Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 156 of 182
Found at i:48004109 original size:123 final size:127
Alignment explanation
Indices: 48003891--48004185 Score: 305
Period size: 123 Copynumber: 2.3 Consensus size: 127
48003881 AGCGCTTAGA
* * * * *
48003891 CACAAGCGCCACTAAAAGTCGGGTCATTAGCGGCGCTTAGCCACAAGCGTCGCTAAAGGTCGAGT
1 CACAAACGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTAGCCACAAGCGCCGCTAAAAGTCGAGT
** * *
48003956 CATTAGCGGCGCTTCACCGTAAGCGTCGCTAAAAG-TGG-A-GTCATTAGCGACGC-TTACC
66 CATTAGCGGCGCTTCACCACAAACGCCGCTAAAAGCTGGCATGTCATTAGCGACGCTTTACC
* * * * *
48004014 CACAAACGCCGCTAATGGTCGGGTCATTAGCGGCGCTTCA-CCGCGAGTGCCGCTAAAAGTGGAG
1 CACAAACGCCGCTAAAGGTCGGGTCATTAGCGGCGCTT-AGCCACAAGCGCCGCTAAAAGTCGAG
* *
48004078 TCATTAGCGGCGCTT-ACCCACAAACGCCGCTAAAGGTCTGGTCATTCTGGTCATTAGCGGCGCT
65 TCATTAGCGGCGCTTCA-CCACAAACGCCGCTAAAAG-CTGG-CA---T-GTCATTAGCGACGCT
*
48004142 TTTCC
123 TTACC
* *
48004147 CACAAACGCCGCTAAAGGTCGTGTCATTAGCGGCACTTA
1 CACAAACGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTA
48004186 TATAGAAAGC
Statistics
Matches: 140, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
122 1 0.01
123 81 0.58
124 1 0.01
125 3 0.02
127 1 0.01
132 14 0.10
133 39 0.28
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.21
Consensus pattern (127 bp):
CACAAACGCCGCTAAAGGTCGGGTCATTAGCGGCGCTTAGCCACAAGCGCCGCTAAAAGTCGAGT
CATTAGCGGCGCTTCACCACAAACGCCGCTAAAAGCTGGCATGTCATTAGCGACGCTTTACC
Found at i:48004160 original size:51 final size:50
Alignment explanation
Indices: 48004077--48004174 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 50
48004067 TAAAAGTGGA
48004077 GTCATTAGCGGCGCTTACCCACAAACGCCGCTAAAGGTC-TGGTCATTCTG
1 GTCATTAGCGGCGCTTACCCACAAACGCCGCTAAAGGTCGT-GTCATTCTG
*
48004127 GTCATTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCGTGTCATT
1 GTCATTAGCGGCGC-TTACCCACAAACGCCGCTAAAGGTCGTGTCATT
48004175 AGCGGCACTT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
50 14 0.31
51 30 0.67
52 1 0.02
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
GTCATTAGCGGCGCTTACCCACAAACGCCGCTAAAGGTCGTGTCATTCTG
Found at i:48005385 original size:44 final size:44
Alignment explanation
Indices: 48005311--48005473 Score: 200
Period size: 44 Copynumber: 3.6 Consensus size: 44
48005301 CCCCCCAGAA
* *
48005311 CCCTCTTCACCCCCAGACCGAACCCTCTTCTGTTTCCCTCACTCCGTT
1 CCCTCTTCACCCCCA-A---AACCCGCTTCTGTTCCCCTCACTCCGTT
* ** * *
48005359 GCCTCTTCACCTGCAGAACCCGCTTCTGTTCCCCTCACCCCGTT
1 CCCTCTTCACCCCCAAAACCCGCTTCTGTTCCCCTCACTCCGTT
* * *
48005403 CCCTCTTCACCCCCAAAACCCACTTCTCTTCCCCTCACTTCGTT
1 CCCTCTTCACCCCCAAAACCCGCTTCTGTTCCCCTCACTCCGTT
48005447 CCCTCTTCACCCCCAAAACCCGCTTCT
1 CCCTCTTCACCCCCAAAACCCGCTTCT
48005474 TGAGCCGATC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
44 87 0.88
48 12 0.12
ACGTcount: A:0.14, C:0.51, G:0.07, T:0.28
Consensus pattern (44 bp):
CCCTCTTCACCCCCAAAACCCGCTTCTGTTCCCCTCACTCCGTT
Found at i:48007615 original size:29 final size:30
Alignment explanation
Indices: 48007568--48007625 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
48007558 ATCTATTTCA
* * *
48007568 CTTAATTTCTTCTTTTTAA-CTTAATTATC
1 CTTAATTTCTACCTCTTAACCTTAATTATC
48007597 CTTAATTTCTACCTCTTAACCCTTAATTA
1 CTTAATTTCTACCTCTTAA-CCTTAATTA
48007626 ACTTTTGCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
31 8 0.33
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.52
Consensus pattern (30 bp):
CTTAATTTCTACCTCTTAACCTTAATTATC
Found at i:48008059 original size:18 final size:18
Alignment explanation
Indices: 48008013--48008059 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
48008003 TAAAAAATTT
*
48008013 AATTATTTAATTATATTA
1 AATTATTTAATTACATTA
* **
48008031 AAGTAAATAATTACATTA
1 AATTATTTAATTACATTA
48008049 AATTATTTAAT
1 AATTATTTAAT
48008060 CATGTTTAAT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
AATTATTTAATTACATTA
Found at i:48008081 original size:112 final size:112
Alignment explanation
Indices: 48007954--48008803 Score: 1084
Period size: 112 Copynumber: 7.9 Consensus size: 112
48007944 AATAATTAAA
*
48007954 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAAATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
* *
48008019 TTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATGTT
66 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
*
48008066 TAATTATGTATTTAATTATAAACAATATCGATTAATTAAATATTTAA-TTATAAAGATTTAATTA
1 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTA-AAAGATTTAATTA
* *
48008130 TTTAATTATATTAAAGTAAATAATTATATTAAATTAAAGATTTAAT--TATT
65 TTTAATTATATTAAACTAAATAATTATATTAAATT----ATTTAATCATGTT
* * *
48008180 TAATTA--TATTAAAGTA-AATA-ATTAT--ATTAATTTAAA-A------------GATTTAATT
1 TAATTATGTATTTAATTATAA-ACAGTATCGATTAA-TTAAATATTTAAGTTAAAAGATTTAATT
48008226 ATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
64 ATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
* *
48008275 TAATTATGTATTTAATTATAATCAGTATCGATTAATTAAATATTTAAGTTAAAAAATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
* * *
48008340 TTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATGATGTT
66 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
*
48008387 TAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
*
48008452 TTAATTATATTAAAGTAAATAATTATATTAAATTA---AAT-A--TT
66 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
* * * *
48008493 TAATTATTTAATTATATTAAAGTAAATAATTAT--ATTAATTTAAA-A------------GATTT
1 TAATTATGTATTTA-ATT--A-TAAA-CAGTATCGATTAA-TTAAATATTTAAGTTAAAAGATTT
*
48008543 AATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTT
60 AATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
48008596 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
48008661 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
66 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
*
48008708 TAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
48008773 TTAATTATATTAAACTAAATAATTATATTAA
66 TTAATTATATTAAACTAAATAATTATATTAA
48008804 GTTAAAAGAT
Statistics
Matches: 651, Mismatches: 32, Indels: 110
0.82 0.04 0.14
Matches are distributed among these distances:
93 7 0.01
95 9 0.01
97 97 0.15
98 10 0.02
99 14 0.02
100 16 0.02
101 1 0.00
102 3 0.00
103 14 0.02
106 14 0.02
107 3 0.00
108 1 0.00
109 16 0.02
110 14 0.02
111 13 0.02
112 403 0.62
114 9 0.01
116 7 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (112 bp):
TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
Found at i:48008155 original size:18 final size:18
Alignment explanation
Indices: 48008132--48008262 Score: 104
Period size: 18 Copynumber: 7.9 Consensus size: 18
48008122 TTTAATTATT
*
48008132 TAATTATATTAAAGTAAA
1 TAATTATATTAAATTAAA
48008150 TAATTATATTAAATTAAA
1 TAATTATATTAAATTAAA
* *
48008168 GATTTA-ATT--ATT---
1 TAATTATATTAAATTAAA
*
48008180 TAATTATATTAAAGTAAA
1 TAATTATATTAAATTAAA
*
48008198 TAATTATATT-AATTTAA
1 TAATTATATTAAATTAAA
* **
48008215 -AA-GAT-TT-AATTATT
1 TAATTATATTAAATTAAA
*
48008229 TAATTATATTAAACTAAA
1 TAATTATATTAAATTAAA
48008247 TAATTATATTAAATTA
1 TAATTATATTAAATTA
48008263 TTTAATCATG
Statistics
Matches: 86, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
12 4 0.05
13 3 0.03
14 6 0.07
15 9 0.10
16 4 0.05
17 10 0.12
18 50 0.58
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (18 bp):
TAATTATATTAAATTAAA
Found at i:48008173 original size:48 final size:48
Alignment explanation
Indices: 48008116--48008262 Score: 267
Period size: 48 Copynumber: 3.0 Consensus size: 48
48008106 TATTTAATTA
48008116 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
1 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
*
48008164 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATT
1 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
*
48008212 TAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAAT
1 T-AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
48008261 TA
1 TA
48008263 TTTAATCATG
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
48 49 0.52
49 46 0.48
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (48 bp):
TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
Found at i:48008308 original size:209 final size:218
Alignment explanation
Indices: 48007954--48008833 Score: 1089
Period size: 209 Copynumber: 4.1 Consensus size: 218
48007944 AATAATTAAA
* * * *
48007954 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAAATTTAATTAT
1 TAATTATGTAATTAATTATAAACACTA-C-AATAATT-AATATTTAAGTTAAAAGATTTAATTAT
* *
48008019 TTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
63 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
* *
48008084 TAAACAATATCGATTAATTAAATATTTAA-TTATAAAGATTTAATTATTTAATTATATTAAAGTA
128 TAAACAGTATCGATTAATTAAATATTTAAGTTA-AAAGATTTAATTATTTAATTATATTAAACTA
48008148 AATAATTATATTAAATTA-AA-GA-TT
192 AATAATTATATTAAATTATAATGAGTT
* * * *
48008172 TAATTATTTAATT-A-TATTAA-AGTA-AATAATT-ATA-TTAATTTAAAAGATTTAATTATTTA
1 TAATTATGTAATTAATTATAAACACTACAATAATTAATATTTAAGTTAAAAGATTTAATTATTTA
48008231 ATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAA
66 ATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAA
* * *
48008296 TCAGTATCGATTAATTAAATATTTAAGTTAAAAAATTTAATTATTTAATTATATTAAAGTAAATA
131 ACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAACTAAATA
*
48008361 ATTACATTAAATTATTTAATGATGTT
196 ATTATATTAAATTA--TAATGA-GTT
* *
48008387 TAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
1 TAATTATGTAATTAATTATAAACACTA-C-AATAATT-AATATTTAAGTTAAAAGATTTAATTAT
* * *
48008452 TTAATTATATTAAAGTAAATAATTATATTAAATTA---AAT-A--TTTAATTATTTAATT-A-TA
63 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
* * * *
48008509 TTAA-AGTA---AATAATTATATTAATTTAA--AA---GATTTAATTATTTAATTATATTAAACT
128 TAAACAGTATCGATTAATTA-AAT-ATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAACT
*
48008565 AAATAATTATATTAAATTATTTAATTATGTT
191 AAATAATTATATTAAATTA--TAATGA-GTT
* * *
48008596 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
1 TAATTATGTAATTAATTATAAACACTA-C-AATAATT-AATATTTAAGTTAAAAGATTTAATTAT
48008661 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
63 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
*
48008726 TAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAACTAA
128 TAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAACTAA
* *
48008791 ATAATTATATTAAGTTA-AAAGA-TT
193 ATAATTATATTAAATTATAATGAGTT
*
48008815 TAATTATTTAATTATATTA
1 TAATTATGTAATTA-ATTA
48008834 AACTAAATAA
Statistics
Matches: 582, Mismatches: 44, Indels: 70
0.84 0.06 0.10
Matches are distributed among these distances:
209 309 0.53
210 6 0.01
212 19 0.03
213 5 0.01
214 6 0.01
215 34 0.06
216 11 0.02
217 12 0.02
218 30 0.05
219 20 0.03
220 7 0.01
221 20 0.03
223 3 0.01
224 100 0.17
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (218 bp):
TAATTATGTAATTAATTATAAACACTACAATAATTAATATTTAAGTTAAAAGATTTAATTATTTA
ATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAA
ACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAACTAAATA
ATTATATTAAATTATAATGAGTT
Found at i:48008500 original size:48 final size:48
Alignment explanation
Indices: 48008438--48008583 Score: 256
Period size: 48 Copynumber: 3.0 Consensus size: 48
48008428 ATTTAAGTTA
48008438 AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATT
1 AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATT
* *
48008486 AAATATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATTT
1 AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATT
*
48008534 AAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATT
1 -AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATT
48008583 A
1 A
48008584 TTTAATTATG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
48 47 0.51
49 45 0.49
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (48 bp):
AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATT
Found at i:48008536 original size:321 final size:321
Alignment explanation
Indices: 48007954--48008852 Score: 1665
Period size: 321 Copynumber: 2.8 Consensus size: 321
48007944 AATAATTAAA
48007954 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAAATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAAATTTAATTAT
48008019 TTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
66 TTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
*
48008084 TAAACAATATCGATTAATTAAATATTTAA-TTATAAAGATTTAATTATTTAATTATATTAAAGTA
131 TAAACACTATCGATTAATTAAATATTTAAGTTA-AAAGATTTAATTATTTAATTATATTAAAGTA
48008148 AATAATTATATTAAATTAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATTT
195 AATAATTATATTAAATTAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATTT
48008213 AAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
260 AAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
*
48008275 TAATTATGTATTTAATTATAATCAGTATCGATTAATTAAATATTTAAGTTAAAAAATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAAATTTAATTAT
*
48008340 TTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATGATGTTTAATTATGTATTTAATTA
66 TTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
48008405 TAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAA
131 TAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAA
*
48008470 ATAATTATATTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATTTA
196 ATAATTATATTAAATTAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATTTA
*
48008535 AAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTATGTT
261 AAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
*
48008596 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
1 TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAAATTTAATTAT
* *
48008661 TTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
66 TTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
*
48008726 TAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAACTAA
131 TAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAA
* * *
48008791 ATAATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAAATATATTAA
196 ATAATTATATTAAATT-AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAA
48008853 ATTATTTAAT
Statistics
Matches: 561, Mismatches: 15, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
321 516 0.92
322 45 0.08
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (321 bp):
TAATTATGTATTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAAATTTAATTAT
TTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATTA
TAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAA
ATAATTATATTAAATTAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATTTA
AAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
Found at i:48008809 original size:49 final size:49
Alignment explanation
Indices: 48008751--48008856 Score: 185
Period size: 49 Copynumber: 2.2 Consensus size: 49
48008741 AATTAAATAT
*
48008751 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATA
1 TTAAATTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATA
* *
48008800 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAAATATA
1 TTAAATTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATA
48008849 TTAAATTA
1 TTAAATTA
48008857 TTTAATCATG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (49 bp):
TTAAATTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATA
Found at i:48008815 original size:273 final size:273
Alignment explanation
Indices: 48008490--48009267 Score: 1082
Period size: 273 Copynumber: 2.9 Consensus size: 273
48008480 TAAATTAAAT
*
48008490 ATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATTTAAAAGATTTAATTATTTAATT
1 ATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTAAAAGATTTAATTATTTAATT
48008555 ATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTATAAACA
66 ATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTATAAACA
*
48008620 GTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATT
131 GTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATT
48008685 ATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATA
196 ATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATA
48008750 TTTAAGTTAAAAG
261 TTTAAGTTAAAAG
* *
48008763 ATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATT
1 ATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTAAAAGATTTAATTATTTAATT
* *
48008828 ATATTAAACTAAATAAATATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACA
66 ATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTATAAACA
* * *
48008893 CTGTCGATTAATTAAATATTTAAGTTAAAAAATTTAATTATTTAATTATATTAAAGTAAATAATT
131 GTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATT
* * * *
48008958 ACATTAAATTATTTAATGATGTCTAATTATGTATTTAATTATAAATACTATCGATTAATTAAATA
196 ATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATA
*
48009023 TTTGAGTTAAAAG
261 TTTAAGTTAAAAG
*
48009036 ATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATG-TTTAATTAT
1 ATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTA---AA--A-GATTTAATTAT
* * * *
48009100 GTATTTA-ATTATAAAC-AATATCGATTA-ATTAAA-TATTTAATTATAAAGATTTAATTATTTA
60 TTAATTATA-T-TAAACTAA-AT-AATTATATTAAATTATTTAATTAT---G-TTTAATTATGTA
* * * *
48009161 ATT-A-TATTAA-AGTA---AATAATT--ATA-TTAAATT-AAAGATTTAATTATTTAATTATAT
117 TTTAATTATAAACAGTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATAT
* * **
48009216 TAAAGTAAATAATTATATTAAATTATTTAATTATATTTAATTAACTATTTAA
182 TAAAGTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAA
48009268 CTTAAAATGT
Statistics
Matches: 456, Mismatches: 35, Indels: 29
0.88 0.07 0.06
Matches are distributed among these distances:
272 69 0.15
273 308 0.68
274 3 0.01
276 8 0.02
277 1 0.00
278 28 0.06
279 16 0.04
280 8 0.02
281 2 0.00
282 13 0.03
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (273 bp):
ATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTAAAAGATTTAATTATTTAATT
ATATTAAACTAAATAATTATATTAAATTATTTAATTATGTTTAATTATGTATTTAATTATAAACA
GTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATT
ATATTAAATTATTTAATCATGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATA
TTTAAGTTAAAAG
Found at i:48008930 original size:112 final size:112
Alignment explanation
Indices: 48008800--48009192 Score: 671
Period size: 112 Copynumber: 3.5 Consensus size: 112
48008790 AATAATTATA
* * *
48008800 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAAATATATTAAATTATTTAATCA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCA
*
48008865 TGTTTAATTATGTATTTAATTATAAACACTGTCGATTAATTAAATAT
66 TGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATAT
* *
48008912 TTAAGTTAAAAAATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATGA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCA
* *
48008977 TGTCTAATTATGTATTTAATTATAAATACTATCGATTAATTAAATAT
66 TGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATAT
*
48009024 TTGAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCA
1 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCA
*
48009089 TGTTTAATTATGTATTTAATTATAAACAATATCGATTAATTAAATAT
66 TGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATAT
*
48009136 TTAA-TTATAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTA
1 TTAAGTTA-AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTA
48009193 AAGATTTAAT
Statistics
Matches: 264, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
111 3 0.01
112 261 0.99
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (112 bp):
TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCA
TGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATAT
Found at i:48009153 original size:22 final size:22
Alignment explanation
Indices: 48009128--48009214 Score: 70
Period size: 22 Copynumber: 3.8 Consensus size: 22
48009118 TATCGATTAA
48009128 TTAAATATTTAATTATAAAGAT
1 TTAAATATTTAATTATAAAGAT
*
48009150 TTAATTATTTAATTATATTAA-A-
1 TTAAATATTTAATTATA--AAGAT
* *
48009172 GTAAATAATTATATTAAATTAAAGAT
1 TTAAATATTTA-ATT--A-TAAAGAT
*
48009198 TTAATTATTTAATTATA
1 TTAAATATTTAATTATA
48009215 TTAAAGTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
22 26 0.52
23 5 0.10
24 4 0.08
25 5 0.10
26 10 0.20
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (22 bp):
TTAAATATTTAATTATAAAGAT
Found at i:48009200 original size:48 final size:48
Alignment explanation
Indices: 48009143--48009240 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
48009133 TATTTAATTA
48009143 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
1 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
48009191 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
1 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
48009239 TA
1 TA
48009241 TTTAATTATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (48 bp):
TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
Found at i:48009343 original size:160 final size:159
Alignment explanation
Indices: 48008143--48009273 Score: 527
Period size: 161 Copynumber: 6.9 Consensus size: 159
48008133 AATTATATTA
*
48008143 AAGTAAATAATTATATTAAATTAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATT
1 AAGTAAATAATTA-ATT--A-TAAAGATTTAATTATTTAATTATATTAAAGAAAATAATTAT-TT
* * * *
48008208 AATTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATG
61 AAATT-AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATA
** * * * *
48008273 TTTAATTATGTATTTAATTATAATCAGTATCGATT
125 TTTAATTAACTATTTAACTATAAACAATATCGAGT
* * * * *
48008308 AATTAAATATTTAAGTTA-AAAAATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAA
1 AAGTAAATAATTAA-TTATAAAGATTTAATTATTTAATTATATTAAAGAAAATAATTA-TTTAAA
* * * ** *
48008372 TT----ATTTAATGATGTTTAATTATGTATTTAA-T-TATAA--ACACTATCGATTAATTAA--A
64 TTAAAGATTTAAT--TATTTAATTA--TATTAAAGTAAATAATTACA-T-TAAATTATTTAATCA
** * ** * *
48008427 TATTTAAGTTAAAAGATTTAATTATTTA-ATTAT--ATT
123 TATTTAA-TT-AACTATTTAACTATAAACAATATCGAGT
* *
48008463 AAAGTAAATAATTATATTAAATTAAATATTTAATTATTTAATTATATTAAAGTAAATAATTATAT
1 -AAGTAAATAATTA-ATT--A-TAAAGATTTAATTATTTAATTATATTAAAGAAAATAATTAT-T
* * * *
48008528 TAATTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATTAT
60 TAAATT-AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCAT
* ** * * *
48008593 GTTTAATTATGTATTTAATTATAAACAGTATCGATT
124 ATTTAATTAACTATTTAACTATAAACAATATCGAGT
* * **
48008629 AATTAAATATTTAAGTTA-AAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAA
1 AAGTAAATAATTAA-TTATAAAGATTTAATTATTTAATTATATTAAAGAAAATAATTAT-TTAAA
* * * ** *
48008693 TT----ATTTAATCATGTTTAATTATGTATTTAA-T-TATAA--ACACTATCGATTAATTAA--A
64 TTAAAGATTTAAT--TATTTAATTA--TATTAAAGTAAATAATTACA-T-TAAATTATTTAATCA
** * * ** ** *
48008748 TATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAACT
123 TATTTAA-TT-AACTATTTAACTA-TAAACAATA-TCGAGT
* * ** *
48008789 AAATAATTATATTAAGTTA-AAAGATTTAATTATTTAATTATATTAAACTAAATAAATATATTAA
1 AAGTAAATA-ATTAA-TTATAAAGATTTAATTATTTAATTATATTAAAGAAAATAATTAT-TTAA
* * * ** *
48008853 ATT----ATTTAATCATGTTTAATTATGTATTTAA-T-TATAA--ACACTGTCGATTAATTAA--
63 ATTAAAGATTTAAT--TATTTAATTA--TATTAAAGTAAATAATTACA-T-TAAATTATTTAATC
** * * ** **
48008908 ATATTTAAGTTAAAAAATTTAATTATTTAATTATATTAAAGT
122 ATATTTAA-TT-AACTATTTAACTA-TAAACAATA-TCGAGT
* * * **
48008950 AAATAATTACATTAAATTATTTAATGATGTCTAATTATGTATTTAATTATAAATACTATCGATTA
1 AAGTAAATA-ATT-AATTA--TAAAGAT-T-T-A--AT-TATTTAATTAT--AT--TAAAGA--A
* * * *
48009015 ATTAAATATTTGAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATT
50 AATAATTATTTAAATT-AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATT
* ** * *
48009080 ATTTAATCATGTTTAATTATGTATTTAATTATAAACAATATCGATT
114 ATTTAATCATATTTAATTAACTATTTAACTATAAACAATATCGAGT
* * *
48009126 AATTAAATATTTAATTATAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
1 AAGTAAATAATTAATTATAAAGATTTAATTATTTAATTATATTAAAGAAAATAATTAT-TTAAAT
* *
48009191 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATTATATTTAA
65 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATATTTAA
48009256 TTAACTATTTAACT-TAAA
130 TTAACTATTTAACTATAAA
48009274 ATGTGGTCGT
Statistics
Matches: 784, Mismatches: 111, Indels: 148
0.75 0.11 0.14
Matches are distributed among these distances:
155 3 0.00
156 45 0.06
157 11 0.01
158 66 0.08
159 11 0.01
160 146 0.19
161 261 0.33
162 6 0.01
163 36 0.05
164 16 0.02
165 43 0.05
166 15 0.02
167 3 0.00
169 3 0.00
170 12 0.02
171 1 0.00
172 8 0.01
174 7 0.01
175 7 0.01
176 25 0.03
177 7 0.01
178 32 0.04
179 3 0.00
180 17 0.02
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (159 bp):
AAGTAAATAATTAATTATAAAGATTTAATTATTTAATTATATTAAAGAAAATAATTATTTAAATT
AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATATTTAAT
TAACTATTTAACTATAAACAATATCGAGT
Found at i:48015006 original size:65 final size:63
Alignment explanation
Indices: 48014892--48015011 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 63
48014882 AGAGGAGGCT
* * * *
48014892 GCAGAGGCTCAAAAAATATGATGAACTCCATCTAAACTTAAAGAGGAGGCTGCAGTGAGAGAA
1 GCAGAGGCTCAAAAAATATCAAGAACTCCACCTAAACTTAAAGAGGAGGCAGCAGTGAGAGAA
* * *
48014955 GCAGAGTCTCAAAAAAATATCAAGAACTCCACCTACAATTTAAAGCGGAGGCAGCAG
1 GCAGAGGCTC-AAAAAATATCAAGAACTCCACCTA-AACTTAAAGAGGAGGCAGCAG
48015012 CGAGGCAAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
63 9 0.19
64 21 0.44
65 18 0.38
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (63 bp):
GCAGAGGCTCAAAAAATATCAAGAACTCCACCTAAACTTAAAGAGGAGGCAGCAGTGAGAGAA
Found at i:48015395 original size:43 final size:42
Alignment explanation
Indices: 48015333--48015510 Score: 239
Period size: 43 Copynumber: 4.2 Consensus size: 42
48015323 CATTTTTTCC
*
48015333 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTGTGA
1 AAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTGA
* * *
48015375 AGAAAGCGCCGCTAAAGAACATGACCTTTAGTGGCGCTTGTGG
1 A-AAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTGA
* * * *
48015418 AAAAGCACCGCTAAAGAACATGGTCTTTCGCGACGCTTGTTGA
1 AAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTG-TGA
* *
48015461 AAAAGTGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTTGT
1 AAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTG-TGA
48015504 AAAAGCG
1 AAAAGCG
48015511 TTGCTATTTT
Statistics
Matches: 116, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 33 0.28
43 83 0.72
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTGTGA
Found at i:48015476 original size:85 final size:86
Alignment explanation
Indices: 48015333--48015509 Score: 268
Period size: 85 Copynumber: 2.1 Consensus size: 86
48015323 CATTTTTTCC
* *
48015333 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTGTGAAGAAAGCGCCGCTAAAGAACATG
1 AAAAGCACCGCTAAAGAACATGGTCTTTAGCGACGCTTGTGAAGAAAGCGCCGCTAAAGAACATG
*
48015398 ACCTTTAGTGGCGCTTG-TGG
66 ACCTTTAGCGGCGCTTGTTGG
* *
48015418 AAAAGCACCGCTAAAGAACATGGTCTTTCGCGACGCTTGTTGAA-AAAGTGCCGCTAAAGAACAT
1 AAAAGCACCGCTAAAGAACATGGTCTTTAGCGACGCTTG-TGAAGAAAGCGCCGCTAAAGAACAT
* *
48015482 GGCCTTTAGCGGCGCTTGTTGT
65 GACCTTTAGCGGCGCTTGTTGG
48015504 AAAAGC
1 AAAAGC
48015510 GTTGCTATTT
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
85 71 0.86
86 12 0.14
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (86 bp):
AAAAGCACCGCTAAAGAACATGGTCTTTAGCGACGCTTGTGAAGAAAGCGCCGCTAAAGAACATG
ACCTTTAGCGGCGCTTGTTGG
Found at i:48017183 original size:30 final size:28
Alignment explanation
Indices: 48017090--48017282 Score: 154
Period size: 30 Copynumber: 6.5 Consensus size: 28
48017080 CTATTTTGTC
* *
48017090 CAAAAATTACATTTCAACCTCGAACTTT
1 CAAAAATTACATTTTAACCTCAAACTTT
* * * *
48017118 CCTAAAATCACGTTTTGATACCT-AAGCTTT
1 -CAAAAATTACATTTT-A-ACCTCAAACTTT
*
48017148 CCAAAAATCACATTTTAACCTTCAAACTTAT
1 -CAAAAATTACATTTTAACC-TCAAACTT-T
* *
48017179 CAAAAATTACATTTTGACCCCTAAACTTT
1 CAAAAATTACATTTTAACCTC-AAACTTT
* *
48017208 CCAAAAATTATATTTTAACCCTCAAGCTTCT
1 -CAAAAATTACATTTTAA-CCTCAAACTT-T
*
48017239 CAAAAATTACATTTTGATCCTCAAACTTTT
1 CAAAAATTACATTTT-AACCTCAAAC-TTT
*
48017269 CCAAAATTACATTT
1 CAAAAATTACATTT
48017283 GACCCCAAAC
Statistics
Matches: 133, Mismatches: 20, Indels: 21
0.76 0.11 0.12
Matches are distributed among these distances:
28 3 0.02
29 15 0.11
30 103 0.77
31 12 0.09
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (28 bp):
CAAAAATTACATTTTAACCTCAAACTTT
Found at i:48017202 original size:60 final size:58
Alignment explanation
Indices: 48017088--48017282 Score: 205
Period size: 60 Copynumber: 3.3 Consensus size: 58
48017078 CCCTATTTTG
* * * * * * *
48017088 TCCAAAAATTACATTTCAACCTCGAACTTTCCTAAAATCACGTTTTGATACCTAAGCTT
1 TCCAAAAATTACATTTTAACCTCAAACTTT-CAAAAATTACATTTTGACACCTAAACTT
* *
48017147 TCCAAAAATCACATTTTAACCTTCAAACTTATCAAAAATTACATTTTGACCCCTAAACTT
1 TCCAAAAATTACATTTTAACC-TCAAACTT-TCAAAAATTACATTTTGACACCTAAACTT
* * *
48017207 TCCAAAAATTATATTTTAACCCTCAAGCTTCTCAAAAATTACATTTTGA-TCCTCAAACTTT
1 TCCAAAAATTACATTTTAA-CCTCAAACTT-TCAAAAATTACATTTTGACACCT-AAAC-TT
48017268 TCC-AAAATTACATTT
1 TCCAAAAATTACATTT
48017283 GACCCCAAAC
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
59 22 0.19
60 86 0.74
61 8 0.07
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (58 bp):
TCCAAAAATTACATTTTAACCTCAAACTTTCAAAAATTACATTTTGACACCTAAACTT
Found at i:48020707 original size:21 final size:22
Alignment explanation
Indices: 48020661--48020707 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
48020651 CGATCTGAGG
* *
48020661 AAAAATAAAAG-AAATAGAATT
1 AAAAATAAAAGAAAACACAATT
48020682 AAAAATAAAAGAAAACACAATT
1 AAAAATAAAAGAAAACACAATT
48020704 AAAA
1 AAAA
48020708 GAAATAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAACACAATT
Found at i:48030660 original size:21 final size:21
Alignment explanation
Indices: 48030634--48030673 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48030624 CGTCTATCCT
*
48030634 GGGAGCTTTGAATAGAGGCCC
1 GGGAGCTTTGAACAGAGGCCC
48030655 GGGAGCTTTGAACAGAGGC
1 GGGAGCTTTGAACAGAGGC
48030674 ATGTGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.17, G:0.40, T:0.17
Consensus pattern (21 bp):
GGGAGCTTTGAACAGAGGCCC
Found at i:48031856 original size:22 final size:21
Alignment explanation
Indices: 48031820--48031862 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
48031810 CGATCTGAGG
*
48031820 AAAAATAAAAGAAACAGAATT
1 AAAAATAAAAGAAACACAATT
48031841 AAAAATAAAAGAAAACACAATT
1 AAAAATAAAAG-AAACACAATT
48031863 GAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAGAAACACAATT
Found at i:48032705 original size:19 final size:19
Alignment explanation
Indices: 48032681--48032723 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
48032671 AAGCATAAAT
48032681 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
48032700 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
48032719 TAAAT
1 TAAAT
48032724 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:48037002 original size:23 final size:25
Alignment explanation
Indices: 48036976--48037021 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48036966 CCAATTAAGG
48036976 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
48036999 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
48037022 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:48038143 original size:20 final size:22
Alignment explanation
Indices: 48038099--48038149 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 22
48038089 TATTATTATT
*
48038099 TATTTTT-ATTTTATTATTTGC
1 TATTTTTAATTTAATTATTTGC
48038120 -ATTTTTAATTTAATT-TTT-C
1 TATTTTTAATTTAATTATTTGC
48038139 TA-TTTTAATTT
1 TATTTTTAATTT
48038150 TTTTTCCCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 10 0.37
20 10 0.37
21 7 0.26
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTTTAATTTAATTATTTGC
Found at i:48041875 original size:14 final size:12
Alignment explanation
Indices: 48041846--48041911 Score: 55
Period size: 12 Copynumber: 5.2 Consensus size: 12
48041836 AAGTCGAAAG
*
48041846 GAAAAAAATGAA
1 GAAAAAAAAGAA
48041858 GAAAAAAAAGAA
1 GAAAAAAAAGAA
*
48041870 TTGAAAAAAATTGAA
1 --GAAAAAAA-AGAA
48041885 -AAAAAAAAGAA
1 GAAAAAAAAGAA
48041896 -AATGAAAAAAGAA
1 GAA--AAAAAAGAA
48041909 GAA
1 GAA
48041912 GACAAAAGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
11 5 0.11
12 18 0.40
13 9 0.20
14 10 0.22
15 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (12 bp):
GAAAAAAAAGAA
Found at i:48041875 original size:26 final size:27
Alignment explanation
Indices: 48041846--48041905 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
48041836 AAGTCGAAAG
*
48041846 GAAAAAAA-TGAAGAAAAAAAAG-AATT
1 GAAAAAAATTGAA-AAAAAAAAGAAAAT
48041872 GAAAAAAATTGAAAAAAAAAAGAAAAT
1 GAAAAAAATTGAAAAAAAAAAGAAAAT
48041899 GAAAAAA
1 GAAAAAA
48041906 GAAGAAGACA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
26 17 0.55
27 14 0.45
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (27 bp):
GAAAAAAATTGAAAAAAAAAAGAAAAT
Found at i:48041877 original size:27 final size:28
Alignment explanation
Indices: 48041847--48041918 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
48041837 AGTCGAAAGG
*
48041847 AAAAAAATGAAGAAAAAAAAG-AATTGA
1 AAAAAAATGAAGAAAAAAAAGAAAATGA
*
48041874 AAAAAATTGAA-AAAAAAAAGAAAATGA
1 AAAAAAATGAAGAAAAAAAAGAAAATGA
*
48041901 AAAAAGAA-GAAGACAAAA
1 AAAAA-AATGAAGAAAAAA
48041919 GTGTGTTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 9 0.24
27 23 0.61
28 6 0.16
ACGTcount: A:0.76, C:0.01, G:0.14, T:0.08
Consensus pattern (28 bp):
AAAAAAATGAAGAAAAAAAAGAAAATGA
Found at i:48042967 original size:23 final size:25
Alignment explanation
Indices: 48042941--48042986 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
48042931 CCAATTAAGG
48042941 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
48042964 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
48042987 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:48048857 original size:59 final size:58
Alignment explanation
Indices: 48048686--48049173 Score: 616
Period size: 59 Copynumber: 8.3 Consensus size: 58
48048676 GGATACCCGG
* * * *
48048686 GGGTGAAATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGAAAGTTCGA
1 GGGTAAAATGGTAATTTTTAGTGAAATCGAGGTTAAAAATGGAATTTGGAAAGTTCGA
* *
48048744 GGGTAAAATGGTAATTTTT-GGGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGA
1 GGGTAAAATGGTAATTTTTAGTGAAATCGAGGTTAAAAATGGAA-TTTGGAAAGTTCGA
* * *
48048802 GGGTAAAATGGTAATTTTTAGTGAAACCGAGGTTAAAAATGGAACTTTGGGAAGTT-TA
1 GGGTAAAATGGTAATTTTTAGTGAAATCGAGGTTAAAAATGGAA-TTTGGAAAGTTCGA
* *
48048860 GGGGTAAAATGG-AATTTTTTAGTGAAA-CTGAGGTTAAAAATGGAACTTTGGGAAGTT-TA
1 -GGGTAAAATGGTAA-TTTTTAGTGAAATC-GAGGTTAAAAATGGAA-TTTGGAAAGTTCGA
48048919 GGGGTAAAATGGTAATTTTTAGTGAAATC-AGGGTTAAAAATGGAATTTTGGAAAGTTCGA
1 -GGGTAAAATGGTAATTTTTAGTGAAATCGA-GGTTAAAAATGGAA-TTTGGAAAGTTCGA
** * * *
48048979 GGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGACTTTTGGAAAGTTCGG
1 GGGTAAAATGGTAATTTTTAGTGAAATCGAGGTTAAAAATGGA-ATTTGGAAAGTTCGA
*
48049038 GGGTAAAATGGTAATTTTTTA-TGAAATCGAGGTTAAAAATGGAATTTAGGAAAGTTCGG
1 GGGTAAAATGGTAA-TTTTTAGTGAAATCGAGGTTAAAAATGGAATTT-GGAAAGTTCGA
*
48049097 GGGTAAAATGGTAATTTTTGGTGAAATC-AGGGTTAAAAATGGAATTTTGG-AAGTTCGA
1 GGGTAAAATGGTAATTTTTAGTGAAATCGA-GGTTAAAAATGGAA-TTTGGAAAGTTCGA
*
48049155 GGGTAAAATGTTAATTTTT
1 GGGTAAAATGGTAATTTTT
48049174 GGGGGTTTTG
Statistics
Matches: 389, Mismatches: 25, Indels: 32
0.87 0.06 0.07
Matches are distributed among these distances:
57 22 0.06
58 88 0.23
59 268 0.69
60 11 0.03
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTAGTGAAATCGAGGTTAAAAATGGAATTTGGAAAGTTCGA
Found at i:48049678 original size:161 final size:160
Alignment explanation
Indices: 48049303--48049799 Score: 682
Period size: 161 Copynumber: 3.1 Consensus size: 160
48049293 AGGCATCCAG
* * * * * *
48049303 CAGTCAAGGGATTAATTTGTAAATCTTGAAAAATTCTTGGGCCAATTTCGTAATTAAATAAAAGT
1 CAGTCAAAGGACTAATTTATAAACCTTGAAAAATTCTTGGGCCATTTTCATAATTAAATAAAAGT
* *
48049368 TGATTTAGGGATTAAATT-AAAAAATAAAAAATGTCGGGGACTAAAT-ATATAAATAAGCCAAAA
66 TGATTTAGGGATTAAATTAAAAAAATTAAAAATGTCAGGGACTAAATGA-ATAAATAAGCCAAAA
*
48049431 A-TGACACGTGGCAGCTCCTAGTGCAGTCAAA
130 AGTGACACGTGGCAGCT-CTGGTGCAGTCAAA
* * * *
48049462 TAGTCAAAGGACTAATTTAAAAACCTTGAAAATTTATTGGGCCAATTTT-ATAATTAAATAAAAG
1 CAGTCAAAGGACTAATTTATAAACCTTGAAAAATTCTTGGGCC-ATTTTCATAATTAAATAAAAG
** *
48049526 TTGATTTAGGGATTAAATTAAAGAAAATTAAAAATAACAAGGG-CTAAATGCATAAATAAGCCAA
65 TTGATTTAGGGATTAAATTAAA-AAAATTAAAAATGTC-AGGGACTAAATGAATAAATAAGCCAA
*
48049590 AAAGTGACACGTGGCAGCTCTGGTACAGTCAAA
128 AAAGTGACACGTGGCAGCTCTGGTGCAGTCAAA
* *
48049623 CAGTCAAAGGGCTAATTTATAAACCATGAAAAATTCTTAGGG-CATTTTCATAATTAAATAAAAG
1 CAGTCAAAGGACTAATTTATAAACCTTGAAAAATTCTT-GGGCCATTTTCATAATTAAATAAAAG
* *
48049687 TTGATTTAGGGATTAAATTAAAACAAATTCAAAATGTCAGGGACTAAACGAATAAATAAGCCAAA
65 TTGATTTAGGGATTAAATTAAAA-AAATTAAAAATGTCAGGGACTAAATGAATAAATAAGCCAAA
*
48049752 AAGTGACACGTGGCAGCCTCAGGTGCAGTCAAA
129 AAGTGACACGTGGCAG-CTCTGGTGCAGTCAAA
48049785 CAGTCAAAGGACTAA
1 CAGTCAAAGGACTAA
48049800 ATTGAAAGCT
Statistics
Matches: 296, Mismatches: 31, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
159 68 0.23
160 16 0.05
161 163 0.55
162 49 0.17
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (160 bp):
CAGTCAAAGGACTAATTTATAAACCTTGAAAAATTCTTGGGCCATTTTCATAATTAAATAAAAGT
TGATTTAGGGATTAAATTAAAAAAATTAAAAATGTCAGGGACTAAATGAATAAATAAGCCAAAAA
GTGACACGTGGCAGCTCTGGTGCAGTCAAA
Found at i:48050395 original size:17 final size:16
Alignment explanation
Indices: 48050365--48050398 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
48050355 TCATTTTCTC
*
48050365 TCTTTTTTATTATTAT
1 TCTTTTTTACTATTAT
48050381 TCTTTATTTACTATTAT
1 TCTTT-TTTACTATTAT
48050398 T
1 T
48050399 TGTTTGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTTTTTACTATTAT
Found at i:48051380 original size:6 final size:6
Alignment explanation
Indices: 48051371--48051462 Score: 91
Period size: 6 Copynumber: 15.2 Consensus size: 6
48051361 TTTTTTAATG
* * **
48051371 TTTAAA TTTAGTA TTTTAA TTTAAA TTTAAA TTTAAA TTT-AA GGTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
48051419 TTTAAA TAATTAAA TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA T
1 TTTAAA T--TTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA T
48051463 CAATTTAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
4 1 0.01
5 6 0.08
6 53 0.75
7 5 0.07
8 6 0.08
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:48051409 original size:31 final size:28
Alignment explanation
Indices: 48051388--48051462 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 28
48051378 TTAGTATTTT
*
48051388 AATTTAAATTTAAATTTAAATTTAAGGTA
1 AATTTAAATTTAAATTTAAATTT-AGATA
48051417 AATTTAAATAATTAAATTTAAATTTAAGATA
1 AATTTAAAT--TTAAATTTAAATTT-AGATA
48051448 AATTTAAATTTAAAT
1 AATTTAAATTTAAAT
48051463 CAATTTAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
29 15 0.35
31 28 0.65
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
AATTTAAATTTAAATTTAAATTTAGATA
Found at i:48051418 original size:11 final size:11
Alignment explanation
Indices: 48051404--48051454 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
48051394 AATTTAAATT
*
48051404 TAAATTTAAGG
1 TAAATTTAAGA
48051415 TAAATTTAA-A
1 TAAATTTAAGA
* **
48051425 T-AATTAAATT
1 TAAATTTAAGA
48051435 TAAATTTAAGA
1 TAAATTTAAGA
48051446 TAAATTTAA
1 TAAATTTAA
48051455 ATTTAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 24 0.75
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (11 bp):
TAAATTTAAGA
Found at i:48051456 original size:37 final size:38
Alignment explanation
Indices: 48051391--48051467 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 38
48051381 GTATTTTAAT
*
48051391 TTAAATTTAAATTTAAATTTAAGGTAAATTTAAAT-AA
1 TTAAATTTAAATTTAAATTAAAGGTAAATTTAAATCAA
**
48051428 TTAAATTTAAATTTAAGA-TAAATTTAAATTTAAATCAA
1 TTAAATTTAAATTTAA-ATTAAAGGTAAATTTAAATCAA
48051466 TT
1 TT
48051468 TAAAATCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 30 0.86
38 5 0.14
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (38 bp):
TTAAATTTAAATTTAAATTAAAGGTAAATTTAAATCAA
Found at i:48051473 original size:17 final size:17
Alignment explanation
Indices: 48051398--48051471 Score: 93
Period size: 17 Copynumber: 4.6 Consensus size: 17
48051388 AATTTAAATT
*
48051398 TAAATTTAAATTTAAGG
1 TAAATTTAAATTTAAGA
*
48051415 TAAATTTAAA--TAA-T
1 TAAATTTAAATTTAAGA
48051429 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAGA
48051446 TAAATTTAAATTTAA-A
1 TAAATTTAAATTTAAGA
*
48051462 TCAATTTAAA
1 TAAATTTAAA
48051472 ATCAATTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
14 10 0.20
15 3 0.06
16 13 0.25
17 25 0.49
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTAAGA
Found at i:48051488 original size:27 final size:27
Alignment explanation
Indices: 48051437--48051489 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
48051427 ATTAAATTTA
* *
48051437 AATTTAAGATAAATTTAAATTTAAATC
1 AATTTAAAATAAATTTAAATCTAAATC
* *
48051464 AATTTAAAATCAATTTAACTCTAAAT
1 AATTTAAAATAAATTTAAATCTAAAT
48051490 AAAAAAAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (27 bp):
AATTTAAAATAAATTTAAATCTAAATC
Found at i:48051908 original size:91 final size:91
Alignment explanation
Indices: 48051784--48051964 Score: 272
Period size: 91 Copynumber: 2.0 Consensus size: 91
48051774 GAGGGACGAT
* * * * * * * *
48051784 GATGTTGGTGCTTCATCTTACTTTTACTTCAATTTCAGAGGGATAAAGGCTTGATATCTAGCTCT
1 GATGTCGGTGCTTCATCTCACTCTTACTTCAATTTCAAAGGGACAAAGGCTCGATATCCAACTCT
*
48051849 ATTTCAATTTCAAGAGGATAGGAAAA
66 ACTTCAATTTCAAGAGGATAGGAAAA
*
48051875 GATGTCGGTGCTTCATCTCGCTCTTACTTCAATTTCAAAGGGACAAAGGCTCGATATCCAACTCT
1 GATGTCGGTGCTTCATCTCACTCTTACTTCAATTTCAAAGGGACAAAGGCTCGATATCCAACTCT
48051940 ACTTCAATTTCAAGAGGATAGGAAA
66 ACTTCAATTTCAAGAGGATAGGAAA
48051965 TGATTTTGCT
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 80 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (91 bp):
GATGTCGGTGCTTCATCTCACTCTTACTTCAATTTCAAAGGGACAAAGGCTCGATATCCAACTCT
ACTTCAATTTCAAGAGGATAGGAAAA
Found at i:48052052 original size:31 final size:31
Alignment explanation
Indices: 48052017--48052124 Score: 83
Period size: 31 Copynumber: 3.3 Consensus size: 31
48052007 TCCTCCTACT
48052017 TCAATTTCAAGAGGATGACGTTGCTCTTACC
1 TCAATTTCAAGAGGATGACGTTGCTCTTACC
** * * * *
48052048 TCAATTTCAGAGATAAAGACATGTTATCCACTCTACT
1 TCAATTTCA-AGAGGATGAC--G-T-TGCTCT-TACC
*
48052085 TCAATTTCAAGAGGATGACGTTGTTCTTA-C
1 TCAATTTCAAGAGGATGACGTTGCTCTTACC
48052115 TCCAATTTCA
1 T-CAATTTCA
48052125 GAGATAAAGA
Statistics
Matches: 57, Mismatches: 13, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
30 1 0.02
31 19 0.33
32 10 0.18
33 1 0.02
34 2 0.04
35 1 0.02
36 11 0.19
37 12 0.21
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (31 bp):
TCAATTTCAAGAGGATGACGTTGCTCTTACC
Found at i:48052235 original size:76 final size:76
Alignment explanation
Indices: 48052109--48052578 Score: 687
Period size: 76 Copynumber: 6.2 Consensus size: 76
48052099 ATGACGTTGT
* * *
48052109 TCTTACTCCAATTTCAGAGATAAAGA-TGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
1 TCTTACTTCAATTTCAGAGATAAAGACT-TGTTATCCATCTCTACTTCAATTTCAAGAGGATAGG
48052173 AAAAGATCTTGC
65 AAAAGATCTTGC
*
48052185 TCTTACTTCAATTTCAGAGATAAAAACTTGTTATCCATCTCTACTTCAATTTCAAGAGGATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAGGATAGGA
* *
48052250 AATGATGTTGC
66 AAAGATCTTGC
* * *
48052261 TCTTACTCCAATTTCGGAGATAAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAGGATAAGA
1 TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAGGATAGGA
* *
48052326 AATGATGTTGC
66 AAAGATCTTGC
* *
48052337 TCTTACTTCAATTTAAGAGATGAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAGGATAGGA
1 TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAGGATAGGA
* *
48052402 AATGATGTTGC
66 AAAGATCTTGC
* * * *
48052413 TCTTACTTCAATTTCAGAGATGAAGACTTGATATCCA-CTCTACTTCAATTTCAAGCGGACAGGA
1 TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAGGATAGGA
48052477 AAAGATGC-TGC
66 AAAGAT-CTTGC
* * * *
48052488 TCTTACTTCAATTTCAGAGATGAAGACTTGATATCCA-CTCTACTTCAATTTCAAGGGGACAGGA
1 TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAGGATAGGA
48052552 AAAGATCTTGC
66 AAAGATCTTGC
48052563 TCTTACTTCAATTTCA
1 TCTTACTTCAATTTCA
48052579 AAGACGTGTT
Statistics
Matches: 369, Mismatches: 22, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
74 1 0.00
75 121 0.33
76 246 0.67
77 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (76 bp):
TCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAGGATAGGA
AAAGATCTTGC
Found at i:48052305 original size:152 final size:151
Alignment explanation
Indices: 48051889--48052578 Score: 860
Period size: 152 Copynumber: 4.6 Consensus size: 151
48051879 TCGGTGCTTC
* * * * * *
48051889 ATCTCGCTCTTACTTCAATTTCAAAGGGACAAAGGCTCGATATCCAACTCTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAG
* * * *
48051954 AGGATAGGAAATGATTTTGCTCTTACTTCAATTTCAGAGAGAAGGACGTGTTATCC-TC-CTACT
63 AGGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACT
*
48052017 TCAATTTCAAGAGGAT--G--ACG
128 TCAATTTCAAGAGGATAGGAAAAG
* *
48052037 ---TTGCTCTTACCTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTC-A-A-G
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGG
* * * *
48052096 --AGG--ATGACGTTGTTCTTACTCCAATTTCAGAGATAAAGA-TGTGTTATCCAACTCTACTTC
66 ATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACT-TGTTATCCATCTCTACTTC
*
48052156 AATTTCAAGCGGATAGGAAAAG
130 AATTTCAAGAGGATAGGAAAAG
*
48052178 ATCTTGCTCTTACTTCAATTTCAGAGATAAAAACTTGTTATCCATCTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA-CTCTACTTCAATTTCAAGAG
* *
48052243 GATAGGAAATGATGTTGCTCTTACTCCAATTTCGGAGATAAAGACTTGTTATCCATCTCTACTTC
65 GATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTC
* *
48052308 AATTTCAAGAGGATAAGAAATG
130 AATTTCAAGAGGATAGGAAAAG
* * *
48052330 ATGTTGCTCTTACTTCAATTTAAGAGATGAAGACTTGTTATCCATCTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA-CTCTACTTCAATTTCAAGAG
* *
48052395 GATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATGAAGACTTGATATCCA-CTCTACTTC
65 GATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTC
* *
48052459 AATTTCAAGCGGACAGGAAAAG
130 AATTTCAAGAGGATAGGAAAAG
* * *
48052481 ATGC-TGCTCTTACTTCAATTTCAGAGATGAAGACTTGATATCCACTCTACTTCAATTTCAAGGG
1 AT-CTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAG
* * *
48052545 GACAGGAAAAGATCTTGCTCTTACTTCAATTTCA
65 GATAGGAAATGATGTTGCTCTTACTTCAATTTCA
48052579 AAGACGTGTT
Statistics
Matches: 475, Mismatches: 47, Indels: 38
0.85 0.08 0.07
Matches are distributed among these distances:
135 38 0.08
136 1 0.00
137 23 0.05
139 2 0.00
140 1 0.00
141 3 0.01
142 16 0.03
143 15 0.03
144 38 0.08
145 32 0.07
146 1 0.00
147 1 0.00
148 1 0.00
150 53 0.11
151 67 0.14
152 182 0.38
153 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (151 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGG
ATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCATCTCTACTTCA
ATTTCAAGAGGATAGGAAAAG
Found at i:48060849 original size:221 final size:221
Alignment explanation
Indices: 48060466--48060907 Score: 866
Period size: 221 Copynumber: 2.0 Consensus size: 221
48060456 CATTTAGAGT
48060466 AACTTCTCGAGAAGAAAAACTTCTTTACATAAAACAGAGTTTATACAAATGGCTTGGCCTTTCGG
1 AACTTCTCGAGAAGAAAAACTTCTTTACATAAAACAGAGTTTATACAAATGGCTTGGCCTTTCGG
48060531 CCCAGATCCTTAATCTTTCCTAGCAATCCTGCTAACTTTCTTCCTCGTTCCGACCTTGACTCGTA
66 CCCAGATCCTTAATCTTTCCTAGCAATCCTGCTAACTTTCTTCCTCGTTCCGACCTTGACTCGTA
*
48060596 CTGAAGGCTCAGAACGTCAGCTTTAGCAGCCAGCTCTTGTATGTGATCGGCCGCTTCTCTCATCT
131 CTGAAGGCTCAGAACGTCAGCTTCAGCAGCCAGCTCTTGTATGTGATCGGCCGCTTCTCTCATCT
48060661 GAGTTAGCGCCTTGCTCATGACATGA
196 GAGTTAGCGCCTTGCTCATGACATGA
48060687 AACTTCTCGAGAAGAAAAACTTCTTTACATAAAACAGAGTTTATACAAATGGCTTGGCCTTTCGG
1 AACTTCTCGAGAAGAAAAACTTCTTTACATAAAACAGAGTTTATACAAATGGCTTGGCCTTTCGG
48060752 CCCAGATCCTTAATCTTTCCTAGCAATCCTGCTAACTTTCTTCCTCGTTCCGACCTTGACTCGTA
66 CCCAGATCCTTAATCTTTCCTAGCAATCCTGCTAACTTTCTTCCTCGTTCCGACCTTGACTCGTA
*
48060817 CTGAAGGGTCAGAACGTCAGCTTCAGCAGCCAGCTCTTGTATGTGATCGGCCGCTTCTCTCATCT
131 CTGAAGGCTCAGAACGTCAGCTTCAGCAGCCAGCTCTTGTATGTGATCGGCCGCTTCTCTCATCT
48060882 GAGTTAGCGCCTTGCTCATGACATGA
196 GAGTTAGCGCCTTGCTCATGACATGA
48060908 TCTCGTTCCC
Statistics
Matches: 219, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 219 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (221 bp):
AACTTCTCGAGAAGAAAAACTTCTTTACATAAAACAGAGTTTATACAAATGGCTTGGCCTTTCGG
CCCAGATCCTTAATCTTTCCTAGCAATCCTGCTAACTTTCTTCCTCGTTCCGACCTTGACTCGTA
CTGAAGGCTCAGAACGTCAGCTTCAGCAGCCAGCTCTTGTATGTGATCGGCCGCTTCTCTCATCT
GAGTTAGCGCCTTGCTCATGACATGA
Found at i:48064709 original size:59 final size:59
Alignment explanation
Indices: 48064667--48065157 Score: 706
Period size: 59 Copynumber: 8.4 Consensus size: 59
48064657 TTTGGATACC
* *
48064667 CGGGGGTGAACTGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
*
48064726 CGGGGGTAAAATGGTAATTTTTGGTAAAATC-AGAGTTAAAAATGGAATTTTGG-AAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAG-GTTAAAAATGGAATTTTGGAAAGTT
* *
48064784 CGAGGGTAAAATGGTAATTTTTAGG-GAAATCAAGGTTAAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTT-GGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * * * * *
48064843 TGGGGGTAAAATGGTAATTTTTAGTGAAACCGGGGTTAAAAATGGAACTTTGGGAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * *
48064902 TGGGGGTAAAATGGTAATTTTTAGTGAAA-CG-GGATTAAAAATGAAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGG-TTAAAAATGGAATTTTGGAAAGTT
* * * *
48064960 CGAGGGTAAAATGGTAATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * *
48065019 CAGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTAGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
*
48065078 CGGGGATAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGG-AAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
*
48065136 CGAGGGTAAAATGGTAATTTTT
1 CGGGGGTAAAATGGTAATTTTT
48065158 AGGGGTTTCG
Statistics
Matches: 389, Mismatches: 35, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
57 2 0.01
58 126 0.32
59 259 0.67
60 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:48064862 original size:117 final size:117
Alignment explanation
Indices: 48064678--48065161 Score: 692
Period size: 117 Copynumber: 4.1 Consensus size: 117
48064668 GGGGGTGAAC
48064678 TGGTAATTTTT-GGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTA
1 TGGTAATTTTTAGG-GAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTA
* *
48064742 ATTTTTGGTAAAATCAGAGTTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAA
65 ATTTTTGGTGAAATCGGAGTTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAA
* *
48064795 TGGTAATTTTTAGGGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAA
1 TGGTAATTTTTAGGGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAA
* * * * * *
48064860 TTTTTAGTGAAACCGGGGTTAAAAATGGAACTTTGGGAAGTTTGGGGGTAAAA
66 TTTTTGGTGAAATCGGAGTTAAAAATGGAA-TTTTGGAAGTTCGAGGGTAAAA
* * *
48064913 TGGTAATTTTTAGTGAAA-CG-GGATTAAAAATGAAATTTTGGAAAGTTCGAGGGTAAAATGGTA
1 TGGTAATTTTTAGGGAAATCGAGG-TTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTA
* * *
48064976 ATTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTC-AGGGGTAAAA
65 ATTTTTGGTGAAATCGGAGTTAAAAATGGAATTTTGG-AAGTTCGA-GGGTAAAA
* * *
48065030 TGGTAATTTTT-GGTGAAATCGAGGTTAAAAATAGAATTTAGGAAAGTTCGGGGATAAAATGGTA
1 TGGTAATTTTTAGG-GAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTA
48065094 ATTTTTGGTGAAATC-GAGGTTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAA
65 ATTTTTGGTGAAATCGGA-GTTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAA
48065147 TGGTAATTTTTAGGG
1 TGGTAATTTTTAGGG
48065162 GTTTCGGGGT
Statistics
Matches: 325, Mismatches: 31, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
116 8 0.02
117 205 0.63
118 110 0.34
119 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (117 bp):
TGGTAATTTTTAGGGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAA
TTTTTGGTGAAATCGGAGTTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAA
Found at i:48064943 original size:30 final size:30
Alignment explanation
Indices: 48064678--48065128 Score: 114
Period size: 29 Copynumber: 15.3 Consensus size: 30
48064668 GGGGGTGAAC
* *
48064678 TGGTAATTTTTGGTGAAATCGAGGTTAAAAA
1 TGGTAATTTTTAGTGAAA-CGGGGTTAAAAA
*
48064709 TGG-AA-TTTT-G-GAAAGTTCGGGGGT-AAAA
1 TGGTAATTTTTAGTGAAA---CGGGGTTAAAAA
* * * *
48064737 TGGTAATTTTTGGTAAAATCAGAGTTAAAAA
1 TGGTAATTTTTAGTGAAA-CGGGGTTAAAAA
*
48064768 TGG-AA-TTTT-G-GAAGTTCGAGGG-T-AAAA
1 TGGTAATTTTTAGTGAA--ACG-GGGTTAAAAA
* **
48064795 TGGTAATTTTTAGGGAAATCAAGGTTAAAAA
1 TGGTAATTTTTAGTGAAA-CGGGGTTAAAAA
* *
48064826 TGG-AA-TTTT-G-GAAAGTTTGGGGGT-AAAA
1 TGGTAATTTTTAGTGAAA---CGGGGTTAAAAA
48064854 TGGTAATTTTTAGTGAAACCGGGGTTAAAAA
1 TGGTAATTTTTAGTGAAA-CGGGGTTAAAAA
* * ** *
48064885 TGG-AA-CTTT-GGGAAGTTTGGGGGT-AAAA
1 TGGTAATTTTTAGTGAA--ACGGGGTTAAAAA
*
48064913 TGGTAATTTTTAGTGAAACGGGATTAAAAA
1 TGGTAATTTTTAGTGAAACGGGGTTAAAAA
*
48064943 T-G-AAATTTT-G-GAAAGTTCGAGGG-T-AAAA
1 TGGTAATTTTTAGTGAAA---CG-GGGTTAAAAA
** *
48064971 TGGTAATTTTCGGTGAAATTGGGGTTAAAAA
1 TGGTAATTTTTAGTGAAA-CGGGGTTAAAAA
48065002 TGG-AA-TTTT-G-GAAAGTTCAGGGG-T-AAAA
1 TGGTAATTTTTAGTGAAA---C-GGGGTTAAAAA
* *
48065030 TGGTAATTTTTGGTGAAATCGAGGTTAAAAA
1 TGGTAATTTTTAGTGAAA-CGGGGTTAAAAA
* *
48065061 TAG-AA--TTTAG-GAAAGTTCGGGGAT-AAAA
1 TGGTAATTTTTAGTGAAA---CGGGGTTAAAAA
* *
48065089 TGGTAATTTTTGGTGAAATCGAGGTTAAAAA
1 TGGTAATTTTTAGTGAAA-CGGGGTTAAAAA
48065120 TGG-AATTTT
1 TGGTAATTTT
48065129 GGAAGTTCGA
Statistics
Matches: 317, Mismatches: 47, Indels: 113
0.66 0.10 0.24
Matches are distributed among these distances:
26 4 0.01
27 26 0.08
28 61 0.19
29 74 0.23
30 74 0.23
31 59 0.19
32 19 0.06
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.32
Consensus pattern (30 bp):
TGGTAATTTTTAGTGAAACGGGGTTAAAAA
Found at i:48064961 original size:176 final size:175
Alignment explanation
Indices: 48064667--48065161 Score: 728
Period size: 176 Copynumber: 2.8 Consensus size: 175
48064657 TTTGGATACC
* *
48064667 CGGGGGTGAACTGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAA-TTTGGAAAGTTCGGGGG
* *
48064732 TAAAATGGTAATTTTTGGTAAAATC-AGAGTTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAAT
65 TAAAATGGTAATTTTTGGTGAAATCGGGA-TTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAAT
48064796 GGTAATTTTTAGGGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTT
129 GGTAATTTTTAGGGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTT
* * * * * *
48064843 TGGGGGTAAAATGGTAATTTTTAGTGAAACCGGGGTTAAAAATGGAACTTTGGGAAGTTTGGGGG
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAA-TTTGGAAAGTTCGGGGG
* *
48064908 TAAAATGGTAATTTTTAGTGAAA-CGGGATTAAAAATGAAATTTTGGAAAGTTCGAGGGTAAAAT
65 TAAAATGGTAATTTTTGGTGAAATCGGGATTAAAAATGGAATTTTGG-AAGTTCGAGGGTAAAAT
* ***
48064972 GGTAA-TTTTCGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTT
129 GGTAATTTTTAGG-GAAATCAAGGTTAAAAATGGAATTTTGGAAAGTT
* * *
48065019 CAGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTAGGAAAGTTCGGGGA
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTT-GGAAAGTTCGGGGG
48065084 TAAAATGGTAATTTTTGGTGAAATCGAGG-TTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAAT
65 TAAAATGGTAATTTTTGGTGAAATCG-GGATTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAAT
48065148 GGTAATTTTTAGGG
129 GGTAATTTTTAGGG
48065162 GTTTCGGGGT
Statistics
Matches: 283, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
175 27 0.10
176 229 0.81
177 25 0.09
178 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (175 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTGGAAAGTTCGGGGGT
AAAATGGTAATTTTTGGTGAAATCGGGATTAAAAATGGAATTTTGGAAGTTCGAGGGTAAAATGG
TAATTTTTAGGGAAATCAAGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:48065522 original size:161 final size:160
Alignment explanation
Indices: 48065288--48065778 Score: 633
Period size: 154 Copynumber: 3.1 Consensus size: 160
48065278 GGCATCCAAC
* * * * ** *
48065288 AGTCAAGGGATTAATTTGTAAATCTTGAAAAATTCTTGGGTTAATTTCGTAATTAAATAAAAGTT
1 AGTCAAAGGACTAATTTATAAACCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTT
*
48065353 GATTTAGGGATTAAATTAAAACAAATTAAAAATGTCAGGGACTAAATATATAAATAAGCTAAAAA
66 GATTTAGGGATTAAATTAAAACAAATTAAAAATGTCAGGGACTAAATA-ATAAATAAGCCAAAAA
48065418 -TGACACGTGGCAG-CTCCTGGTGCAGTCAAA
130 GTGACACGTGGCAGCCT-CTGGTGCAGTCAAA
* * * *
48065448 TAGTCAAAGGACTAATTTAAAAACCTTAAAAAATTATTGGGCCAATTTTGTAATTAAATAAAATT
1 -AGTCAAAGGACTAATTTATAAACCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGT
* ** * *
48065513 TGATTTAGGGATTAAATTAAAGCAAATTAAAAATAACAAGGG-CTAAATGCAGAAATAAGCCAAA
65 TGATTTAGGGATTAAATTAAAACAAATTAAAAATGTC-AGGGACTAAAT-AATAAATAAGCCAAA
48065577 AAGTGACACGTGGCAGCCTCTGGT--A--C---
128 AAGTGACACGTGGCAGCCTCTGGTGCAGTCAAA
* *
48065603 AGTCAAAGGACTAATTTATAAACCATGAAAAATTCTTGGGCCAATTTTGTAATTAAGTAAAAGTT
1 AGTCAAAGGACTAATTTATAAACCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTT
* * *
48065668 GATTTAGGGATTAAATTAAAACAAATTCAAAATGTCAAGGACTAAACGAATAAATAAGCCAAAAA
66 GATTTAGGGATTAAATTAAAACAAATTAAAAATGTCAGGGACTAAA-TAATAAATAAGCCAAAAA
*
48065733 GTGACACGTGGCAGCCTCAGGTGCAGTCAAA
130 GTGACACGTGGCAGCCTCTGGTGCAGTCAAA
*
48065764 CAGTTAAAGGACTAA
1 -AGTCAAAGGACTAA
48065779 ATTGAAAGCT
Statistics
Matches: 283, Mismatches: 33, Indels: 27
0.83 0.10 0.08
Matches are distributed among these distances:
153 3 0.01
154 132 0.47
156 1 0.00
158 2 0.01
160 1 0.00
161 107 0.38
162 35 0.12
163 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (160 bp):
AGTCAAAGGACTAATTTATAAACCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTT
GATTTAGGGATTAAATTAAAACAAATTAAAAATGTCAGGGACTAAATAATAAATAAGCCAAAAAG
TGACACGTGGCAGCCTCTGGTGCAGTCAAA
Found at i:48066380 original size:17 final size:16
Alignment explanation
Indices: 48066350--48066383 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
48066340 TCATTTTCTC
*
48066350 TCTTTTTTATTATTAT
1 TCTTTTTTACTATTAT
48066366 TCTTTATTTACTATTAT
1 TCTTT-TTTACTATTAT
48066383 T
1 T
48066384 TGTTTGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTTTTTACTATTAT
Found at i:48067289 original size:29 final size:27
Alignment explanation
Indices: 48067254--48067307 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
48067244 GGGTCATTGT
*
48067254 AATTTGGGTCCCTTGTAAAATTTGGGCTC
1 AATTTGGGT-CATT-TAAAATTTGGGCTC
*
48067283 AATTTGGGTTATTTAAAATTTGGGC
1 AATTTGGGTCATTTAAAATTTGGGC
48067308 CCTTGTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 2 0.09
29 9 0.39
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (27 bp):
AATTTGGGTCATTTAAAATTTGGGCTC
Found at i:48067354 original size:6 final size:6
Alignment explanation
Indices: 48067345--48067399 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
48067335 TTTTTTAATG
* * **
48067345 TTTAAA TTTAGTA TTTTAA TTTAAA TTTAAA TTTAAA TTT-AA GGTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
48067393 TTTAAA T
1 TTTAAA T
48067400 CAATTTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
5 3 0.08
6 32 0.82
7 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:48069002 original size:19 final size:19
Alignment explanation
Indices: 48068980--48069024 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48068970 TTATATTAGG
48068980 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
48068999 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
48069018 ATTTAAT
1 ATTTAAT
48069025 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:48071682 original size:17 final size:17
Alignment explanation
Indices: 48071660--48071736 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
48071650 TTTGAGTTTG
*
48071660 TTTTAAAATTAAATTTA
1 TTTTAAATTTAAATTTA
48071677 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
* * *
48071694 ATTTGAATTTGAATTTA
1 TTTTAAATTTAAATTTA
* * *
48071711 ATTTGAATTTAAAATTA
1 TTTTAAATTTAAATTTA
*
48071728 TTATAAATT
1 TTTTAAATT
48071737 CAGTAAAATA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 51 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:48071687 original size:6 final size:6
Alignment explanation
Indices: 48071661--48071723 Score: 60
Period size: 6 Copynumber: 11.0 Consensus size: 6
48071651 TTGAGTTTGT
* * * *
48071661 TTTAAA ATTAAA TTT-AT TTTAAA TTTAAA TTT-AA TTTGAA TTTGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
48071707 TTT-AA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
48071724 ATTATTATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
5 14 0.29
6 35 0.71
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:48071696 original size:11 final size:11
Alignment explanation
Indices: 48071668--48071722 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
48071658 TGTTTTAAAA
*
48071668 TTAAATTTATT
1 TTAAATTTAAT
48071679 TTAAATTTAAAT
1 TTAAATTT-AAT
48071691 TT-AATTTGAAT
1 TTAAATTT-AAT
*
48071702 TTGAATTTAAT
1 TTAAATTTAAT
*
48071713 TTGAATTTAA
1 TTAAATTTAA
48071723 AATTATTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
11 31 0.77
12 9 0.22
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:48073657 original size:30 final size:30
Alignment explanation
Indices: 48073622--48073765 Score: 120
Period size: 30 Copynumber: 4.9 Consensus size: 30
48073612 TTATAAATCA
48073622 CATTTTGACCCCTAAACTTTTCCAAAATTA-
1 CATTTTGACCCCTAAAC-TTTCCAAAATTAC
* *
48073652 TATTTTGA-CCCTAAACTTTCTAAAAATTAC
1 CATTTTGACCCCTAAACTTTC-CAAAATTAC
* *
48073682 CAATTT-ACCCCTAAACTTTCCAAAACT-C
1 CATTTTGACCCCTAAACTTTCCAAAATTAC
* * ** *
48073710 CATTTTTA-ACCTCGATTTTACCAAAAATTAC
1 CATTTTGACCCCTAAACTTT-CC-AAAATTAC
*
48073741 CATTTT-ACCCCCAAACTTTCCAAAA
1 CATTTTGACCCCTAAACTTTCCAAAA
48073766 CTCTATTTTT
Statistics
Matches: 89, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
28 17 0.19
29 28 0.31
30 31 0.35
31 13 0.15
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTCCAAAATTAC
Found at i:48073664 original size:29 final size:29
Alignment explanation
Indices: 48073582--48073670 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
48073572 CCTAAACTAA
* *
48073582 CCAAAATTGGTATTTTAACCCTAAAACTTTT
1 CCAAAATT-ATATTTTGACCCT-AAACTTTT
* * *
48073613 -TATAAATCACATTTTGACCCCTAAACTTTT
1 CCA-AAATTATATTTTGA-CCCTAAACTTTT
48073643 CCAAAATTATATTTTGACCCTAAACTTT
1 CCAAAATTATATTTTGACCCTAAACTTT
48073671 CTAAAAATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
29 11 0.23
30 27 0.57
31 9 0.19
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.39
Consensus pattern (29 bp):
CCAAAATTATATTTTGACCCTAAACTTTT
Found at i:48073677 original size:29 final size:30
Alignment explanation
Indices: 48073600--48073872 Score: 106
Period size: 30 Copynumber: 9.2 Consensus size: 30
48073590 GGTATTTTAA
* * *
48073600 CCCTAAAACTTTTTATAAATCACATTTTGAC
1 CCCT-AAACTTTCTAAAAATTACATTTTGAC
* *
48073631 CCCTAAACTTT-TCCAAAATTATATTTTGA-
1 CCCTAAACTTTCT-AAAAATTACATTTTGAC
*
48073660 CCCTAAACTTTCTAAAAATTACCAATTT-AC
1 CCCTAAACTTTCTAAAAATTA-CATTTTGAC
* * * *
48073690 CCCTAAACTTTC-CAAAACTCCATTTTTA-
1 CCCTAAACTTTCTAAAAATTACATTTTGAC
* ** * *
48073718 ACCTCGATTTTACCAAAAATTACCATTTT-AC
1 CCCTAAACTTT-CTAAAAATTA-CATTTTGAC
* * * *
48073749 CCCCAAACTTTCCAAAACTCTA-TTTTTGA-
1 CCCTAAACTTTCTAAAAAT-TACATTTTGAC
* * * *
48073778 -CCTCAA-TTTCATTACAAATTATATTTT-TC
1 CCCTAAACTTTC--TAAAAATTACATTTTGAC
* * *
48073807 CCCTAAACTTTCT-AAAATTCCATTTTTAA
1 CCCTAAACTTTCTAAAAATTACATTTTGAC
* *
48073836 CCC-AAATTTTACAAAAAATTACCATTTT-AC
1 CCCTAAACTTT-CTAAAAATTA-CATTTTGAC
48073866 CCCTAAA
1 CCCTAAA
48073873 AGTTTGAAAT
Statistics
Matches: 178, Mismatches: 42, Indels: 44
0.67 0.16 0.17
Matches are distributed among these distances:
27 4 0.02
28 34 0.19
29 44 0.25
30 65 0.37
31 31 0.17
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.37
Consensus pattern (30 bp):
CCCTAAACTTTCTAAAAATTACATTTTGAC
Found at i:48073699 original size:59 final size:58
Alignment explanation
Indices: 48073571--48073872 Score: 217
Period size: 59 Copynumber: 5.1 Consensus size: 58
48073561 CCTTGTAAGT
** * * * *
48073571 CCCTAAACTAACCAAAATTGGTATTTTAACCCTAAAACTTTTTATAAATCA-CATTTTGAC
1 CCCTAAACTTTCCAAAATT-ATATTTTAACCCT-AAACTTTCTAAAAATTACCATTTT-AC
* *
48073631 CCCTAAACTTTTCCAAAATTATATTTTGACCCTAAACTTTCTAAAAATTACCAATTTAC
1 CCCTAAAC-TTTCCAAAATTATATTTTAACCCTAAACTTTCTAAAAATTACCATTTTAC
* ** * *
48073690 CCCTAAACTTTCCAAAACTCCAT-TTTTAA-CCTCGATTTTACCAAAAATTACCATTTTAC
1 CCCTAAACTTTCCAAAA-T-TATATTTTAACCCTAAACTTT-CTAAAAATTACCATTTTAC
* * * * * *
48073749 CCCCAAACTTTCCAAAACTCTAT-TTTTGA-CCTCAA-TTTCATTACAAATTA-TATTTTTC
1 CCCTAAACTTTCCAAAA-T-TATATTTTAACCCTAAACTTTC--TAAAAATTACCATTTTAC
* * *
48073807 CCCTAAACTTTCTAAAATTCCAT-TTTTAACCC-AAATTTTACAAAAAATTACCATTTTAC
1 CCCTAAACTTTCCAAAATT--ATATTTTAACCCTAAACTTT-CTAAAAATTACCATTTTAC
48073866 CCCTAAA
1 CCCTAAA
48073873 AGTTTGAAAT
Statistics
Matches: 198, Mismatches: 31, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
56 1 0.01
57 2 0.01
58 56 0.28
59 103 0.52
60 27 0.14
61 9 0.05
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.37
Consensus pattern (58 bp):
CCCTAAACTTTCCAAAATTATATTTTAACCCTAAACTTTCTAAAAATTACCATTTTAC
Found at i:48073832 original size:58 final size:59
Alignment explanation
Indices: 48073673--48073872 Score: 242
Period size: 59 Copynumber: 3.4 Consensus size: 59
48073663 TAAACTTTCT
* * *
48073673 AAAAATTACCAATTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCTCGATTTTACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCTCAATTTCACC
* * * **
48073732 AAAAATTACCATTTTACCCCCAAACTTTCCAAAACTCTATTTTTGACCTCAATTTCATT
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCTCAATTTCACC
* * * * * * *
48073791 ACAAATTA-TATTTTTCCCCTAAACTTTCTAAAATTCCATTTTTAACC-CAAATTTTACA
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCTC-AATTTCACC
48073849 AAAAATTACCATTTTACCCCTAAA
1 AAAAATTACCATTTTACCCCTAAA
48073873 AGTTTGAAAT
Statistics
Matches: 117, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
57 1 0.01
58 45 0.38
59 71 0.61
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.36
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCTCAATTTCACC
Found at i:48079056 original size:17 final size:17
Alignment explanation
Indices: 48079034--48079084 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
48079024 AACCCAATGC
*
48079034 TATTTTAAGTTTAAATT
1 TATTTTAAATTTAAATT
*
48079051 TATTTTAAATTCAAATT
1 TATTTTAAATTTAAATT
*
48079068 TATTTTAATTTTAAATT
1 TATTTTAAATTTAAATT
48079085 AAATTTCCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTTTAAATTTAAATT
Found at i:48080872 original size:30 final size:30
Alignment explanation
Indices: 48080836--48081018 Score: 135
Period size: 30 Copynumber: 6.1 Consensus size: 30
48080826 TTCAACCTCG
* *
48080836 AACTTTCTTAAAATCACATTTTGACCCCTA
1 AACTTTCTAAAAATTACATTTTGACCCCTA
* *** * *
48080866 AACTTTCCAAAAATTATGCTTT-AACCTTCA
1 AACTTTCTAAAAATTACATTTTGACCCCT-A
48080896 AAC-TTCTCAAAAATTACATTTTGACCCCTA
1 AACTTTCT-AAAAATTACATTTTGACCCCTA
* * *
48080926 AACTTTCCAAAAATTATATTTTGA-CCCTCG
1 AACTTTCTAAAAATTACATTTTGACCCCT-A
* * *
48080956 AGC-TTCTCAAAAATTACATTTTGACTCTTA
1 AACTTTCT-AAAAATTACATTTTGACCCCTA
* *
48080986 AACTTT-TCCAAAATCACATTTTGACCCC-A
1 AACTTTCT-AAAAATTACATTTTGACCCCTA
48081015 AACT
1 AACT
48081019 CTTTGAAACT
Statistics
Matches: 117, Mismatches: 28, Indels: 17
0.72 0.17 0.10
Matches are distributed among these distances:
29 19 0.16
30 87 0.74
31 11 0.09
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (30 bp):
AACTTTCTAAAAATTACATTTTGACCCCTA
Found at i:48080999 original size:60 final size:60
Alignment explanation
Indices: 48080845--48081018 Score: 226
Period size: 60 Copynumber: 2.9 Consensus size: 60
48080835 GAACTTTCTT
* ** * *
48080845 AAAATCACATTTTGACCCCTAAACTTTCCAAAAATTATGCTTTAACCTTCAAACTTCTCA
1 AAAATTACATTTTGACCCCTAAACTTTCCAAAAATTATATTTTGACCCTCAAACTTCTCA
* *
48080905 AAAATTACATTTTGACCCCTAAACTTTCCAAAAATTATATTTTGACCCTCGAGCTTCTCA
1 AAAATTACATTTTGACCCCTAAACTTTCCAAAAATTATATTTTGACCCTCAAACTTCTCA
* * * *
48080965 AAAATTACATTTTGACTCTTAAACTTTTCC-AAAATCACATTTTGACCC-CAAACT
1 AAAATTACATTTTGACCCCTAAAC-TTTCCAAAAATTATATTTTGACCCTCAAACT
48081019 CTTTGAAACT
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
59 4 0.04
60 91 0.91
61 5 0.05
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (60 bp):
AAAATTACATTTTGACCCCTAAACTTTCCAAAAATTATATTTTGACCCTCAAACTTCTCA
Found at i:48082702 original size:22 final size:23
Alignment explanation
Indices: 48082665--48082726 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
48082655 GTGATCTGAG
48082665 GAAAAATAAAAG-AAATAGAATT
1 GAAAAATAAAAGAAAATAGAATT
*
48082687 -AAAAATAAAAGAAAATACAATT
1 GAAAAATAAAAGAAAATAGAATT
* *
48082709 GAAAGA-AATAGAAAATAG
1 GAAAAATAAAAGAAAATAG
48082727 GGAAGTCGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.69, C:0.02, G:0.13, T:0.16
Consensus pattern (23 bp):
GAAAAATAAAAGAAAATAGAATT
Found at i:48095520 original size:22 final size:21
Alignment explanation
Indices: 48095484--48095526 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
48095474 CGATCTGAGG
*
48095484 AAAAATAAAAGAAACAGAATT
1 AAAAATAAAAGAAACACAATT
48095505 AAAAATAAAAGAAAACACAATT
1 AAAAATAAAAG-AAACACAATT
48095527 GAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAGAAACACAATT
Found at i:48096370 original size:19 final size:19
Alignment explanation
Indices: 48096346--48096388 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
48096336 AAGCATAAAT
48096346 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
48096365 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
48096384 TAAAT
1 TAAAT
48096389 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:48110190 original size:76 final size:76
Alignment explanation
Indices: 48110055--48110740 Score: 902
Period size: 76 Copynumber: 9.0 Consensus size: 76
48110045 CACATCAATC
* * * *
48110055 CAACATCATTTCCTATCGTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
48110120 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * *
48110131 CAACGTCACTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTATTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
48110196 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * *
48110207 CAAACGTCATCTCCTATCCTCTTGAAATTAAAGTAAAGCTGGATAACGAGCCTTCATCTCTGAAA
1 C-AACGTCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAA
*
48110272 TTAAAGTAAGAG
65 TTGAAGTAAGAG
* * * *
48110284 TAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
48110349 TGAAGTAAGAG
66 TGAAGTAAGAG
* * ** *
48110360 CAACATCTTTTTTTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
48110425 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
48110436 CAA-GATCATTTTCCTATCCTCTTGAAATTAAAGTAAAGCTGGATATCAAGTCGTTATCTCTGAA
1 CAACG-TCA-TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAA
*
48110500 ATTGAAGTAGGAG
64 ATTGAAGTAAGAG
* * * * * *
48110513 CAACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGATGGATAACAAATCTTTATCTCTAAAAT
1 CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
48110578 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
48110589 CAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTACCTCTGAAA
1 CAACG-TCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAA
48110653 TTGAAGTAAGAG
65 TTGAAGTAAGAG
* **
48110665 CAA-GATCATTTCCTATCCTCGTGAAATTGAAGT-----TGGATAGGAAGTCTTTATCTCTCTGA
1 CAACG-TCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTA--TCTCTGA
48110724 AATTGAAGTAAGAG
63 AATTGAAGTAAGAG
48110738 CAA
1 CAA
48110741 GATGAAGCCT
Statistics
Matches: 541, Mismatches: 62, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
71 14 0.03
73 23 0.04
76 371 0.69
77 133 0.25
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (76 bp):
CAACGTCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:48110343 original size:153 final size:152
Alignment explanation
Indices: 48110055--48110740 Score: 941
Period size: 153 Copynumber: 4.5 Consensus size: 152
48110045 CACATCAATC
* * *
48110055 CAACATCATTTCCTATCGTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
* * * * *
48110120 TGAAGTAAGAGCAACGTCACTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTATTT
66 TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTT
48110185 ATCTCTGAAATTGAAGTAAGAG
131 ATCTCTGAAATTGAAGTAAGAG
* * * * * *
48110207 CAAACGTCATCTCCTATCCTCTTGAAATTAAAGTAAAGCTGGATAACGAGCCTTCATCTCTGAAA
1 C-AACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAA
* * * *
48110272 TTAAAGTAAGAGTAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTT
65 TTGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTT
48110337 TATCTCTGAAATTGAAGTAAGAG
130 TATCTCTGAAATTGAAGTAAGAG
* ** *
48110360 CAACATCTTTTTTTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
* * * *
48110425 TGAAGTAAGAGCAAGATCATTTTCCTATCCTCTTGAAATTAAAGTAAAGCTGGATATCAAGTCGT
66 TGAAGTAAGAGCAACATCA-TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTT
*
48110490 TATCTCTGAAATTGAAGTAGGAG
130 TATCTCTGAAATTGAAGTAAGAG
* * * * *
48110513 CAACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGATGGATAACAAATCTTTATCTCTAAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
* * *
48110578 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTT
66 TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTT
*
48110643 ACCTCTGAAATTGAAGTAAGAG
131 ATCTCTGAAATTGAAGTAAGAG
* * **
48110665 CAAGATCATTTCCTATCCTCGTGAAATTGAAGT-----TGGATAGGAAGTCTTTATCTCTCTGAA
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTA--TCTCTGAA
48110725 ATTGAAGTAAGAGCAA
64 ATTGAAGTAAGAGCAA
48110741 GATGAAGCCT
Statistics
Matches: 478, Mismatches: 52, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
147 14 0.03
149 23 0.05
152 164 0.34
153 277 0.58
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (152 bp):
CAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTT
ATCTCTGAAATTGAAGTAAGAG
Found at i:48110457 original size:229 final size:228
Alignment explanation
Indices: 48110055--48110697 Score: 1002
Period size: 229 Copynumber: 2.8 Consensus size: 228
48110045 CACATCAATC
*
48110055 CAACATCATTTCCTATCGTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
* * * * * *
48110120 TGAAGTAAGAGCAACGTCACTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTATTT
66 TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
*
48110185 ATCTCTGAAATTGAAGTAAGAGCAA-ACGTCATCTCCTATCCTCTTGAAATTAAAGTAAAGCTGG
131 ATCTCTGAAATTGAAGTAAGAGCAAGA--TCATTTCCTATCCTCTTGAAATTAAAGTAAAGCTGG
*
48110249 ATAACGAG-CCTTCATCTCTGAAATTAAAGTAAGAG
194 ATAACAAGTCCTT-ATCTCTGAAATTAAAGTAAGAG
*
48110284 TAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
* **
48110349 TGAAGTAAGAGCAACATCTTTTTTTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
66 TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
48110414 ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTTCCTATCCTCTTGAAATTAAAGTAAAGCTGGA
131 ATCTCTGAAATTGAAGTAAGAGCAAGATCA-TTTCCTATCCTCTTGAAATTAAAGTAAAGCTGGA
* * * *
48110479 TATCAAGTCGTTATCTCTGAAATTGAAGTAGGAG
195 TAACAAGTCCTTATCTCTGAAATTAAAGTAAGAG
* * * *
48110513 CAACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGATGGATAACAAATCTTTATCTCTAAAAT
1 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
* *
48110578 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTT
66 TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
* * *
48110643 ACCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCGTGAAATTGAAGT
131 ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTAAAGT
48110698 TGGATAGGAA
Statistics
Matches: 381, Mismatches: 30, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
228 26 0.07
229 351 0.92
230 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (228 bp):
CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTAAAGTAAAGCTGGAT
AACAAGTCCTTATCTCTGAAATTAAAGTAAGAG
Found at i:48111025 original size:6 final size:6
Alignment explanation
Indices: 48110998--48111074 Score: 61
Period size: 6 Copynumber: 12.8 Consensus size: 6
48110988 GGCTTGGGCT
* * *
48110998 TTTAAA GTTTAAA -TTAAT TTTAAA TTT-AT TTTAAA TTTAAA TTTACTTA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
* *
48111047 TTTAAA TTT-AT TTTAGA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
48111075 TCAAATTTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
5 12 0.22
6 32 0.58
7 6 0.11
8 5 0.09
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:48111031 original size:17 final size:16
Alignment explanation
Indices: 48111011--48111073 Score: 76
Period size: 17 Copynumber: 3.9 Consensus size: 16
48111001 AAAGTTTAAA
48111011 TTAATTTTAAATTTATT
1 TTAA-TTTAAATTTATT
*
48111028 TTAAATTTAAATTTA-C
1 TT-AATTTAAATTTATT
48111044 TT-ATTTAAATTTATT
1 TTAATTTAAATTTATT
48111059 TTAGATTTAAATTTA
1 TTA-ATTTAAATTTA
48111074 ATCAAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 11 0.28
15 2 0.05
16 2 0.05
17 23 0.57
18 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TTAATTTAAATTTATT
Found at i:48111035 original size:11 final size:11
Alignment explanation
Indices: 48111005--48111067 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
48110995 GCTTTTAAAG
*
48111005 TTTAAATTAAT
1 TTTAAATTTAT
48111016 TTTAAATTTAT
1 TTTAAATTTAT
*
48111027 TTTAAATTTAAA
1 TTTAAATTT-AT
*
48111039 TTT--ACTTA-
1 TTTAAATTTAT
48111047 TTTAAATTTAT
1 TTTAAATTTAT
*
48111058 TTTAGATTTA
1 TTTAAATTTA
48111068 AATTTAATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 3 0.07
9 1 0.02
10 7 0.16
11 28 0.65
12 4 0.09
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:48111889 original size:22 final size:23
Alignment explanation
Indices: 48111863--48111916 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 23
48111853 ATAAATGATT
48111863 TTAATTAGT-ATTAATGAAATTA
1 TTAATTAGTGATTAATGAAATTA
*
48111885 TTAATAATGGTGATTAATGAAATTA
1 TTAAT--TAGTGATTAATGAAATTA
48111910 TTAATTA
1 TTAATTA
48111917 ATAATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 1 0.04
24 3 0.11
25 18 0.67
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (23 bp):
TTAATTAGTGATTAATGAAATTA
Found at i:48134945 original size:25 final size:23
Alignment explanation
Indices: 48134896--48134948 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
48134886 AGCTTTAATT
48134896 TTTTTGTAACTCTTCAGCCATTA
1 TTTTTGTAACTCTTCAGCCATTA
48134919 TTTTTGTAACTCTTCAGCCATTA
1 TTTTTGTAACTCTTCAGCCATTA
*
48134942 TATTTGT
1 TTTTTGT
48134949 TTTAAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.19, G:0.09, T:0.51
Consensus pattern (23 bp):
TTTTTGTAACTCTTCAGCCATTA
Found at i:48137209 original size:6 final size:6
Alignment explanation
Indices: 48137193--48137225 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
48137183 AATATTATTT
48137193 TTTTTC TTTTTTC TTTTTC -TTTTC TTTTTC TTT
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTT
48137226 CTTTTTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:48137220 original size:17 final size:17
Alignment explanation
Indices: 48137190--48137231 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
48137180 ATAAATATTA
48137190 TTTTTTTTCTTTTTTCT
1 TTTTTTTTCTTTTTTCT
48137207 TTTTCTTTTC-TTTTTCT
1 TTTT-TTTTCTTTTTTCT
48137224 TTCTTTTT
1 TT-TTTTT
48137232 ATGTGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTCT
Found at i:48137231 original size:10 final size:11
Alignment explanation
Indices: 48137201--48137231 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
48137191 TTTTTTTCTT
48137201 TTTTCTTTTTC
1 TTTTCTTTTTC
48137212 TTTTCTTTTTC
1 TTTTCTTTTTC
48137223 -TTTCTTTTT
1 TTTTCTTTTT
48137232 ATGTGATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:48137831 original size:17 final size:17
Alignment explanation
Indices: 48137785--48137850 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
48137775 ATATATATGG
**
48137785 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* **
48137802 AGATGCAGCGACAATAA
1 AAATGCAATGACAATAA
*
48137819 AAATGCAATGACATTAA
1 AAATGCAATGACAATAA
* *
48137836 TAATGCAAGGACAAT
1 AAATGCAATGACAAT
48137851 TATACTACAA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:48137842 original size:34 final size:34
Alignment explanation
Indices: 48137785--48137850 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
48137775 ATATATATGG
*
48137785 AAATGCAATGACAATGTAGATGC-AGCGACAATAA
1 AAATGCAATGACAATATAGATGCAAG-GACAATAA
*
48137819 AAATGCAATGACATTAATA-ATGCAAGGACAAT
1 AAATGCAATGACAAT-ATAGATGCAAGGACAAT
48137851 TATACTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 24 0.86
35 4 0.14
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (34 bp):
AAATGCAATGACAATATAGATGCAAGGACAATAA
Found at i:48141638 original size:24 final size:22
Alignment explanation
Indices: 48141583--48141638 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
48141573 CCCCTCTGAG
48141583 TTTTATTTAAACATTCACCACC
1 TTTTATTTAAACATTCACCACC
* * *
48141605 ATTT-TTTAAACATATCTCTACAC
1 TTTTATTTAAACAT-TCACCAC-C
48141628 TTTTATTTAAA
1 TTTTATTTAAA
48141639 GAAATCCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 9 0.33
22 8 0.30
23 4 0.15
24 6 0.22
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTTATTTAAACATTCACCACC
Found at i:48143638 original size:18 final size:19
Alignment explanation
Indices: 48143612--48143653 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
48143602 CTCAGCTCCT
*
48143612 GAGATTCCTCTGCTGCC-C
1 GAGACTCCTCTGCTGCCTC
48143630 GAGACTCCTCTGCTGCCTC
1 GAGACTCCTCTGCTGCCTC
48143649 GAGAC
1 GAGAC
48143654 CGTTTCTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.14, C:0.38, G:0.24, T:0.24
Consensus pattern (19 bp):
GAGACTCCTCTGCTGCCTC
Found at i:48143827 original size:2 final size:2
Alignment explanation
Indices: 48143822--48143847 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48143812 GAAGGAAAAA
48143822 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
48143848 CAAAAGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48146942 original size:24 final size:25
Alignment explanation
Indices: 48146915--48146964 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
48146905 TCAAAGCTTA
48146915 TAAAAATATAA-AAAAAATATTT-TT
1 TAAAAATA-AATAAAAAATATTTATT
*
48146939 T-AAAATAAATTAAAAATATTTATT
1 TAAAAATAAATAAAAAATATTTATT
48146963 TA
1 TA
48146965 TCTTGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
22 2 0.09
23 16 0.73
24 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TAAAAATAAATAAAAAATATTTATT
Found at i:48147674 original size:21 final size:22
Alignment explanation
Indices: 48147633--48147674 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
48147623 TAGAATAATC
*
48147633 AAAAAAGCTATAAACTATATTAA
1 AAAAAAACTATAAAC-ATATTAA
48147656 AAAAAAACTATAAAC-TATT
1 AAAAAAACTATAAACATATT
48147675 GGGTGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
23 14 0.78
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAAAACTATAAACATATTAA
Found at i:48154910 original size:20 final size:21
Alignment explanation
Indices: 48154887--48154928 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
48154877 TCCTCATTTT
48154887 ATAA-TTTTTAAAAAATTAAA
1 ATAATTTTTTAAAAAATTAAA
*
48154907 ATAATTTTTTATAAAATTAAA
1 ATAATTTTTTAAAAAATTAAA
48154928 A
1 A
48154929 AATCAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATTTTTTAAAAAATTAAA
Found at i:48161627 original size:13 final size:13
Alignment explanation
Indices: 48161606--48161641 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
48161596 TTCCACCGTC
*
48161606 CCTTGACCGAGCA
1 CCTTAACCGAGCA
48161619 CCTTAACCGAGCA
1 CCTTAACCGAGCA
48161632 CCTTAACCGA
1 CCTTAACCGA
48161642 TTGATAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.39, G:0.17, T:0.17
Consensus pattern (13 bp):
CCTTAACCGAGCA
Found at i:48163060 original size:39 final size:40
Alignment explanation
Indices: 48163006--48163086 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 40
48162996 TATGCACTCA
48163006 ATGGACACCTTTTGAAGAGTCACAA-CCCTTTCAAATTGG
1 ATGGACACCTTTTGAAGAGTCACAATCCCTTTCAAATTGG
* *
48163045 ATGGACACCTTTTGAAGAGTCACAATCCTTTTCATATTGG
1 ATGGACACCTTTTGAAGAGTCACAATCCCTTTCAAATTGG
48163085 AT
1 AT
48163087 ATACCTCTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 25 0.64
40 14 0.36
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (40 bp):
ATGGACACCTTTTGAAGAGTCACAATCCCTTTCAAATTGG
Found at i:48163101 original size:39 final size:38
Alignment explanation
Indices: 48163009--48163102 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 38
48162999 GCACTCAATG
*
48163009 GACACCTTTTGAAGAGTCACAACCCTTTCAAATTGGAT
1 GACACCTTTGGAAGAGTCACAACCCTTTCAAATTGGAT
* * *
48163047 GGACACCTTTTGAAGAGTCACAATCCTTTTCATATTGGAT
1 -GACACCTTTGGAAGAGTCACAA-CCCTTTCAAATTGGAT
*
48163087 -ATACCTCTTGGAAGAG
1 GACACCT-TTGGAAGAG
48163103 ACTTGTCTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 5 0.10
39 30 0.61
40 14 0.29
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (38 bp):
GACACCTTTGGAAGAGTCACAACCCTTTCAAATTGGAT
Found at i:48169607 original size:13 final size:13
Alignment explanation
Indices: 48169591--48169629 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
48169581 TAAAAAAAGC
48169591 ATAAATAAAAATT
1 ATAAATAAAAATT
*
48169604 ATAATTTCAAAAATT
1 ATAA-AT-AAAAATT
48169619 ATAAATAAAAA
1 ATAAATAAAAA
48169630 AACTCTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAAAAATT
Found at i:48174244 original size:17 final size:17
Alignment explanation
Indices: 48174224--48174295 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
48174214 AATAAGTTTG
48174224 AATTTATTTTAAATTGA
1 AATTTATTTTAAATTGA
* **
48174241 AATTCATTTTGAGTTTG-
1 AATTTATTTT-AAATTGA
* *
48174258 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTGA
* *
48174275 AATTTATTTTCAATTAA
1 AATTTATTTTAAATTGA
48174292 AATT
1 AATT
48174296 AATTAAAAAG
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
16 3 0.07
17 35 0.83
18 4 0.10
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTGA
Found at i:48174256 original size:34 final size:34
Alignment explanation
Indices: 48174218--48174284 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
48174208 ATTTTAAATA
*
48174218 AGTTTGAATTTATTTTAAATTGAAATTCATTTTG
1 AGTTTGAATTTACTTTAAATTGAAATTCATTTTG
* *
48174252 AGTTTGAATTTACTTTAAATTTAAATTTATTTT
1 AGTTTGAATTTACTTTAAATTGAAATTCATTTT
48174285 CAATTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (34 bp):
AGTTTGAATTTACTTTAAATTGAAATTCATTTTG
Found at i:48174549 original size:25 final size:25
Alignment explanation
Indices: 48174520--48174572 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
48174510 AACCAAGTTA
* *
48174520 CCACCACCAGCTTCAACTTGCTCTG
1 CCACCACCAGCTTCAACCTGCTCCG
48174545 CCACCACCAGCTTCAACCTGCTCCG
1 CCACCACCAGCTTCAACCTGCTCCG
48174570 CCA
1 CCA
48174573 TTATCGCCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.49, G:0.11, T:0.19
Consensus pattern (25 bp):
CCACCACCAGCTTCAACCTGCTCCG
Found at i:48174920 original size:41 final size:41
Alignment explanation
Indices: 48174869--48175067 Score: 310
Period size: 41 Copynumber: 4.9 Consensus size: 41
48174859 TAAAAAGTAG
* * *
48174869 AGCAATAGCGGCGCTTATGGGAAAGCGCAGCTAAAGGTCAG
1 AGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGATCAT
***
48174910 AGCAATAGCGGCGCTT-TCACATAAGCGCCGCTAAAGATCAT
1 AGCAATAGCGGCGCTTATGGGA-AAGCGCCGCTAAAGATCAT
*
48174951 AGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAATATCAT
1 AGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGATCAT
*
48174992 AGCAATAGCGGAGCTTATGGGAAAGCGCCGCTAAAGATCAT
1 AGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGATCAT
48175033 AGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAA
1 AGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAA
48175068 TCCCGCTCAA
Statistics
Matches: 143, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 2 0.01
41 139 0.97
42 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.17
Consensus pattern (41 bp):
AGCAATAGCGGCGCTTATGGGAAAGCGCCGCTAAAGATCAT
Found at i:48174974 original size:82 final size:82
Alignment explanation
Indices: 48174809--48175067 Score: 328
Period size: 82 Copynumber: 3.2 Consensus size: 82
48174799 CGTTTGGATA
* * * * * * * *
48174809 GAAAACGCCGCAAAAGAT-AAAGCAATAGCGGCGTTTTTACATAAACGCCG-TAAAAAGT-AGAG
1 GAAAGCGCCGCTAAAGATCAGAGCAATAGCGGCGCTTTCACATAAGCGCCGCTAAAGA-TCATAG
48174871 CAATAGCGGCGCTTATGG
65 CAATAGCGGCGCTTATGG
* *
48174889 GAAAGCGCAGCTAAAGGTCAGAGCAATAGCGGCGCTTTCACATAAGCGCCGCTAAAGATCATAGC
1 GAAAGCGCCGCTAAAGATCAGAGCAATAGCGGCGCTTTCACATAAGCGCCGCTAAAGATCATAGC
48174954 AATAGCGGCGCTTATGG
66 AATAGCGGCGCTTATGG
* * * ***
48174971 GAAAGCGCCGCTAAATATCATAGCAATAGCGGAGCTTATGGGA-AAGCGCCGCTAAAGATCATAG
1 GAAAGCGCCGCTAAAGATCAGAGCAATAGCGGCGCTT-TCACATAAGCGCCGCTAAAGATCATAG
48175035 CAATAGCGGCGCTTATGG
65 CAATAGCGGCGCTTATGG
48175053 GAAAGCGCCGCTAAA
1 GAAAGCGCCGCTAAA
48175068 TCCCGCTCAA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
80 14 0.09
81 29 0.18
82 112 0.71
83 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (82 bp):
GAAAGCGCCGCTAAAGATCAGAGCAATAGCGGCGCTTTCACATAAGCGCCGCTAAAGATCATAGC
AATAGCGGCGCTTATGG
Found at i:48178434 original size:43 final size:43
Alignment explanation
Indices: 48178270--48178584 Score: 391
Period size: 43 Copynumber: 7.3 Consensus size: 43
48178260 ATTTGTTAAT
* * *
48178270 TTTAGTGGCGTTTGTGGTAAAAGCGCCGCTACTAAAGACCAT-GTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCG---CTAAAGACCATGGTC
**
48178315 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAATATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGGTC
* * * *
48178358 TTTAGCGGCGTTTAT-GGAAAAGTGTCGCTAAAGAACATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGGTC
* * *
48178400 TTTAGCGGCCTTTGTGGGAAAAGCGCAGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGGTC
** *
48178443 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAATATGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGGTC
* *
48178486 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGGTC
* * * *
48178529 TTTAGCAGCGTTTGTAGGAAAAGCACCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGGTC
*
48178572 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
48178585 TTTCAAATAA
Statistics
Matches: 235, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
42 46 0.20
43 163 0.69
45 26 0.11
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGGTC
Found at i:48178574 original size:129 final size:128
Alignment explanation
Indices: 48178301--48178584 Score: 444
Period size: 129 Copynumber: 2.2 Consensus size: 128
48178291 AGCGCCGCTA
48178301 CTAAAGACCATGTT-TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAATATGGTCTTTAGCG
1 CTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAATATGGTCTTTAGCG
* * * * *
48178365 GCGTTTATGGAAAAGTGTCGCTAAAGAACATGGTCTTTAGCGGCCTTTGTGGGAAAAGCGCAG
66 GCGTTTATGGAAAAGCGCCGCTAAAGAACATGGTCTTTAGCAGCCTTTGTAGGAAAAGCACAG
*
48178428 CTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAATATGGTTTTTAGCG
1 CTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAATATGGTCTTTAGCG
* * * * *
48178493 GCGTTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCAGCGTTTGTAGGAAAAGCACCG
66 GCGTTTATG-GAAAAGCGCCGCTAAAGAACATGGTCTTTAGCAGCCTTTGTAGGAAAAGCACAG
*
48178557 CTAAAGACCATGTTCTTTAGCGGTGTTT
1 CTAAAGACCATGTTCTTTAGCGGCGTTT
48178585 TTTCAAATAA
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
127 14 0.10
128 57 0.40
129 72 0.50
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (128 bp):
CTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAATATGGTCTTTAGCG
GCGTTTATGGAAAAGCGCCGCTAAAGAACATGGTCTTTAGCAGCCTTTGTAGGAAAAGCACAG
Found at i:48178750 original size:140 final size:140
Alignment explanation
Indices: 48178595--48178875 Score: 553
Period size: 140 Copynumber: 2.0 Consensus size: 140
48178585 TTTCAAATAA
48178595 ACGCCGCTACTTTTAGCGGCGTTATCTTTAGCGGCATTTTTTGTGGCGCTTGTTAAAGCGCCGCT
1 ACGCCGCTACTTTTAGCGGCGTTATCTTTAGCGGCATTTTTTGTGGCGCTTGTTAAAGCGCCGCT
48178660 AATTGTTTTAGCGGCCCTTATAAGCGCCGCTATAGATCCAAAAAAACGCCACTAAAAACTTGTTT
66 AATTGTTTTAGCGGCCCTTATAAGCGCCGCTATAGATCCAAAAAAACGCCACTAAAAACTTGTTT
48178725 TCCTGTAGTG
131 TCCTGTAGTG
48178735 ACGCCGCTACTTTTAGCGGCGTTATCTTTAGCGGCATTTTTTGTGGCGCTTGTTAAAGCGCCGCT
1 ACGCCGCTACTTTTAGCGGCGTTATCTTTAGCGGCATTTTTTGTGGCGCTTGTTAAAGCGCCGCT
*
48178800 AATTGTTTTAGCGGCCCTTATAAGCGCCGCTATAGATCCAAAAAAACGCCGCTAAAAACTTGTTT
66 AATTGTTTTAGCGGCCCTTATAAGCGCCGCTATAGATCCAAAAAAACGCCACTAAAAACTTGTTT
48178865 TCCTGTAGTG
131 TCCTGTAGTG
48178875 A
1 A
48178876 TAGGAGAAAT
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (140 bp):
ACGCCGCTACTTTTAGCGGCGTTATCTTTAGCGGCATTTTTTGTGGCGCTTGTTAAAGCGCCGCT
AATTGTTTTAGCGGCCCTTATAAGCGCCGCTATAGATCCAAAAAAACGCCACTAAAAACTTGTTT
TCCTGTAGTG
Found at i:48179103 original size:3 final size:3
Alignment explanation
Indices: 48179095--48179171 Score: 68
Period size: 3 Copynumber: 25.0 Consensus size: 3
48179085 TAAATATCAT
* *
48179095 TAA TAA TAA T-A TCAA TAA TAA T-A TCAA TAA CAA TAA TAT TAA TTAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA -TAA
* *
48179141 TAA TAA TTGA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
48179172 AAAAGTTGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
2 4 0.07
3 47 0.78
4 9 0.15
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:48179111 original size:12 final size:12
Alignment explanation
Indices: 48179079--48179170 Score: 87
Period size: 12 Copynumber: 7.2 Consensus size: 12
48179069 TTTCAAAACG
48179079 TATTAATAA-ATA
1 TATTAATAATA-A
48179091 TCATTAATAATAA
1 T-ATTAATAATAA
*
48179104 TATCAATAATAA
1 TATTAATAATAA
*
48179116 TATCAATAACAATAA
1 TAT---TAATAATAA
48179131 TATTAATTAATAA
1 TATTAA-TAATAA
*
48179144 TAATTGATAATAA
1 T-ATTAATAATAA
48179157 TATTAATAATAA
1 TATTAATAATAA
48179169 TA
1 TA
48179171 AAAAAGTTGA
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
12 29 0.43
13 23 0.34
14 5 0.07
15 10 0.15
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (12 bp):
TATTAATAATAA
Found at i:48180283 original size:29 final size:29
Alignment explanation
Indices: 48180237--48180621 Score: 105
Period size: 29 Copynumber: 13.1 Consensus size: 29
48180227 CCCTAGAGGT
*
48180237 CCCTAAACTATCCAAAAATTACATTTTTAC
1 CCCTAAAC-CTCCAAAAATTACATTTTTAC
*
48180267 CCCTAAACCTCCAAAAATTCCATTTTTAAC
1 CCCTAAACCTCCAAAAATTACATTTTT-AC
* * **
48180297 CCCGAAACTTCTTAAAATTACCA-TTTTA-
1 CCCTAAACCTCCAAAAATTA-CATTTTTAC
** * * *
48180325 CCCTCAAATGTCCAAAATTTCCTTTTTTGAC
1 CCCT-AAACCTCCAAAAATTACATTTTT-AC
* ** * *
48180356 CCCAAAAATTTCAAAAAATAACA-TTTTAC
1 CCC-TAAACCTCCAAAAATTACATTTTTAC
** ** *
48180385 CCCCGAAGGTCTAAAAATT-CTATTTTTAAC
1 CCCTAAACCTCCAAAAATTAC-ATTTTT-AC
* * *
48180415 CCC-GAACTTTCCAAAAATTACCA-ATTTAC
1 CCCTAAAC-CTCCAAAAATTA-CATTTTTAC
* ** * * *
48180444 CCAC-GAATGTCTAAAAATTCCATTTTTGAT
1 CC-CTAAACCTCCAAAAATTACATTTTT-AC
* *
48180474 CCC-GAACCTTCCAAAAAGTAC-TATTTTAC
1 CCCTAAACC-TCCAAAAATTACAT-TTTTAC
** * *
48180503 CCCTAAATATCTAAAAATTCCATTTTTGA-
1 CCCTAAACCTCCAAAAATTACATTTTT-AC
* *
48180532 CCTTAAACCTTCCAAAAAGTACCA-TTTTAC
1 CCCTAAACC-TCCAAAAATTA-CATTTTTAC
** * * *
48180562 CCCTAAATATCTAAAAATTCCA-TTTGA-
1 CCCTAAACCTCCAAAAATTACATTTTTAC
*
48180589 CCCTGAACCTTCCAAAAATTACCA-TTTTAC
1 CCCTAAACC-TCCAAAAATTA-CATTTTTAC
48180619 CCC
1 CCC
48180622 GGATGTCTAA
Statistics
Matches: 259, Mismatches: 69, Indels: 54
0.68 0.18 0.14
Matches are distributed among these distances:
27 7 0.03
28 32 0.12
29 103 0.40
30 96 0.37
31 20 0.08
32 1 0.00
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.32
Consensus pattern (29 bp):
CCCTAAACCTCCAAAAATTACATTTTTAC
Found at i:48180694 original size:58 final size:59
Alignment explanation
Indices: 48180247--48180692 Score: 450
Period size: 59 Copynumber: 7.6 Consensus size: 59
48180237 CCCTAAACTA
** ** * * *
48180247 TCCAAAAATTA-CATTTTTACCCCTAAACCTCCAAAAATTCCATTTTTAACCCCGAAACT
1 TCCAAAAATTACCA-TTTTACCCCCGAATGTCTAAAAATTCCATTTTTGACCCCGAACCT
** * * * * * * **
48180306 TCTTAAAATTACCATTTTACCCTCAAATGTCCAAAATTTCCTTTTTTGACCCCAAAAAT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGACCCCGAACCT
* * * * * * *
48180365 TTCAAAAAATAACATTTTACCCCCGAAGGTCTAAAAATTCTATTTTTAACCCCGAACTT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGACCCCGAACCT
* * *
48180424 TCCAAAAATTACCAATTTACCCACGAATGTCTAAAAATTCCATTTTTGATCCCGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGACCCCGAACCT
* * ** * ***
48180483 TCCAAAAAGTACTATTTTACCCCTAAATATCTAAAAATTCCATTTTTGACCTTAAACCT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGACCCCGAACCT
* ** * *
48180542 TCCAAAAAGTACCATTTTACCCCTAAATATCTAAAAATTCCA--TTTGACCCTGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGACCCCGAACCT
* *
48180599 TCCAAAAATTACCATTTTA-CCCCGGATGTCTAAAAATTCCATTTTTGACCTCGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGACCCCGAACCT
* * *
48180657 TCCAAAAATTACCATTTTTCCCCCGAGTGTCCAAAA
1 TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAA
48180693 TTACCGTTTC
Statistics
Matches: 321, Mismatches: 62, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
56 18 0.06
57 31 0.10
58 31 0.10
59 239 0.74
60 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.32
Consensus pattern (59 bp):
TCCAAAAATTACCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGACCCCGAACCT
Found at i:48185230 original size:39 final size:39
Alignment explanation
Indices: 48185181--48185258 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
48185171 ATCCTTAATC
* * * *
48185181 AATTGGTTTAATTAGTTTAATCGATTGAATTATTTCGAT
1 AATTGATTTAATTAGTCTAATCAATTGAACTATTTCGAT
*
48185220 AATTGATTTAATTAGTCTGATCAATTGAACTATTTCGAT
1 AATTGATTTAATTAGTCTAATCAATTGAACTATTTCGAT
48185259 GGATATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (39 bp):
AATTGATTTAATTAGTCTAATCAATTGAACTATTTCGAT
Found at i:48189551 original size:29 final size:28
Alignment explanation
Indices: 48189519--48189581 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
48189509 AAAACGAGAC
48189519 TTTTTGAATACCCGGGGGCAAAATGGTAA
1 TTTTTGAATACCC-GGGGCAAAATGGTAA
* * ***
48189548 TTTTAGACTTTTCGGGGCAAAATGGTAA
1 TTTTTGAATACCCGGGGCAAAATGGTAA
48189576 TTTTTG
1 TTTTTG
48189582 TGAAGTCAGG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (28 bp):
TTTTTGAATACCCGGGGCAAAATGGTAA
Found at i:48189657 original size:58 final size:58
Alignment explanation
Indices: 48189561--48189759 Score: 212
Period size: 59 Copynumber: 3.4 Consensus size: 58
48189551 TAGACTTTTC
* * * *
48189561 GGGGCAAAATGGTAATTTTTGTGAAGTCAGGG-CTAAAAATGGAA-TTTGGAAAGTTTG
1 GGGGTAAAATGGTAAATTTTGGGAAATCAGGGTC-AAAAATGGAATTTTGGAAAGTTTG
* * *
48189618 GGGGTAAAATGGTAAATTTTGGCGAAA-CTGAGGTCAAAAATAGAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAAATTTTGG-GAAATCAG-GGTCAAAAATGGAATTTTGGAAAGTTTG
* * * *
48189677 GGGGTAAAACGATAAATTTTGGTGAAATCAGGGTC-AAAATGTAATTTTGGAAAGTTTT
1 GGGGTAAAATGGTAAATTTTGG-GAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTTG
48189735 GGGGTCAAAAT-GT-AATTTTGGGAAA
1 GGGGT-AAAATGGTAAATTTTGGGAAA
48189760 GTTTTGGGGT
Statistics
Matches: 119, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
56 4 0.03
57 29 0.24
58 39 0.33
59 45 0.38
60 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.29, T:0.30
Consensus pattern (58 bp):
GGGGTAAAATGGTAAATTTTGGGAAATCAGGGTCAAAAATGGAATTTTGGAAAGTTTG
Found at i:48189755 original size:19 final size:19
Alignment explanation
Indices: 48189731--48189785 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
48189721 TTTTGGAAAG
48189731 TTTTGGGGTCAAAATGTAA
1 TTTTGGGGTCAAAATGTAA
48189750 TTTT-GGG---AAA-G---
1 TTTTGGGGTCAAAATGTAA
48189761 TTTTGGGGTCAAAATGTAA
1 TTTTGGGGTCAAAATGTAA
48189780 TTTTGG
1 TTTTGG
48189786 AAAAGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 4 0.14
12 3 0.11
14 1 0.04
15 6 0.21
16 1 0.04
18 3 0.11
19 10 0.36
ACGTcount: A:0.27, C:0.04, G:0.29, T:0.40
Consensus pattern (19 bp):
TTTTGGGGTCAAAATGTAA
Found at i:48189761 original size:30 final size:30
Alignment explanation
Indices: 48189707--48189993 Score: 414
Period size: 30 Copynumber: 9.6 Consensus size: 30
48189697 GGTGAAATCA
48189707 GGGTCAAAATGTAATTTTGG-AAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
*
48189736 GGGTCAAAATGTAATTTTGGGAAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
*
48189766 GGGTCAAAATGTAATTTTGGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
* * *
48189796 GGGTTAAAATATAATTTTGAAAAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
* * *
48189826 GGGTTAAAATATAATTTTGGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
* *
48189856 GGGTCAAAATGTAATTTTGGAAAATTTTTA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
* *
48189886 GGGTTAAAATGTAATTTTGGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
* * *
48189916 GGGTTAAAATATAATTTTGAAAAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
* *
48189946 GGGTTAAAATATAATTTTGGAAAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
48189976 GGGTCAAAATGTAATTTT
1 GGGTCAAAATGTAATTTT
48189994 TGGATAATTT
Statistics
Matches: 238, Mismatches: 19, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
29 20 0.08
30 218 0.92
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTTG
Found at i:48191808 original size:17 final size:17
Alignment explanation
Indices: 48191778--48191835 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
48191768 AATTTATTCC
48191778 AAATTT-AC-CAAATTT
1 AAATTTAACACAAATTT
48191793 AAATTTAACACAAATTT
1 AAATTTAACACAAATTT
*
48191810 AAATTTAA-AAATTAATTT
1 AAATTTAACACA--AATTT
48191828 AAATTTAA
1 AAATTTAA
48191836 ATTTTAAGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
15 6 0.16
16 4 0.11
17 15 0.39
18 13 0.34
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTAACACAAATTT
Found at i:48191831 original size:24 final size:24
Alignment explanation
Indices: 48191804--48191857 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
48191794 AATTTAACAC
* *
48191804 AAATTTAAATTTAAAAATTAATTT
1 AAATTTAAATTTAAAAATAAATCT
* *
48191828 AAATTTAAATTTTAAGATAAATCT
1 AAATTTAAATTTAAAAATAAATCT
48191852 AAATTT
1 AAATTT
48191858 GTAAATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AAATTTAAATTTAAAAATAAATCT
Found at i:48191842 original size:18 final size:18
Alignment explanation
Indices: 48191809--48191875 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
48191799 AACACAAATT
** *
48191809 TAAATTTAAAAATTAATT
1 TAAATTTAAATTTTAATA
*
48191827 TAAATTTAAATTTTAAGA
1 TAAATTTAAATTTTAATA
*
48191845 TAAATCTAAATTTGTAA-A
1 TAAATTTAAATTT-TAATA
48191863 TAAATTTAGAATT
1 TAAATTTA-AATT
48191876 AACTTAAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 34 0.83
19 7 0.17
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (18 bp):
TAAATTTAAATTTTAATA
Found at i:48205009 original size:24 final size:24
Alignment explanation
Indices: 48204981--48205043 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
48204971 AGAAATAATC
48204981 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
*
48205005 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
48205029 TTTAAGTCAAACTCT
1 TTTCAGTTAAACTCT
48205044 TATTGGTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTG
Found at i:48207278 original size:31 final size:30
Alignment explanation
Indices: 48207225--48207284 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
48207215 CGTGACTTAA
* * *
48207225 AAAACTTTTAAATAGTTTAATGACTTAAATG
1 AAAACTTTCAAATAATTCAATGAC-TAAATG
*
48207256 AAAACTTTCGAATAATTCAATGACTAAAT
1 AAAACTTTCAAATAATTCAATGACTAAAT
48207285 TGTAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (30 bp):
AAAACTTTCAAATAATTCAATGACTAAATG
Found at i:48209792 original size:21 final size:22
Alignment explanation
Indices: 48209755--48209795 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
48209745 TGTGACAATT
*
48209755 TTTTTAAATCATGTTATTTAAG
1 TTTTTAAATCATATTATTTAAG
48209777 TTTTTAAAT-ATATTATTTA
1 TTTTTAAATCATATTATTTA
48209796 GGTGAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (22 bp):
TTTTTAAATCATATTATTTAAG
Found at i:48214593 original size:22 final size:22
Alignment explanation
Indices: 48214567--48214610 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
48214557 AAATTATCAC
48214567 CCATTTTTGTAAATTCGACCCT
1 CCATTTTTGTAAATTCGACCCT
48214589 CCATTTTTGTAAATTCGACCCT
1 CCATTTTTGTAAATTCGACCCT
48214611 ACTCACTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (22 bp):
CCATTTTTGTAAATTCGACCCT
Found at i:48216337 original size:23 final size:24
Alignment explanation
Indices: 48216305--48216364 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 24
48216295 CCTGAGCCCA
*
48216305 TGAAAAGAACTGATTC-TGTTCCT
1 TGAAAAGAACTGATTCATATTCCT
*
48216328 TGAAAGGAACTGA-TCATATTCCT
1 TGAAAAGAACTGATTCATATTCCT
48216351 TGAAAAGAACTGAT
1 TGAAAAGAACTGAT
48216365 CGCTACTCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.06
23 30 0.94
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (24 bp):
TGAAAAGAACTGATTCATATTCCT
Found at i:48216436 original size:23 final size:23
Alignment explanation
Indices: 48216410--48216479 Score: 140
Period size: 23 Copynumber: 3.0 Consensus size: 23
48216400 TAAAAAGCTC
48216410 CCATTCTAAATTACACTTTGACA
1 CCATTCTAAATTACACTTTGACA
48216433 CCATTCTAAATTACACTTTGACA
1 CCATTCTAAATTACACTTTGACA
48216456 CCATTCTAAATTACACTTTGACA
1 CCATTCTAAATTACACTTTGACA
48216479 C
1 C
48216480 ACTTTCAGCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.34
Consensus pattern (23 bp):
CCATTCTAAATTACACTTTGACA
Found at i:48216871 original size:23 final size:24
Alignment explanation
Indices: 48216845--48216901 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
48216835 TATAATTTAT
*
48216845 TATTAATATTTTAATATAT-GAAA
1 TATTAATATTTAAATATATCGAAA
* *
48216868 TATTAAT-TTTAAATATTTCTAAA
1 TATTAATATTTAAATATATCGAAA
48216891 TAATTAATATT
1 T-ATTAATATT
48216902 AATTATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 11 0.39
24 6 0.21
25 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TATTAATATTTAAATATATCGAAA
Found at i:48216903 original size:24 final size:23
Alignment explanation
Indices: 48216865--48216976 Score: 71
Period size: 21 Copynumber: 5.1 Consensus size: 23
48216855 TTAATATATG
* *
48216865 AAATATTAATTTTAAATATTTCT
1 AAATATTAATATTAAATATTTAT
*
48216888 AAATAATTAATATTAATTATTTAT
1 AAAT-ATTAATATTAAATATTTAT
*
48216912 AAA-ATTTA-ATTAGAATA--TAT
1 AAATATTAATATTA-AATATTTAT
*
48216932 AAACTA-T-ATTTTAAATATTTA-
1 AAA-TATTAATATTAAATATTTAT
*
48216953 AATATATT--CATTAAATATTTAT
1 AA-ATATTAATATTAAATATTTAT
48216975 AA
1 AA
48216977 TTAAATATTA
Statistics
Matches: 71, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
20 11 0.15
21 23 0.32
22 14 0.20
23 4 0.06
24 19 0.27
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (23 bp):
AAATATTAATATTAAATATTTAT
Done.