 CTGAGGTATTTTAAATTTCTGTTTTTCAAAAA
128 CCGAGGTATTTTAAATTTCTGTTTTTCAAAAA
44964038 TCAACTTATA
Statistics
Matches: 146, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
171 58 0.40
172 5 0.03
173 83 0.57
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (170 bp):
TCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACGCTGAGGTATTTTAA
ATTTCTATTTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATCCCG
AGGTATTTTAAATTTCTGTTTTTCAAAAAAAAAGGGAAGC
Found at i:44964022 original size:77 final size:75
Alignment explanation
Indices: 44963881--44964068 Score: 317
Period size: 75 Copynumber: 2.5 Consensus size: 75
44963871 GGGAAGCTCA
* *
44963881 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGTCACGCTGAGGTATTTTAAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTAAATT
44963946 TCTGTTTTTC
66 TCTGTTTTTC
44963956 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTTAAA
44964021 TTTCTGTTTTTC
64 TTTCTGTTTTTC
*
44964033 --AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
44964069 CTGAGTCCTA
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
75 77 0.71
77 31 0.29
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTAAATT
TCTGTTTTTC
Found at i:44964087 original size:75 final size:74
Alignment explanation
Indices: 44963883--44964123 Score: 315
Period size: 75 Copynumber: 3.2 Consensus size: 74
44963873 GAAGCTCAAA
* *
44963883 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGT-CACGCTGAGGTATTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTAAATTT
44963947 CTGTTTTTC
66 CTGTTTTTC
44963956 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTAAA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTTAAA
44964021 TTTCTGTTTTTC
63 TTTCTGTTTTTC
* * * * * *
44964033 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCC-CTGAGTCCTATGCCGAGGTGTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGTCC-ACGCTGAGGT-ATTTTAAA
*
44964097 TTTCTATTTTTC
63 TTTCTGTTTTTC
**
44964109 AAATTTCAACTCATA
1 AAAAATCAACTCATA
44964124 ATCTGAAAAG
Statistics
Matches: 149, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
74 2 0.01
75 87 0.58
76 29 0.19
77 31 0.21
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTTAAATTT
CTGTTTTTC
Found at i:44964494 original size:30 final size:29
Alignment explanation
Indices: 44964456--44964631 Score: 130
Period size: 30 Copynumber: 5.9 Consensus size: 29
44964446 ACAAAAAATA
44964456 TAAATTACATTTTGGCCCCTAAACTTTTC
1 TAAATTACATTTTGGCCCCTAAACTTTTC
* **
44964485 CAAATTTACATTTTAACCCCT-AACATTTTC
1 TAAA-TTACATTTTGGCCCCTAAAC-TTTTC
* * * *
44964515 TAAACTTGCATCTTGACCCCTAATA-TTTTG
1 TAAA-TTACATTTTGGCCCCTAA-ACTTTTC
*
44964545 TAAATTACATTTGGGCCCCTAAAC-TTTC
1 TAAATTACATTTTGGCCCCTAAACTTTTC
44964573 TAAAAATTACATTTTGG--CCTAATA-TTTTC
1 T--AAATTACATTTTGGCCCCTAA-ACTTTTC
* *
44964602 TTGAAATTACATTTTTGCCCCAAAAACTTT
1 -T-AAATTACATTTTGGCCCC-TAAACTTT
44964632 GCGCCCTTTA
Statistics
Matches: 115, Mismatches: 18, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
28 10 0.09
29 38 0.33
30 57 0.50
31 4 0.03
32 6 0.05
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (29 bp):
TAAATTACATTTTGGCCCCTAAACTTTTC
Found at i:44964807 original size:23 final size:24
Alignment explanation
Indices: 44964763--44964807 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
44964753 GAAGACAAGG
*
44964763 AAAAGAAGACAAATTTGAAAGATT
1 AAAAGAAGACAAAATTGAAAGATT
44964787 AAAAGAAGA-AAAATTGAAAGA
1 AAAAGAAGACAAAATTGAAAGA
44964808 GAATAGGGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.64, C:0.02, G:0.18, T:0.16
Consensus pattern (24 bp):
AAAAGAAGACAAAATTGAAAGATT
Found at i:44965369 original size:26 final size:27
Alignment explanation
Indices: 44965333--44965387 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
44965323 AGAAGAAGAG
*
44965333 AAAAAGCAAAGTAGAAAAAAAGAAAAA
1 AAAAAGCAAAGGAGAAAAAAAGAAAAA
* **
44965360 AAAAAG-AAAGGAGCAAAGCAGAAAAA
1 AAAAAGCAAAGGAGAAAAAAAGAAAAA
44965386 AA
1 AA
44965388 TGAAATAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (27 bp):
AAAAAGCAAAGGAGAAAAAAAGAAAAA
Found at i:44966084 original size:18 final size:18
Alignment explanation
Indices: 44966057--44966102 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
44966047 ATAATAATCG
44966057 TGTTTCAAAAATTT-TCA
1 TGTTTCAAAAATTTCTCA
*
44966074 TGTTCTC-AAAATTTCTCG
1 TGTT-TCAAAAATTTCTCA
44966092 TGTTTCAAAAA
1 TGTTTCAAAAA
44966103 AATAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTTTCAAAAATTTCTCA
Found at i:44966202 original size:37 final size:36
Alignment explanation
Indices: 44966150--44966283 Score: 114
Period size: 37 Copynumber: 3.7 Consensus size: 36
44966140 TTAAAAAAAG
44966150 AAAATTCCGTGTTTCAAAAATTTCCGTGTTTTTAAA
1 AAAATTCCGTGTTTCAAAAATTTCCGTGTTTTTAAA
* *
44966186 AAAATTTCCGTGTTTCAAAAA-ATCC-TGTGTTTTCAA
1 AAAA-TTCCGTGTTTCAAAAATTTCCGTGT-TTTTAAA
** * * * *
44966222 AACTTTTCGTGTTTTAGAAATTTTCGTGTTTTTTTTAAA
1 AAAATTCCGTGTTTCAAAAATTTCCGTG---TTTTTAAA
44966261 AAAATT-CGTGTTTTC-AAAATTTC
1 AAAATTCCGTG-TTTCAAAAATTTC
44966284 TGGTGATAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
35 16 0.21
36 17 0.23
37 18 0.24
38 10 0.13
39 13 0.17
40 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.46
Consensus pattern (36 bp):
AAAATTCCGTGTTTCAAAAATTTCCGTGTTTTTAAA
Found at i:44966205 original size:18 final size:19
Alignment explanation
Indices: 44966150--44966458 Score: 164
Period size: 18 Copynumber: 17.0 Consensus size: 19
44966140 TTAAAAAAAG
44966150 AAAA-TTCCGTG-TTTC-A
1 AAAATTTCCGTGTTTTCAA
*
44966166 AAAATTTCCGTGTTTTTAAA
1 AAAATTTCCGTG-TTTTCAA
44966186 AAAATTTCCGTG-TTTCAA
1 AAAATTTCCGTGTTTTCAA
44966204 AAAA--TCCTGTGTTTTC-A
1 AAAATTTCC-GTGTTTTCAA
* *
44966221 AAACTTTTCGTGTTTT--A
1 AAAATTTCCGTGTTTTCAA
* * *
44966238 GAAATTTTCGTGTTTTTTTTAA
1 AAAATTTCCGTG---TTTTCAA
*
44966260 AAAAATT-CGTGTTTTC--
1 AAAATTTCCGTGTTTTCAA
* **
44966276 AAAATTTCTG-GTGAT-AA
1 AAAATTTCCGTGTTTTCAA
* *
44966293 AAAAATT-CATGTTTTCAAA
1 AAAATTTCCGTGTTTTC-AA
44966312 GAAAATTT-CGTG-TTTC-A
1 -AAAATTTCCGTGTTTTCAA
*
44966329 AAAA-TCCTCGTGTTTTCAA
1 AAAATTTC-CGTGTTTTCAA
*
44966348 AAAA-TGCCGGTGTTTT--A
1 AAAATTTCC-GTGTTTTCAA
*
44966365 AAAATTTTCGTGTTTTCTAA
1 AAAATTTCCGTGTTTTC-AA
**
44966385 AAAATTTTTGTG-TTTCAAA
1 AAAATTTCCGTGTTTTC-AA
*
44966404 AAAATTT-CATGTTTTCAA
1 AAAATTTCCGTGTTTTCAA
*
44966422 AAAATTCCCGTGTTTTC-A
1 AAAATTTCCGTGTTTTCAA
*
44966440 AAAATTTTCGTGTTTTCAA
1 AAAATTTCCGTGTTTTCAA
44966459 CAATTCTCGC
Statistics
Matches: 229, Mismatches: 32, Indels: 61
0.71 0.10 0.19
Matches are distributed among these distances:
15 1 0.00
16 20 0.09
17 52 0.23
18 57 0.25
19 51 0.22
20 38 0.17
21 4 0.02
22 6 0.03
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (19 bp):
AAAATTTCCGTGTTTTCAA
Found at i:44966206 original size:20 final size:20
Alignment explanation
Indices: 44966144--44966207 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
44966134 CGTTTTTTAA
*
44966144 AAAAAGAAAATTCCGTGTTTC
1 AAAAA-AAATTTCCGTGTTTC
*
44966165 ---AAAAATTTCCGTGTTTT
1 AAAAAAAATTTCCGTGTTTC
*
44966182 TAAAAAAATTTCCGTGTTTC
1 AAAAAAAATTTCCGTGTTTC
44966202 AAAAAA
1 AAAAAA
44966208 TCCTGTGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 13 0.36
18 2 0.06
20 21 0.58
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAAAAAATTTCCGTGTTTC
Found at i:44966332 original size:37 final size:36
Alignment explanation
Indices: 44966291--44966458 Score: 142
Period size: 37 Copynumber: 4.6 Consensus size: 36
44966281 TTCTGGTGAT
* * *
44966291 AAAAAAATTCATGTTTTCAAAGAAAATTTCGTGTTTC
1 AAAAATATTCGTGTTTTCAAA-AAAATTCCGTGTTTC
** * *
44966328 AAAAATCCTCGTGTTTTC-AAAAAATGCCGGTGTTTT
1 AAAAATATTCGTGTTTTCAAAAAAATTCC-GTGTTTC
* * **
44966364 AAAAATTTTCGTGTTTTCTAAAAAATTTTTGTGTTTC
1 AAAAATATTCGTGTTTTC-AAAAAAATTCCGTGTTTC
* *
44966401 AAAAAAATTTCATGTTTTC-AAAAAATTCCCGTGTTTTC
1 AAAAATA-TTCGTGTTTTCAAAAAAATT-CCGTG-TTTC
*
44966439 AAAAATTTTCGTGTTTTCAA
1 AAAAATATTCGTGTTTTCAA
44966459 CAATTCTCGC
Statistics
Matches: 101, Mismatches: 23, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
35 6 0.06
36 31 0.31
37 38 0.38
38 26 0.26
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (36 bp):
AAAAATATTCGTGTTTTCAAAAAAATTCCGTGTTTC
Found at i:44966463 original size:18 final size:18
Alignment explanation
Indices: 44966157--44966598 Score: 222
Period size: 17 Copynumber: 24.8 Consensus size: 18
44966147 AAGAAAATTC
*
44966157 CGTG-TTTCAAAAATTTC
1 CGTGTTTTCAAAAATTTT
* *
44966174 CGTGTTTTTAAAAAAATTTC
1 CGTG-TTTT-CAAAAATTTT
* *
44966194 CGTG-TTTCAAAAA-ATC
1 CGTGTTTTCAAAAATTTT
*
44966210 CTGTGTTTTCAAAACTTTT
1 C-GTGTTTTCAAAAATTTT
*
44966229 CGTGTTTT-AGAAATTTT
1 CGTGTTTTCAAAAATTTT
* **
44966246 CGTGTTTTTTTTAAAAAAATT
1 CGTG---TTTTCAAAAATTTT
44966267 CGTGTTTTC-AAAA-TTT
1 CGTGTTTTCAAAAATTTT
** **
44966283 C-TGGTGAT-AAAAAAATT
1 CGT-GTTTTCAAAAATTTT
* *
44966300 CATGTTTTCAAAGAAAATTT
1 CGTGTTTTC-AA-AAATTTT
**
44966320 CGTG-TTTCAAAAATCCT
1 CGTGTTTTCAAAAATTTT
* **
44966337 CGTGTTTTCAAAAAATGC
1 CGTGTTTTCAAAAATTTT
44966355 CGGTGTTTT-AAAAATTTT
1 C-GTGTTTTCAAAAATTTT
44966373 CGTGTTTTCTAAAAAATTTT
1 CGTGTTTTC--AAAAATTTT
* *
44966393 TGTG-TTTCAAAAAAATTT
1 CGTGTTTTC-AAAAATTTT
* **
44966411 CATGTTTTCAAAAAATTCC
1 CGTGTTTTC-AAAAATTTT
44966430 CGTGTTTTCAAAAATTTT
1 CGTGTTTTCAAAAATTTT
* *
44966448 CGTGTTTTCAACAATTCT
1 CGTGTTTTCAAAAATTTT
** *
44966466 CG-CATTTCACAAATTTT
1 CGTGTTTTCAAAAATTTT
*
44966483 CGTGTTTT---AATTTTT
1 CGTGTTTTCAAAAATTTT
* * * * *
44966498 TGTCTTTTTAAAAAAAATCT
1 CGT-GTTTT-CAAAAATTTT
*
44966518 CGTG-TTTCAAAAATTGT
1 CGTGTTTTCAAAAATTTT
*
44966535 CTTGTTTT-AAAAATTTT
1 CGTGTTTTCAAAAATTTT
* *
44966552 CGTG-TTTCTAAAATTTC
1 CGTGTTTTCAAAAATTTT
*
44966569 CGTGTTTT-AAAAATTCT
1 CGTGTTTTCAAAAATTTT
44966586 CGTGTTTT-AAAAA
1 CGTGTTTTCAAAAA
44966599 AAATTCTCGT
Statistics
Matches: 325, Mismatches: 68, Indels: 64
0.71 0.15 0.14
Matches are distributed among these distances:
15 9 0.03
16 20 0.06
17 111 0.34
18 90 0.28
19 41 0.13
20 44 0.14
21 10 0.03
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (18 bp):
CGTGTTTTCAAAAATTTT
Found at i:44966602 original size:20 final size:19
Alignment explanation
Indices: 44966504--44966620 Score: 81
Period size: 17 Copynumber: 6.6 Consensus size: 19
44966494 TTTTTGTCTT
44966504 TTTAAAAAAAA-TCTCGTG
1 TTTAAAAAAAATTCTCGTG
* * *
44966522 TTT--CAAAAATTGTCTTG
1 TTTAAAAAAAATTCTCGTG
* *
44966539 TTT--TAAAAATTTTCGTG
1 TTTAAAAAAAATTCTCGTG
** *
44966556 TTT-CTAAAATTTC-CGTG
1 TTTAAAAAAAATTCTCGTG
*
44966573 TTT--TAAAAATTCTCGTG
1 TTTAAAAAAAATTCTCGTG
44966590 TTTTAAAAAAAATTCTCGTG
1 -TTTAAAAAAAATTCTCGTG
44966610 TTTAAAAAAAA
1 TTTAAAAAAAA
44966621 CCTTTTTTTA
Statistics
Matches: 83, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
16 13 0.16
17 33 0.40
18 13 0.16
19 11 0.13
20 13 0.16
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (19 bp):
TTTAAAAAAAATTCTCGTG
Found at i:44971861 original size:15 final size:16
Alignment explanation
Indices: 44971843--44971874 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
44971833 TTTTTTTCAA
44971843 TTTTATTTTT-ATTTT
1 TTTTATTTTTAATTTT
44971858 TTTTATTTTTAATTTT
1 TTTTATTTTTAATTTT
44971874 T
1 T
44971875 AAAAGTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTATTTTTAATTTT
Found at i:44971861 original size:22 final size:22
Alignment explanation
Indices: 44971833--44971875 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
44971823 TCACCATCTC
*
44971833 TTTTTTTCAATTTT-ATTTTTA
1 TTTTTTTTAATTTTAATTTTTA
*
44971854 TTTTTTTTATTTTTAATTTTTA
1 TTTTTTTTAATTTTAATTTTTA
44971876 AAAGTTATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTTTTAATTTTAATTTTTA
Found at i:44973603 original size:40 final size:39
Alignment explanation
Indices: 44973501--44973603 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 39
44973491 CTAATAATCG
* *
44973501 AGCATTAGCGGCATTTTAC-GAAAAACGCCGCAAAATATC
1 AGCATTAGCGGCGTTTTACAAAAAAACGCCGCAAAATA-C
* ** *
44973540 AGCATTAGCGGCGCTACATAAAAAAACGCCGCTAAAACTA-
1 AGCATTAGCGGCGTTTTACAAAAAAACGCCGC-AAAA-TAC
*
44973580 AGCATTAGCAGCGTTTTACAAAAA
1 AGCATTAGCGGCGTTTTACAAAAA
44973604 GTGCCGCAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
39 14 0.28
40 30 0.60
41 4 0.08
42 2 0.04
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.19
Consensus pattern (39 bp):
AGCATTAGCGGCGTTTTACAAAAAAACGCCGCAAAATAC
Found at i:44973895 original size:114 final size:113
Alignment explanation
Indices: 44973590--44973936 Score: 550
Period size: 113 Copynumber: 3.1 Consensus size: 113
44973580 AGCATTAGCA
* *
44973590 GCGTTTTACAAAAAGTGCCGCAATAGAGTCACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* * *
44973655 ATTAGCGGCGGTTTTTCCCAAGCGCCGCTAAAACTCCGTTCTTCAGCG
66 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
* *
44973703 GCGTTTTATAAAAAGCGCCGCAATGGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* *
44973768 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCT
66 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
*
44973816 GCGTTTTACAAAAAGCGTCGCAAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
1 GCGTTTTACAAAAAGCGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
* * * *
44973881 CACTAGTGGCGGTTTTTGCCCAAACGCCGCTAATAATCCGTTCTTCAACG
65 CATTAGTGGCGG-TTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
44973931 GCGTTT
1 GCGTTT
44973937 GGCGTTAAGC
Statistics
Matches: 214, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
113 123 0.57
114 53 0.25
115 38 0.18
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (113 bp):
GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCG
Found at i:44974107 original size:41 final size:41
Alignment explanation
Indices: 44974046--44974138 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 41
44974036 GATGCTCAGC
* * *
44974046 TCTAAAGCGGCGTTTATGGAG-AGTCGCCGCTAA-TGTTCCGG
1 TCTATAGCGGCGTTCATGGAGAAG-CGCCGCTAACTCTT-CGG
* * *
44974087 TCTATAGCGGCGTTCCTGGAGAAGCGCCGGTAACTCTTGGG
1 TCTATAGCGGCGTTCATGGAGAAGCGCCGCTAACTCTTCGG
44974128 TCTATAGCGGC
1 TCTATAGCGGC
44974139 ATTTGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 39 0.89
42 5 0.11
ACGTcount: A:0.18, C:0.24, G:0.32, T:0.26
Consensus pattern (41 bp):
TCTATAGCGGCGTTCATGGAGAAGCGCCGCTAACTCTTCGG
Found at i:44976653 original size:16 final size:16
Alignment explanation
Indices: 44976629--44976659 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44976619 ATTTTCCCTA
44976629 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
44976645 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
44976660 CTCATAAACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:44977831 original size:27 final size:27
Alignment explanation
Indices: 44977800--44977855 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
44977790 TTTAATAGAT
* *
44977800 AATTTTATTTGTATTAACAATTTTTAA
1 AATTTTAATTATATTAACAATTTTTAA
44977827 AATTTTAATTATATTAACAATTTTTAA
1 AATTTTAATTATATTAACAATTTTTAA
44977854 AA
1 AA
44977856 ATTACATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (27 bp):
AATTTTAATTATATTAACAATTTTTAA
Found at i:44977864 original size:27 final size:27
Alignment explanation
Indices: 44977811--44977870 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
44977801 ATTTTATTTG
*
44977811 TATTAACAATTTTTAAAATTTTAATTA
1 TATTAACAATTTTTAAAATATTAATTA
44977838 TATTAACAATTTTTAAAA-ATTACATTA
1 TATTAACAATTTTTAAAATATTA-ATTA
*
44977865 TTTTAA
1 TATTAA
44977871 TAAAAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (27 bp):
TATTAACAATTTTTAAAATATTAATTA
Found at i:44978265 original size:14 final size:14
Alignment explanation
Indices: 44978243--44978282 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
44978233 TATGACACCA
*
44978243 AATATATTTTAAAC
1 AATAAATTTTAAAC
44978257 AATAAATTTTAAAC
1 AATAAATTTTAAAC
* *
44978271 ATTAAAGTTTAA
1 AATAAATTTTAA
44978283 TTTTAAACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (14 bp):
AATAAATTTTAAAC
Found at i:44984363 original size:87 final size:87
Alignment explanation
Indices: 44984227--44984385 Score: 216
Period size: 87 Copynumber: 1.8 Consensus size: 87
44984217 GGCAACATCA
* * *
44984227 AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAGC
1 AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGAAGATACGACAGC
44984292 GAGAGAAATAGAGGCAGCAGCG
66 GAGAGAAATAGAGGCAGCAGCG
* * *
44984314 AGAGAAGCTGAGGTTCAACGAAAG-TATG-AGCAACTGCAGC-AGCAGCTTAAAGAAGATACGAC
1 AGAGAAGCTGAGGTTCAA-AAAAGATATGAAG-AACTCCAGCTA-CAACTTAAAGAAGATACGAC
44984376 AGCGAGAGAA
63 AGCGAGAGAA
44984386 GCAGCGGCTG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
86 3 0.05
87 56 0.89
88 4 0.06
ACGTcount: A:0.42, C:0.17, G:0.29, T:0.13
Consensus pattern (87 bp):
AGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGAAGATACGACAGC
GAGAGAAATAGAGGCAGCAGCG
Found at i:44985125 original size:173 final size:171
Alignment explanation
Indices: 44984722--44985190 Score: 767
Period size: 173 Copynumber: 2.7 Consensus size: 171
44984712 CAAAATTAGC
* * *
44984722 GGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCATTTTTTGGCTAAGCACCG
1 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGTGGCATTTTTTGGCTAAGCACCG
*
44984787 CTAAAGACCATGGTCTATAGTGGCGTTTTTCGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTG
66 CTAAAGACCATGGTCTATAGTGGCGTTTTTAGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTG
* *
44984852 GCGTTTTTGGCTAAGCGCCTCTAAAGACCATGGTCTATAGT
131 GCGTTTTTGGCTAAGCGCCGCTAAAGACCATAGTCTATAGT
* * * *
44984893 GGCGTTTTGTGGCTAAGCGCTGCTAAAGACCATGATCTATAGTGACGTTTTTTGGCTAAGCGCCG
1 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGTGGCATTTTTTGGCTAAGCACCG
* * * *
44984958 CTAAAAACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCGTCGCTAAAGACCATGGTCTATAGTG
66 CTAAAGACCATGGTCTATAGTGGCGTTTTTAGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTG
*
44985023 GCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATAGTCTATAGT
131 GCG--TTTTTGGCTAAGCGCCGCTAAAGACCATAGTCTATAGT
*
44985066 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGTGGCATTTTTCGGCTAAGCACCG
1 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGTGGCATTTTTTGGCTAAGCACCG
*
44985131 CTAAAGACCATGGTCTACAGTGGCGTTTTTAGGCTAAGCGCCGCTAAAGACCATGGTCTA
66 CTAAAGACCATGGTCTATAGTGGCGTTTTTAGGCTAAGCGCCGCTAAAGACCATGGTCTA
44985191 CAGAGCGTTG
Statistics
Matches: 272, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
171 122 0.45
173 150 0.55
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (171 bp):
GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGTGGCATTTTTTGGCTAAGCACCG
CTAAAGACCATGGTCTATAGTGGCGTTTTTAGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTG
GCGTTTTTGGCTAAGCGCCGCTAAAGACCATAGTCTATAGT
Found at i:44985193 original size:43 final size:43
Alignment explanation
Indices: 44984722--44985190 Score: 733
Period size: 43 Copynumber: 10.9 Consensus size: 43
44984712 CAAAATTAGC
*
44984722 GGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
44984765 GGCATTTTTTGGCTAAGCACCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
44984808 GGCGTTTTTCGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
44984851 GGCG-TTTTTGGCTAAGCGCCTCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
44984893 GGCGTTTTGTGGCTAAGCGCTGCTAAAGACCATGATCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
44984936 GACGTTTTTTGGCTAAGCGCCGCTAAAAACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
44984979 GGCGTTTTTTGTCTAAGCGTCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
44985022 GGCGTTTTTTTTGCTAAGCGCCGCTAAAGACCATAGTCTATAGT
1 GGCG-TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
44985066 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACCATGATCTATAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
44985109 GGCATTTTTCGGCTAAGCACCGCTAAAGACCATGGTCTACAGT
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
44985152 GGCGTTTTTAGGCTAAGCGCCGCTAAAGACCATGGTCTA
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTA
44985191 CAGAGCGTTG
Statistics
Matches: 386, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
42 40 0.10
43 307 0.80
44 39 0.10
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (43 bp):
GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:44985348 original size:21 final size:21
Alignment explanation
Indices: 44985305--44985348 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
44985295 ATTTGCGGCG
*
44985305 CTAAAAAACGCCGCTATAGAC
1 CTAAAAAACGCCGCTATAAAC
44985326 CTAAAAAAGCGCCGCTA-AAAC
1 CTAAAAAA-CGCCGCTATAAAC
44985347 CT
1 CT
44985349 TGTTTTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.43, C:0.30, G:0.14, T:0.14
Consensus pattern (21 bp):
CTAAAAAACGCCGCTATAAAC
Found at i:44985529 original size:16 final size:17
Alignment explanation
Indices: 44985499--44985531 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
44985489 ATTTGTGATA
44985499 ATTATTACTAATTTAAT
1 ATTATTACTAATTTAAT
44985516 ATTATTAC-AATTTAAT
1 ATTATTACTAATTTAAT
44985532 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATTACTAATTTAAT
Found at i:44987153 original size:26 final size:27
Alignment explanation
Indices: 44987124--44987176 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
44987114 TTTGTTTTTC
44987124 TATTTCTAA-AAATAAAT-TTCTCAACA
1 TATTTCTAATAAAT-AATCTTCTCAACA
44987150 TATTTCTAATTAAATAATCTTCTCAAC
1 TATTTCTAA-TAAATAATCTTCTCAAC
44987177 CAAATTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 9 0.38
27 3 0.12
28 12 0.50
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (27 bp):
TATTTCTAATAAATAATCTTCTCAACA
Found at i:44987459 original size:41 final size:43
Alignment explanation
Indices: 44987414--44987494 Score: 121
Period size: 41 Copynumber: 1.9 Consensus size: 43
44987404 TCATTTTGGA
* *
44987414 GAAAACCATAATTATTTCCAAGTG-TTTC-CATTTCTCCAATT
1 GAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCAATT
*
44987455 GAAAACCATAATCATTTTCAAATGATTTCTCATTTCTCCA
1 GAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCA
44987495 TTTTTACCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 21 0.60
42 4 0.11
43 10 0.29
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.38
Consensus pattern (43 bp):
GAAAACCATAATCATTTCCAAATGATTTCTCATTTCTCCAATT
Found at i:45005023 original size:9 final size:9
Alignment explanation
Indices: 45005009--45005037 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
45004999 TTGGTTTTCG
45005009 AATTCAAAT
1 AATTCAAAT
45005018 AATTCAAAT
1 AATTCAAAT
45005027 AATTCAAAT
1 AATTCAAAT
45005036 AA
1 AA
45005038 ACCAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (9 bp):
AATTCAAAT
Found at i:45005043 original size:18 final size:18
Alignment explanation
Indices: 45005009--45005045 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45004999 TTGGTTTTCG
**
45005009 AATTCAAATAATTCAAAT
1 AATTCAAATAAACCAAAT
45005027 AATTCAAATAAACCAAAT
1 AATTCAAATAAACCAAAT
45005045 A
1 A
45005046 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTCAAATAAACCAAAT
Found at i:45006152 original size:3 final size:3
Alignment explanation
Indices: 45006146--45006177 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
45006136 CCTCCTCCTC
45006146 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45006178 AAACGGAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:45007031 original size:20 final size:20
Alignment explanation
Indices: 45006995--45007032 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45006985 TCATAAAATT
**
45006995 TTATAAAATTATTAAAATAA
1 TTATAAAATTAAGAAAATAA
45007015 TTATAAAATTAAGAAAAT
1 TTATAAAATTAAGAAAAT
45007033 TACATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TTATAAAATTAAGAAAATAA
Found at i:45009243 original size:17 final size:16
Alignment explanation
Indices: 45009192--45009243 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
45009182 ATATTTTTTA
*
45009192 AAAAATAATTAAATAT
1 AAAAATAATTAAAAAT
* *
45009208 GAAAAAGAA-TAATAAT
1 -AAAAATAATTAAAAAT
45009224 AAAAACTAATTAAAAAT
1 AAAAA-TAATTAAAAAT
45009241 AAA
1 AAA
45009244 GAAAATGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 5 0.18
16 7 0.25
17 16 0.57
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (16 bp):
AAAAATAATTAAAAAT
Found at i:45011287 original size:65 final size:67
Alignment explanation
Indices: 45011183--45011310 Score: 217
Period size: 65 Copynumber: 1.9 Consensus size: 67
45011173 TTTAATAAAA
45011183 TTATATTTTTTATATATAAAATATTTACGAATAACATAATTTAGTGCATATATAAAAATTTAATT
1 TTATATTTTTTATATATAAAATATTTACGAATAACATAATTTAGTGCATATATAAAAATTTAATT
45011248 TT
66 TT
*
45011250 TTATATTTTTTAT-T-TAAAATATTTAC-ACATAATATAATTTAGTGCATATATAAAAATTTAA
1 TTATATTTTTTATATATAAAATATTTACGA-ATAACATAATTTAGTGCATATATAAAAATTTAA
45011311 ACATTATCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
64 1 0.02
65 44 0.75
66 1 0.02
67 13 0.22
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (67 bp):
TTATATTTTTTATATATAAAATATTTACGAATAACATAATTTAGTGCATATATAAAAATTTAATT
TT
Found at i:45011584 original size:20 final size:20
Alignment explanation
Indices: 45011561--45011621 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
45011551 CATCTCTGCG
*
45011561 TTTCCCTTTTTTCCTTCTTA
1 TTTCCCTTTTTTCCTTATTA
*
45011581 TTTCCC----TT-CATATTA
1 TTTCCCTTTTTTCCTTATTA
*
45011596 TTTCCCTTTTTTCCTTTTTA
1 TTTCCCTTTTTTCCTTATTA
45011616 TTTCCC
1 TTTCCC
45011622 CATCTACAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 11 0.34
16 2 0.06
19 2 0.06
20 17 0.53
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTCCCTTTTTTCCTTATTA
Found at i:45012789 original size:15 final size:15
Alignment explanation
Indices: 45012769--45012800 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
45012759 TATTAGACTG
45012769 AAATGCTTTACTATT
1 AAATGCTTTACTATT
45012784 AAATGCTTTACTATT
1 AAATGCTTTACTATT
45012799 AA
1 AA
45012801 GTTGTGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
AAATGCTTTACTATT
Found at i:45018655 original size:63 final size:63
Alignment explanation
Indices: 45018577--45018702 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
45018567 TCTGCCAGCA
* *
45018577 GAGACATTCTTGCACTCGCTTCCTTTGAGGTTAACCTTTCTAGCATAGAGCTAGGGAGCACTG
1 GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
45018640 GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
1 GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
45018703 TTACCGTCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (63 bp):
GAGACATTCTTGCACTCGCTTCCCTTGAGGTTAACCTTTCTAGCATAGAGCTAGGAAGCACTG
Found at i:45019507 original size:16 final size:16
Alignment explanation
Indices: 45019486--45019525 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
45019476 TGAATTACTT
*
45019486 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
45019502 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
45019518 ATTACAGC
1 ATTACAGC
45019526 GAACCAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:45020885 original size:23 final size:22
Alignment explanation
Indices: 45020817--45020896 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 22
45020807 AAATGTCGAG
45020817 AATTGTATTGTAGAATATATTG-
1 AATTGTATTGTAGAAT-TATTGC
* ** *
45020839 AACTGTATT-TACAGAAACACTGC
1 AATTGTATTGT--AGAATTATTGC
45020862 AAATTGTATTGTAGAATTATTGC
1 -AATTGTATTGTAGAATTATTGC
45020885 AATCTGTATTGT
1 AAT-TGTATTGT
45020897 CTGTATTGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
21 1 0.02
22 14 0.32
23 20 0.45
24 8 0.18
25 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (22 bp):
AATTGTATTGTAGAATTATTGC
Found at i:45020924 original size:32 final size:32
Alignment explanation
Indices: 45020866--45020926 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
45020856 CACTGCAAAT
***
45020866 TGTATTGTAGAATTATTGCAATCTGTATTGTC
1 TGTATTGTAGAATTACCACAATCTGTATTGTC
45020898 TGTATTGTAGAATTACCACGAA-CTGTATT
1 TGTATTGTAGAATTACCAC-AATCTGTATT
45020927 TAAAGAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.92
33 2 0.08
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (32 bp):
TGTATTGTAGAATTACCACAATCTGTATTGTC
Done.